id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 15628 ChimeraX bug report submission jean.millet@… "{{{ The following bug report has been submitted: Platform: macOS-14.5-x86_64-i386-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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\n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 212.2M 156 \n__OBJC_RO 71.8M 1 \n__OBJC_RW 2200K 2 \n__TEXT 1.0G 804 \ndyld private memory 552K 9 \nmapped file 229.1M 70 \nshared memory 3012K 32 \n=========== ======= ======= \nTOTAL 54.9G 3448 \nTOTAL, minus reserved VM space 54.9G 3448 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""8071ce58fceff1ea152430ccb08a9c3180a353b9"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""648c94d4ebdf9e3e398fa708"", ""factorPackIds"" : { ""SIRI_UNDERSTANDING_NL_OVERRIDES"" : ""65a8104b6712a43e7922cab8"" }, ""deploymentId"" : 240000171 }, { ""rolloutId"" : ""639124e81d92412bfb4880b3"", ""factorPackIds"" : { }, ""deploymentId"" : 240000012 } ], ""experiments"" : [ { ""treatmentId"" : ""c47ab4cc-c9c3-4b5d-a87c-e2433ce02597"", ""experimentId"" : ""6639bc6ba73d460582162323"", ""deploymentId"" : 400000006 } ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Wed Jul 17 16:12:00 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Wed Jul 17 13:58:06 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Tue Jul 16 18:02:55 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Mon Jul 15 16:59:09 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Mon Jul 15 16:48:15 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Mon Jul 15 14:11:54 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Sun Jul 14 15:37:22 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Sun Jul 14 15:13:35 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" format session Log from Sun Jul 14 14:55:26 2024 Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/Jean/Desktop/3j0c.pdb1 3j0c.pdb1 title: Models of E1, E2 and CP of venezuelan equine encephalitis virus Tc-83 strain restrained by A near atomic resolution cryo-em map [more info...] Chain information for 3j0c.pdb1 --- Chain | Description 1.1/A 1.2/A 1.3/A 1.4/A 1.5/A 1.6/A 1.7/A 1.8/A 1.9/A 1.10/A 1.11/A 1.12/A 1.13/A 1.14/A 1.15/A 1.16/A 1.17/A 1.18/A 1.19/A 1.20/A 1.21/A 1.22/A 1.23/A 1.24/A 1.25/A 1.26/A 1.27/A 1.28/A 1.29/A 1.30/A 1.31/A 1.32/A 1.33/A 1.34/A 1.35/A 1.36/A 1.37/A 1.38/A 1.39/A 1.40/A 1.41/A 1.42/A 1.43/A 1.44/A 1.45/A 1.46/A 1.47/A 1.48/A 1.49/A 1.50/A 1.51/A 1.52/A 1.53/A 1.54/A 1.55/A 1.56/A 1.57/A 1.58/A 1.59/A 1.60/A 1.1/D 1.2/D 1.3/D 1.4/D 1.5/D 1.6/D 1.7/D 1.8/D 1.9/D 1.10/D 1.11/D 1.12/D 1.13/D 1.14/D 1.15/D 1.16/D 1.17/D 1.18/D 1.19/D 1.20/D 1.21/D 1.22/D 1.23/D 1.24/D 1.25/D 1.26/D 1.27/D 1.28/D 1.29/D 1.30/D 1.31/D 1.32/D 1.33/D 1.34/D 1.35/D 1.36/D 1.37/D 1.38/D 1.39/D 1.40/D 1.41/D 1.42/D 1.43/D 1.44/D 1.45/D 1.46/D 1.47/D 1.48/D 1.49/D 1.50/D 1.51/D 1.52/D 1.53/D 1.54/D 1.55/D 1.56/D 1.57/D 1.58/D 1.59/D 1.60/D 1.1/G 1.2/G 1.3/G 1.4/G 1.5/G 1.6/G 1.7/G 1.8/G 1.9/G 1.10/G 1.11/G 1.12/G 1.13/G 1.14/G 1.15/G 1.16/G 1.17/G 1.18/G 1.19/G 1.20/G 1.21/G 1.22/G 1.23/G 1.24/G 1.25/G 1.26/G 1.27/G 1.28/G 1.29/G 1.30/G 1.31/G 1.32/G 1.33/G 1.34/G 1.35/G 1.36/G 1.37/G 1.38/G 1.39/G 1.40/G 1.41/G 1.42/G 1.43/G 1.44/G 1.45/G 1.46/G 1.47/G 1.48/G 1.49/G 1.50/G 1.51/G 1.52/G 1.53/G 1.54/G 1.55/G 1.56/G 1.57/G 1.58/G 1.59/G 1.60/G 1.1/J 1.2/J 1.3/J 1.4/J 1.5/J 1.6/J 1.7/J 1.8/J 1.9/J 1.10/J 1.11/J 1.12/J 1.13/J 1.14/J 1.15/J 1.16/J 1.17/J 1.18/J 1.19/J 1.20/J 1.21/J 1.22/J 1.23/J 1.24/J 1.25/J 1.26/J 1.27/J 1.28/J 1.29/J 1.30/J 1.31/J 1.32/J 1.33/J 1.34/J 1.35/J 1.36/J 1.37/J 1.38/J 1.39/J 1.40/J 1.41/J 1.42/J 1.43/J 1.44/J 1.45/J 1.46/J 1.47/J 1.48/J 1.49/J 1.50/J 1.51/J 1.52/J 1.53/J 1.54/J 1.55/J 1.56/J 1.57/J 1.58/J 1.59/J 1.60/J | No description available 1.1/B 1.2/B 1.3/B 1.4/B 1.5/B 1.6/B 1.7/B 1.8/B 1.9/B 1.10/B 1.11/B 1.12/B 1.13/B 1.14/B 1.15/B 1.16/B 1.17/B 1.18/B 1.19/B 1.20/B 1.21/B 1.22/B 1.23/B 1.24/B 1.25/B 1.26/B 1.27/B 1.28/B 1.29/B 1.30/B 1.31/B 1.32/B 1.33/B 1.34/B 1.35/B 1.36/B 1.37/B 1.38/B 1.39/B 1.40/B 1.41/B 1.42/B 1.43/B 1.44/B 1.45/B 1.46/B 1.47/B 1.48/B 1.49/B 1.50/B 1.51/B 1.52/B 1.53/B 1.54/B 1.55/B 1.56/B 1.57/B 1.58/B 1.59/B 1.60/B 1.1/E 1.2/E 1.3/E 1.4/E 1.5/E 1.6/E 1.7/E 1.8/E 1.9/E 1.10/E 1.11/E 1.12/E 1.13/E 1.14/E 1.15/E 1.16/E 1.17/E 1.18/E 1.19/E 1.20/E 1.21/E 1.22/E 1.23/E 1.24/E 1.25/E 1.26/E 1.27/E 1.28/E 1.29/E 1.30/E 1.31/E 1.32/E 1.33/E 1.34/E 1.35/E 1.36/E 1.37/E 1.38/E 1.39/E 1.40/E 1.41/E 1.42/E 1.43/E 1.44/E 1.45/E 1.46/E 1.47/E 1.48/E 1.49/E 1.50/E 1.51/E 1.52/E 1.53/E 1.54/E 1.55/E 1.56/E 1.57/E 1.58/E 1.59/E 1.60/E 1.1/H 1.2/H 1.3/H 1.4/H 1.5/H 1.6/H 1.7/H 1.8/H 1.9/H 1.10/H 1.11/H 1.12/H 1.13/H 1.14/H 1.15/H 1.16/H 1.17/H 1.18/H 1.19/H 1.20/H 1.21/H 1.22/H 1.23/H 1.24/H 1.25/H 1.26/H 1.27/H 1.28/H 1.29/H 1.30/H 1.31/H 1.32/H 1.33/H 1.34/H 1.35/H 1.36/H 1.37/H 1.38/H 1.39/H 1.40/H 1.41/H 1.42/H 1.43/H 1.44/H 1.45/H 1.46/H 1.47/H 1.48/H 1.49/H 1.50/H 1.51/H 1.52/H 1.53/H 1.54/H 1.55/H 1.56/H 1.57/H 1.58/H 1.59/H 1.60/H 1.1/K 1.2/K 1.3/K 1.4/K 1.5/K 1.6/K 1.7/K 1.8/K 1.9/K 1.10/K 1.11/K 1.12/K 1.13/K 1.14/K 1.15/K 1.16/K 1.17/K 1.18/K 1.19/K 1.20/K 1.21/K 1.22/K 1.23/K 1.24/K 1.25/K 1.26/K 1.27/K 1.28/K 1.29/K 1.30/K 1.31/K 1.32/K 1.33/K 1.34/K 1.35/K 1.36/K 1.37/K 1.38/K 1.39/K 1.40/K 1.41/K 1.42/K 1.43/K 1.44/K 1.45/K 1.46/K 1.47/K 1.48/K 1.49/K 1.50/K 1.51/K 1.52/K 1.53/K 1.54/K 1.55/K 1.56/K 1.57/K 1.58/K 1.59/K 1.60/K | No description available 1.1/C 1.2/C 1.3/C 1.4/C 1.5/C 1.6/C 1.7/C 1.8/C 1.9/C 1.10/C 1.11/C 1.12/C 1.13/C 1.14/C 1.15/C 1.16/C 1.17/C 1.18/C 1.19/C 1.20/C 1.21/C 1.22/C 1.23/C 1.24/C 1.25/C 1.26/C 1.27/C 1.28/C 1.29/C 1.30/C 1.31/C 1.32/C 1.33/C 1.34/C 1.35/C 1.36/C 1.37/C 1.38/C 1.39/C 1.40/C 1.41/C 1.42/C 1.43/C 1.44/C 1.45/C 1.46/C 1.47/C 1.48/C 1.49/C 1.50/C 1.51/C 1.52/C 1.53/C 1.54/C 1.55/C 1.56/C 1.57/C 1.58/C 1.59/C 1.60/C 1.1/F 1.2/F 1.3/F 1.4/F 1.5/F 1.6/F 1.7/F 1.8/F 1.9/F 1.10/F 1.11/F 1.12/F 1.13/F 1.14/F 1.15/F 1.16/F 1.17/F 1.18/F 1.19/F 1.20/F 1.21/F 1.22/F 1.23/F 1.24/F 1.25/F 1.26/F 1.27/F 1.28/F 1.29/F 1.30/F 1.31/F 1.32/F 1.33/F 1.34/F 1.35/F 1.36/F 1.37/F 1.38/F 1.39/F 1.40/F 1.41/F 1.42/F 1.43/F 1.44/F 1.45/F 1.46/F 1.47/F 1.48/F 1.49/F 1.50/F 1.51/F 1.52/F 1.53/F 1.54/F 1.55/F 1.56/F 1.57/F 1.58/F 1.59/F 1.60/F 1.1/I 1.2/I 1.3/I 1.4/I 1.5/I 1.6/I 1.7/I 1.8/I 1.9/I 1.10/I 1.11/I 1.12/I 1.13/I 1.14/I 1.15/I 1.16/I 1.17/I 1.18/I 1.19/I 1.20/I 1.21/I 1.22/I 1.23/I 1.24/I 1.25/I 1.26/I 1.27/I 1.28/I 1.29/I 1.30/I 1.31/I 1.32/I 1.33/I 1.34/I 1.35/I 1.36/I 1.37/I 1.38/I 1.39/I 1.40/I 1.41/I 1.42/I 1.43/I 1.44/I 1.45/I 1.46/I 1.47/I 1.48/I 1.49/I 1.50/I 1.51/I 1.52/I 1.53/I 1.54/I 1.55/I 1.56/I 1.57/I 1.58/I 1.59/I 1.60/I 1.1/L 1.2/L 1.3/L 1.4/L 1.5/L 1.6/L 1.7/L 1.8/L 1.9/L 1.10/L 1.11/L 1.12/L 1.13/L 1.14/L 1.15/L 1.16/L 1.17/L 1.18/L 1.19/L 1.20/L 1.21/L 1.22/L 1.23/L 1.24/L 1.25/L 1.26/L 1.27/L 1.28/L 1.29/L 1.30/L 1.31/L 1.32/L 1.33/L 1.34/L 1.35/L 1.36/L 1.37/L 1.38/L 1.39/L 1.40/L 1.41/L 1.42/L 1.43/L 1.44/L 1.45/L 1.46/L 1.47/L 1.48/L 1.49/L 1.50/L 1.51/L 1.52/L 1.53/L 1.54/L 1.55/L 1.56/L 1.57/L 1.58/L 1.59/L 1.60/L | No description available > set bgColor white > save /Users/Jean/Desktop/image1.png supersample 3 > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Sun Jul 14 14:55:26 2024 ——— opened ChimeraX session > hide cartoons > hide atoms > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > ui tool show Matchmaker > show sel cartoons > view sel > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #2 --- Chain | Description A | No description available > matchmaker #2 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 1-421.pdb, chain A (#2), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #3 --- Chain | Description A | No description available > matchmaker #3 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 422-461.pdb, chain A (#3), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > select #1.1/B 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #4 --- Chain | Description B | No description available > matchmaker #4 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.1) with AF3 E2 1-352.pdb, chain B (#4), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #5 --- Chain | Description B | No description available > matchmaker #5 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.1) with AF3 E2 353-438.pdb, chain B (#5), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Sun Jul 14 15:13:35 2024 ——— opened ChimeraX session > select #1.1/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #6 --- Chain | Description A | No description available > ui tool show Matchmaker > matchmaker #6 to #1.1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.1) with AF3 CA.pdb, chain A (#6), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > matchmaker #6 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.1) with AF3 CA.pdb, chain A (#6), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Sun Jul 14 15:37:22 2024 ——— opened ChimeraX session > color #2 dodgerblue > color #3 dodgerblue > color #4 #00b305ff > color #5 #00b305ff > color #6 #f15839ff > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.1/B 3304 atoms, 3400 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.1/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > hide sel cartoons > ui tool show Matchmaker > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #7 --- Chain | Description A | No description available > select #1.2/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #7 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.2) with AF3 E1 1-421.pdb, chain A (#7), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #8 --- Chain | Description A | No description available > matchmaker #8 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.2) with AF3 E1 422-461.pdb, chain A (#8), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > select #1.2/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #9 --- Chain | Description B | No description available > matchmaker #9 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.2) with AF3 E2 1-352.pdb, chain B (#9), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #10 --- Chain | Description B | No description available > matchmaker #10 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.2) with AF3 E2 353-438.pdb, chain B (#10), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > select clear > select #1.2/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #11 --- Chain | Description A | No description available > matchmaker #10 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.2) with AF3 E2 353-438.pdb, chain B (#10), sequence alignment score = 16.2 RMSD between 8 pruned atom pairs is 0.563 angstroms; (across all 28 pairs: 19.587) > select #1.2/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > matchmaker #10 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.2) with AF3 E2 353-438.pdb, chain B (#10), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.2/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #11 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.2) with AF3 CA.pdb, chain A (#11), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.2/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.2/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #7 dodgerblue > color #8 dodgerblue > color #9 #00b305ff > color #10 #00b305ff > color #11 #f15839ff > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > select #1.3/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > select #1.4/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Mon Jul 15 14:11:54 2024 ——— opened ChimeraX session > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view sel > lighting soft > set bgColor black > lighting full > lighting soft > lighting simple > lighting soft > lighting full > view sel > view > select #1.4/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > hide sel cartoons > show sel cartoons > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #12 --- Chain | Description A | No description available > matchmaker #12 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.3) with AF3 E1 1-421.pdb, chain A (#12), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #13 --- Chain | Description A | No description available > matchmaker #12 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.3) with AF3 E1 1-421.pdb, chain A (#12), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > matchmaker #13 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.3) with AF3 E1 422-461.pdb, chain A (#13), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > select #1.3/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #14 --- Chain | Description B | No description available > matchmaker #14 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.3) with AF3 E2 1-352.pdb, chain B (#14), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > matchmaker #14 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.3) with AF3 E2 1-352.pdb, chain B (#14), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #15 --- Chain | Description B | No description available > matchmaker #15 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.3) with AF3 E2 353-438.pdb, chain B (#15), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #16 --- Chain | Description A | No description available > matchmaker #16 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.3) with AF3 CA.pdb, chain A (#16), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > hide #12 models > show #12 models > color #12 dodgerblue > color #13 dodgerblue > color #14 #00b305ff > color #15 #00b305ff > color #16 #f15839ff > select #1.4/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #17 --- Chain | Description A | No description available > matchmaker #17 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.4) with AF3 E1 1-421.pdb, chain A (#17), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #18 --- Chain | Description A | No description available > matchmaker #18 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.4) with AF3 E1 422-461.pdb, chain A (#18), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.4/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #19 --- Chain | Description B | No description available > matchmaker #19 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.4) with AF3 E2 1-352.pdb, chain B (#19), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #20 --- Chain | Description B | No description available > matchmaker #20 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.4) with AF3 E2 353-438.pdb, chain B (#20), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.4/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #21 --- Chain | Description A | No description available > matchmaker #21 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.4) with AF3 CA.pdb, chain A (#21), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.4/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #17 dodgerblue > color #18 dodgerblue > color #19 #00b305ff > color #20 #00b305ff > color #21 #f15839ff > select #1.5/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #22 --- Chain | Description A | No description available > matchmaker #22 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.5) with AF3 E1 1-421.pdb, chain A (#22), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #23 --- Chain | Description A | No description available > matchmaker #23 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.5) with AF3 E1 422-461.pdb, chain A (#23), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > select #1.5/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #24 --- Chain | Description B | No description available > matchmaker #24 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.5) with AF3 E2 1-352.pdb, chain B (#24), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #25 --- Chain | Description B | No description available > matchmaker #25 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.5) with AF3 E2 353-438.pdb, chain B (#25), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.5/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.5/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #26 --- Chain | Description A | No description available > matchmaker #26 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.5) with AF3 CA.pdb, chain A (#26), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #22 dodgerblue > color #23 dodgerblue > color #24 #00b305ff > color #25 #00b305ff > color #26 #f15839ff > select #1.6/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #27 --- Chain | Description A | No description available > matchmaker #27 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.6) with AF3 E1 1-421.pdb, chain A (#27), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #28 --- Chain | Description A | No description available > matchmaker #28 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.6) with AF3 E1 422-461.pdb, chain A (#28), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.6/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #29 --- Chain | Description B | No description available > matchmaker #29 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.6) with AF3 E2 1-352.pdb, chain B (#29), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #30 --- Chain | Description B | No description available > matchmaker #30 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.6) with AF3 E2 353-438.pdb, chain B (#30), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.6/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #31 --- Chain | Description A | No description available > matchmaker #31 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.6) with AF3 CA.pdb, chain A (#31), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #27 dodgerblue > color #28 dodgerblue > color #29 #00b305ff > color #30 #00b305ff > color #31 #f15839ff > select #1.7/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #32 --- Chain | Description A | No description available > matchmaker #32 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.7) with AF3 E1 1-421.pdb, chain A (#32), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #33 --- Chain | Description A | No description available > matchmaker #33 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.7) with AF3 E1 422-461.pdb, chain A (#33), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.7/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #34 --- Chain | Description B | No description available > matchmaker #34 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.7) with AF3 E2 1-352.pdb, chain B (#34), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #35 --- Chain | Description B | No description available > matchmaker #35 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.7) with AF3 E2 353-438.pdb, chain B (#35), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.7/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #36 --- Chain | Description A | No description available > matchmaker #36 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.7) with AF3 CA.pdb, chain A (#36), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #32 models > color #32 dodgerblue > color #33 dodgerblue > color #34 #00b305ff > color #35 #00b305ff > color #36 #f15839ff > select #1.8/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #37 --- Chain | Description A | No description available > matchmaker #37 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.8) with AF3 E1 1-421.pdb, chain A (#37), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #38 --- Chain | Description A | No description available > matchmaker #38 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.8) with AF3 E1 422-461.pdb, chain A (#38), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.8/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #39 --- Chain | Description B | No description available > matchmaker #39 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.8) with AF3 E2 1-352.pdb, chain B (#39), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #40 --- Chain | Description B | No description available > matchmaker #40 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.8) with AF3 E2 353-438.pdb, chain B (#40), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons [Repeated 1 time(s)] > select #1.8/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #41 --- Chain | Description A | No description available > matchmaker #41 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.8) with AF3 CA.pdb, chain A (#41), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > show #32 models > color #37 dodgerblue > color #38 dodgerblue > color #39 #00b305ff > color #40 #00b305ff > color #41 #f15839ff > select #1.9/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #42 --- Chain | Description A | No description available > matchmaker #42 to #1.8 & sel No 'to' model specified > matchmaker #42 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.9) with AF3 E1 1-421.pdb, chain A (#42), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #43 --- Chain | Description A | No description available > matchmaker #43 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.9) with AF3 E1 422-461.pdb, chain A (#43), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.9/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #44 --- Chain | Description B | No description available > matchmaker #44 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.9) with AF3 E2 1-352.pdb, chain B (#44), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #45 --- Chain | Description B | No description available > matchmaker #45 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.9) with AF3 E2 353-438.pdb, chain B (#45), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.9/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #46 --- Chain | Description A | No description available > matchmaker #46 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.9) with AF3 CA.pdb, chain A (#46), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #42 models > show #42 models > color #42 dodgerblue > color #43 dodgerblue > color #44 #00b305ff > color #45 #00b305ff > color #46 #f15839ff > select #1.10/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #47 --- Chain | Description A | No description available > matchmaker #47 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 1-421.pdb, chain A (#47), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #48 --- Chain | Description A | No description available > matchmaker #47 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 1-421.pdb, chain A (#47), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #47 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 1-421.pdb, chain A (#47), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #48 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 422-461.pdb, chain A (#48), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.10/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #49 --- Chain | Description B | No description available > matchmaker #49 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.10) with AF3 E2 1-352.pdb, chain B (#49), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #50 --- Chain | Description B | No description available > matchmaker #50 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.10) with AF3 E2 353-438.pdb, chain B (#50), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.10/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #51 --- Chain | Description A | No description available > matchmaker #51 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.10) with AF3 CA.pdb, chain A (#51), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #47 dodgerblue > color #48 dodgerblue > color #49 #00b305ff > color #50 #00b305ff > color #51 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.11/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #52 --- Chain | Description A | No description available > matchmaker #52 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.11) with AF3 E1 1-421.pdb, chain A (#52), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #53 --- Chain | Description A | No description available > matchmaker #53 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.11) with AF3 E1 422-461.pdb, chain A (#53), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.11/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #54 --- Chain | Description B | No description available > matchmaker #54 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.11) with AF3 E2 1-352.pdb, chain B (#54), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #55 --- Chain | Description B | No description available > matchmaker #55 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.11) with AF3 E2 353-438.pdb, chain B (#55), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.11/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #56 --- Chain | Description A | No description available > matchmaker #56 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.11) with AF3 CA.pdb, chain A (#56), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #52 dodgerblue > color #53 dodgerblue > color #54 #00b305ff > color #55 #00b305ff > color #56 #f15839ff > select #1.12/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #57 --- Chain | Description A | No description available > matchmaker #57 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.12) with AF3 E1 1-421.pdb, chain A (#57), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #58 --- Chain | Description A | No description available > matchmaker #58 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.12) with AF3 E1 422-461.pdb, chain A (#58), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.12/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #59 --- Chain | Description B | No description available > matchmaker #59 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.12) with AF3 E2 1-352.pdb, chain B (#59), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #60 --- Chain | Description B | No description available > matchmaker #60 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.12) with AF3 E2 353-438.pdb, chain B (#60), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.12/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #61 --- Chain | Description A | No description available > matchmaker #61 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.12) with AF3 CA.pdb, chain A (#61), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #57 models > show #57 models > color #57 dodgerblue > color #58 dodgerblue > color #59 #00b305ff > color #60 #00b305ff > color #61 #f15839ff > select #1.13/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #62 --- Chain | Description A | No description available > matchmaker #62 to #1.12 & sel No 'to' model specified > matchmaker #62 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.13) with AF3 E1 1-421.pdb, chain A (#62), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #63 --- Chain | Description A | No description available > matchmaker #63 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.13) with AF3 E1 422-461.pdb, chain A (#63), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.13/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #64 --- Chain | Description B | No description available > matchmaker #64 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.13) with AF3 E2 1-352.pdb, chain B (#64), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #65 --- Chain | Description B | No description available > matchmaker #65 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.13) with AF3 E2 353-438.pdb, chain B (#65), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.13/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #66 --- Chain | Description A | No description available > matchmaker #66 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.13) with AF3 CA.pdb, chain A (#66), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.13/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #62 dodgerblue > color #63 dodgerblue > color #64 #00b305ff > color #65 #00b305ff > color #66 #f15839ff > select #1.14/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #67 --- Chain | Description A | No description available > matchmaker #67 to #1.13 & sel No 'to' model specified > matchmaker #67 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.14) with AF3 E1 1-421.pdb, chain A (#67), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #68 --- Chain | Description A | No description available > matchmaker #68 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.14) with AF3 E1 422-461.pdb, chain A (#68), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.14/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #69 --- Chain | Description B | No description available > matchmaker #69 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.14) with AF3 E2 1-352.pdb, chain B (#69), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #70 --- Chain | Description B | No description available > matchmaker #70 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.14) with AF3 E2 353-438.pdb, chain B (#70), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.14/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #71 --- Chain | Description A | No description available > matchmaker #71 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.14) with AF3 CA.pdb, chain A (#71), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #67 dodgerblue > color #68 dodgerblue > color #69 #00b305ff > color #70 #00b305ff > color #71 #f15839ff > select #1.15/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #72 --- Chain | Description A | No description available > matchmaker #72 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.15) with AF3 E1 1-421.pdb, chain A (#72), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #73 --- Chain | Description A | No description available > matchmaker #73 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.15) with AF3 E1 422-461.pdb, chain A (#73), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.15/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #74 --- Chain | Description B | No description available > matchmaker #74 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.15) with AF3 E2 1-352.pdb, chain B (#74), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #75 --- Chain | Description B | No description available > matchmaker #75 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.15) with AF3 E2 353-438.pdb, chain B (#75), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.15/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #76 --- Chain | Description A | No description available > matchmaker #76 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.15) with AF3 CA.pdb, chain A (#76), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #72 dodgerblue > color #73 dodgerblue > color #74 #00b305ff > color #75 #00b305ff > color #76 #f15839ff > select #1.16/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #77 --- Chain | Description A | No description available > matchmaker #77 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.16) with AF3 E1 1-421.pdb, chain A (#77), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #78 --- Chain | Description A | No description available > matchmaker #78 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.16) with AF3 E1 422-461.pdb, chain A (#78), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.16/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #79 --- Chain | Description B | No description available > matchmaker #79 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.16) with AF3 E2 1-352.pdb, chain B (#79), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #80 --- Chain | Description B | No description available > matchmaker #80 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.16) with AF3 E2 353-438.pdb, chain B (#80), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.16/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #81 --- Chain | Description A | No description available > matchmaker #81 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.16) with AF3 CA.pdb, chain A (#81), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #77 dodgerblue > color #78 dodgerblue > color #79 #00b305ff > color #80 #00b305ff > color #81 #f15839ff > select #1.17/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #82 --- Chain | Description A | No description available > matchmaker #82 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.17) with AF3 E1 1-421.pdb, chain A (#82), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #83 --- Chain | Description A | No description available > matchmaker #83 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.17) with AF3 E1 422-461.pdb, chain A (#83), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.17/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #84 --- Chain | Description B | No description available > matchmaker #84 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.17) with AF3 E2 1-352.pdb, chain B (#84), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #85 --- Chain | Description B | No description available > matchmaker #85 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.17) with AF3 E2 353-438.pdb, chain B (#85), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.17/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #86 --- Chain | Description A | No description available > matchmaker #86 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.17) with AF3 CA.pdb, chain A (#86), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #82 dodgerblue > color #83 dodgerblue > color #84 #00b305ff > color #85 #00b305ff > color #86 #f15839ff > select #1.18/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #87 --- Chain | Description A | No description available > matchmaker #87 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.18) with AF3 E1 1-421.pdb, chain A (#87), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #88 --- Chain | Description A | No description available > matchmaker #88 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.18) with AF3 E1 422-461.pdb, chain A (#88), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.18/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #89 --- Chain | Description B | No description available > matchmaker #89 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.18) with AF3 E2 1-352.pdb, chain B (#89), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #90 --- Chain | Description B | No description available > matchmaker #90 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.18) with AF3 E2 353-438.pdb, chain B (#90), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.18/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #91 --- Chain | Description A | No description available > matchmaker #91 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.18) with AF3 CA.pdb, chain A (#91), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #87 dodgerblue > color #88 dodgerblue > color #89 #00b305ff > color #90 #00b305ff > color #91 #f15839ff > select #1.19/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #92 --- Chain | Description A | No description available > matchmaker #92 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.19) with AF3 E1 1-421.pdb, chain A (#92), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #93 --- Chain | Description A | No description available > matchmaker #93 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.19) with AF3 E1 422-461.pdb, chain A (#93), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.19/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #94 --- Chain | Description B | No description available > matchmaker #94 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.19) with AF3 E2 1-352.pdb, chain B (#94), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #95 --- Chain | Description B | No description available > matchmaker #95 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.19) with AF3 E2 353-438.pdb, chain B (#95), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.19/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #96 --- Chain | Description A | No description available > matchmaker #96 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.19) with AF3 CA.pdb, chain A (#96), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #92 dodgerblue > color #93 dodgerblue > color #94 dodgerblue > color #94 #00b305ff > color #95 #00b305ff > color #96 #f15839ff > select #1.20/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #97 --- Chain | Description A | No description available > matchmaker #97 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.20) with AF3 E1 1-421.pdb, chain A (#97), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #98 --- Chain | Description A | No description available > matchmaker #98 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.20) with AF3 E1 422-461.pdb, chain A (#98), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.20/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #99 --- Chain | Description B | No description available > matchmaker #99 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.20) with AF3 E2 1-352.pdb, chain B (#99), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #100 --- Chain | Description B | No description available > matchmaker #100 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.20) with AF3 E2 353-438.pdb, chain B (#100), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.20/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #101 --- Chain | Description A | No description available > matchmaker #101 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.20) with AF3 CA.pdb, chain A (#101), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #97 dodgerblue > color #98 dodgerblue > color #99 #00b305ff > color #100 #00b305ff > color #101 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.21/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #102 --- Chain | Description A | No description available > matchmaker #102 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.21) with AF3 E1 1-421.pdb, chain A (#102), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #103 --- Chain | Description A | No description available > matchmaker #103 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.21) with AF3 E1 422-461.pdb, chain A (#103), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.21/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #104 --- Chain | Description B | No description available > matchmaker #104 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.21) with AF3 E2 1-352.pdb, chain B (#104), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #105 --- Chain | Description B | No description available > matchmaker #105 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.21) with AF3 E2 353-438.pdb, chain B (#105), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.21/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #106 --- Chain | Description A | No description available > matchmaker #106 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.21) with AF3 CA.pdb, chain A (#106), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #102 dodgerblue > color #103 dodgerblue > color #104 #00b305ff > color #105 #00b305ff > color #106 #f15839ff > select #1.22/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #107 --- Chain | Description A | No description available > matchmaker #107 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.22) with AF3 E1 1-421.pdb, chain A (#107), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #108 --- Chain | Description A | No description available > matchmaker #108 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.22) with AF3 E1 422-461.pdb, chain A (#108), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.22/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #109 --- Chain | Description B | No description available > matchmaker #109 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.22) with AF3 E2 1-352.pdb, chain B (#109), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #110 --- Chain | Description B | No description available > matchmaker #110 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.22) with AF3 E2 353-438.pdb, chain B (#110), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.22/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #111 --- Chain | Description A | No description available > matchmaker #111 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.22) with AF3 CA.pdb, chain A (#111), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #107 dodgerblue > color #108 dodgerblue > color #109 #00b305ff > color #110 #00b305ff > color #111 #f15839ff > select #1.23/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #112 --- Chain | Description A | No description available > matchmaker #112 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.23) with AF3 E1 1-421.pdb, chain A (#112), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #113 --- Chain | Description A | No description available > matchmaker #113 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.23) with AF3 E1 422-461.pdb, chain A (#113), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons [Repeated 1 time(s)] > select #1.23/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #114 --- Chain | Description B | No description available > matchmaker #114 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.23) with AF3 E2 1-352.pdb, chain B (#114), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #115 --- Chain | Description B | No description available > matchmaker #115 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.23) with AF3 E2 353-438.pdb, chain B (#115), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.23/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #116 --- Chain | Description A | No description available > matchmaker #116 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.23) with AF3 CA.pdb, chain A (#116), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #112 dodgerblue > color #113 dodgerblue > color #114 #00b305ff > color #115 #00b305ff > color #116 #f15839ff > select #1.24/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #117 --- Chain | Description A | No description available > matchmaker #117 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.24) with AF3 E1 1-421.pdb, chain A (#117), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #118 --- Chain | Description A | No description available > matchmaker #118 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.24) with AF3 E1 422-461.pdb, chain A (#118), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.24/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #119 --- Chain | Description B | No description available > matchmaker #119 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.24) with AF3 E2 1-352.pdb, chain B (#119), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #120 --- Chain | Description B | No description available > matchmaker #120 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.24) with AF3 E2 353-438.pdb, chain B (#120), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.24/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #121 --- Chain | Description A | No description available > matchmaker #121 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.24) with AF3 CA.pdb, chain A (#121), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #117 dodgerblue > color #118 dodgerblue > color #119 #00b305ff > color #120 #00b305ff > color #121 #f15839ff > select #1.25/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #122 --- Chain | Description A | No description available > matchmaker #122 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.25) with AF3 E1 1-421.pdb, chain A (#122), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #123 --- Chain | Description A | No description available > matchmaker #123 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.25) with AF3 E1 422-461.pdb, chain A (#123), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.25/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #124 --- Chain | Description B | No description available > matchmaker #124 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.25) with AF3 E2 1-352.pdb, chain B (#124), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #125 --- Chain | Description B | No description available > matchmaker #125 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.25) with AF3 E2 353-438.pdb, chain B (#125), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.25/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #126 --- Chain | Description A | No description available > matchmaker #126 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.25) with AF3 CA.pdb, chain A (#126), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #122 dodgerblue > color #123 dodgerblue > color #124 #00b305ff > color #125 #00b305ff > color #126 #f15839ff > select #1.26/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #127 --- Chain | Description A | No description available > matchmaker #127 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.26) with AF3 E1 1-421.pdb, chain A (#127), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #128 --- Chain | Description A | No description available > matchmaker #128 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.26) with AF3 E1 422-461.pdb, chain A (#128), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.26/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #129 --- Chain | Description B | No description available > matchmaker #129 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.26) with AF3 E2 1-352.pdb, chain B (#129), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #130 --- Chain | Description B | No description available > matchmaker #130 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.26) with AF3 E2 353-438.pdb, chain B (#130), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.26/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #131 --- Chain | Description A | No description available > matchmaker #131 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.26) with AF3 CA.pdb, chain A (#131), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #127 dodgerblue > color #128 dodgerblue > color #129 #00b305ff > color #130 #00b305ff > color #131 #f15839ff > select #1.27/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #132 --- Chain | Description A | No description available > matchmaker #132 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.27) with AF3 E1 1-421.pdb, chain A (#132), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #133 --- Chain | Description A | No description available > matchmaker #133 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.27) with AF3 E1 422-461.pdb, chain A (#133), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.27/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #134 --- Chain | Description B | No description available > matchmaker #134 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.27) with AF3 E2 1-352.pdb, chain B (#134), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #135 --- Chain | Description B | No description available > matchmaker #135 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.27) with AF3 E2 353-438.pdb, chain B (#135), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.27/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #136 --- Chain | Description A | No description available > matchmaker #136 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.27) with AF3 CA.pdb, chain A (#136), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #132 dodgerblue > color #133 dodgerblue > color #134 #00b305ff > color #135 #00b305ff > color #136 #f15839ff > select #1.28/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #137 --- Chain | Description A | No description available > matchmaker #137 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.28) with AF3 E1 1-421.pdb, chain A (#137), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #138 --- Chain | Description A | No description available > matchmaker #138 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.28) with AF3 E1 422-461.pdb, chain A (#138), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.28/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #139 --- Chain | Description B | No description available > matchmaker #139 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.28) with AF3 E2 1-352.pdb, chain B (#139), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #140 --- Chain | Description B | No description available > matchmaker #140 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.28) with AF3 E2 353-438.pdb, chain B (#140), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.28/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #141 --- Chain | Description A | No description available > matchmaker #141 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.28) with AF3 CA.pdb, chain A (#141), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #137 dodgerblue > color #138 dodgerblue > color #139 #00b305ff > color #140 #00b305ff > color #141 #f15839ff > select #1.29/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #142 --- Chain | Description A | No description available > matchmaker #142 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.29) with AF3 E1 1-421.pdb, chain A (#142), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #143 --- Chain | Description A | No description available > matchmaker #143 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.29) with AF3 E1 422-461.pdb, chain A (#143), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.29/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #144 --- Chain | Description B | No description available > matchmaker #144 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.29) with AF3 E2 1-352.pdb, chain B (#144), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #145 --- Chain | Description B | No description available > matchmaker #145 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.29) with AF3 E2 353-438.pdb, chain B (#145), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.29/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #146 --- Chain | Description A | No description available > matchmaker #146 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.29) with AF3 CA.pdb, chain A (#146), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #142 dodgerblue > color #143 dodgerblue > color #144 #00b305ff > color #145 #00b305ff > color #146 #f15839ff > select #1.30/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > select #1.30/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > select #1.30/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #147 --- Chain | Description A | No description available > matchmaker #147 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.30) with AF3 E1 1-421.pdb, chain A (#147), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #148 --- Chain | Description A | No description available > matchmaker #148 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.30) with AF3 E1 422-461.pdb, chain A (#148), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.30/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #149 --- Chain | Description B | No description available > matchmaker #149 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.30) with AF3 E2 1-352.pdb, chain B (#149), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #150 --- Chain | Description B | No description available > matchmaker #150 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.30) with AF3 E2 353-438.pdb, chain B (#150), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.30/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #151 --- Chain | Description A | No description available > matchmaker #151 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.30) with AF3 CA.pdb, chain A (#151), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #147 dodgerblue > color #148 dodgerblue > color #149 #00b305ff > color #150 #00b305ff > color #151 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.31/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #152 --- Chain | Description A | No description available > matchmaker #152 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.31) with AF3 E1 1-421.pdb, chain A (#152), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #153 --- Chain | Description A | No description available > matchmaker #153 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.31) with AF3 E1 422-461.pdb, chain A (#153), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.31/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #154 --- Chain | Description B | No description available > matchmaker #154 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.31) with AF3 E2 1-352.pdb, chain B (#154), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #155 --- Chain | Description B | No description available > matchmaker #155 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.31) with AF3 E2 353-438.pdb, chain B (#155), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.31/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #156 --- Chain | Description A | No description available > matchmaker #156 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.31) with AF3 CA.pdb, chain A (#156), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.31/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #152 dodgerblue > color #153 dodgerblue > color #154 #00b305ff > color #155 #00b305ff > color #156 #f15839ff > select #1.32/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #157 --- Chain | Description A | No description available > matchmaker #157 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.32) with AF3 E1 1-421.pdb, chain A (#157), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #158 --- Chain | Description A | No description available > matchmaker #158 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.32) with AF3 E1 422-461.pdb, chain A (#158), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.32/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #159 --- Chain | Description B | No description available > matchmaker #159 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.32) with AF3 E2 1-352.pdb, chain B (#159), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #160 --- Chain | Description B | No description available > matchmaker #160 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.32) with AF3 E2 353-438.pdb, chain B (#160), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.32/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #161 --- Chain | Description A | No description available > matchmaker #161 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.32) with AF3 CA.pdb, chain A (#161), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #157 dodgerblue > color #158 dodgerblue > color #159 #00b305ff > color #160 #00b305ff > color #161 #f15839ff > select #1.33/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #162 --- Chain | Description A | No description available > matchmaker #162 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.33) with AF3 E1 1-421.pdb, chain A (#162), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #163 --- Chain | Description A | No description available > matchmaker #163 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.33) with AF3 E1 422-461.pdb, chain A (#163), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.33/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #164 --- Chain | Description B | No description available > matchmaker #164 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.33) with AF3 E2 1-352.pdb, chain B (#164), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #165 --- Chain | Description B | No description available > matchmaker #165 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.33) with AF3 E2 353-438.pdb, chain B (#165), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.33/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #166 --- Chain | Description A | No description available > matchmaker #166 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.33) with AF3 CA.pdb, chain A (#166), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #162 dodgerblue > color #163 dodgerblue > color #164 #00b305ff > color #165 #00b305ff > color #166 #f15839ff > select #1.34/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #167 --- Chain | Description A | No description available > matchmaker #167 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.34) with AF3 E1 1-421.pdb, chain A (#167), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #168 --- Chain | Description A | No description available > matchmaker #168 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.34) with AF3 E1 422-461.pdb, chain A (#168), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.34/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #169 --- Chain | Description B | No description available > matchmaker #169 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.34) with AF3 E2 1-352.pdb, chain B (#169), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #170 --- Chain | Description B | No description available > matchmaker #170 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.34) with AF3 E2 353-438.pdb, chain B (#170), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.34/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #171 --- Chain | Description A | No description available > matchmaker #171 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.34) with AF3 CA.pdb, chain A (#171), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #167 dodgerblue > color #168 dodgerblue > color #169 #00b305ff > color #170 #00b305ff > color #171 #f15839ff > select #1.35/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #172 --- Chain | Description A | No description available > matchmaker #172 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.35) with AF3 E1 1-421.pdb, chain A (#172), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #173 --- Chain | Description A | No description available > matchmaker #173 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.35) with AF3 E1 422-461.pdb, chain A (#173), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.35/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #174 --- Chain | Description B | No description available > matchmaker #174 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.35) with AF3 E2 1-352.pdb, chain B (#174), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #175 --- Chain | Description B | No description available > matchmaker #175 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.35) with AF3 E2 353-438.pdb, chain B (#175), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.35/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #176 --- Chain | Description A | No description available > matchmaker #176 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.35) with AF3 CA.pdb, chain A (#176), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #172 dodgerblue > color #173 dodgerblue > color #174 #00b305ff > color #175 #00b305ff > color #176 #f15839ff > select #1.36/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #177 --- Chain | Description A | No description available > matchmaker #177 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.36) with AF3 E1 1-421.pdb, chain A (#177), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #178 --- Chain | Description A | No description available > matchmaker #178 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.36) with AF3 E1 422-461.pdb, chain A (#178), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.36/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #179 --- Chain | Description B | No description available > matchmaker #179 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.36) with AF3 E2 1-352.pdb, chain B (#179), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #180 --- Chain | Description B | No description available > matchmaker #180 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.36) with AF3 E2 353-438.pdb, chain B (#180), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.36/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #181 --- Chain | Description A | No description available > matchmaker #181 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.36) with AF3 CA.pdb, chain A (#181), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #177 dodgerblue > color #178 dodgerblue > color #179 #00b305ff > color #180 #00b305ff > color #181 #f15839ff > select #1.37/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #182 --- Chain | Description A | No description available > matchmaker #182 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.37) with AF3 E1 1-421.pdb, chain A (#182), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #183 --- Chain | Description A | No description available > matchmaker #183 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.37) with AF3 E1 422-461.pdb, chain A (#183), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.37/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #184 --- Chain | Description B | No description available > matchmaker #184 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.37) with AF3 E2 1-352.pdb, chain B (#184), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #185 --- Chain | Description B | No description available > matchmaker #185 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.37) with AF3 E2 353-438.pdb, chain B (#185), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.37/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #186 --- Chain | Description A | No description available > matchmaker #186 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.37) with AF3 CA.pdb, chain A (#186), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #182 dodgerblue > color #183 dodgerblue > color #184 #00b305ff > color #185 #00b305ff > color #186 #f15839ff > select #1.38/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #187 --- Chain | Description A | No description available > matchmaker #187 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.38) with AF3 E1 1-421.pdb, chain A (#187), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #188 --- Chain | Description A | No description available > matchmaker #188 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.38) with AF3 E1 422-461.pdb, chain A (#188), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.38/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #189 --- Chain | Description B | No description available > matchmaker #189 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.38) with AF3 E2 1-352.pdb, chain B (#189), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #190 --- Chain | Description B | No description available > matchmaker #190 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.38) with AF3 E2 353-438.pdb, chain B (#190), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.38/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #191 --- Chain | Description A | No description available > matchmaker #191 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.38) with AF3 CA.pdb, chain A (#191), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #187 dodgerblue > color #188 dodgerblue > color #189 #00b305ff > color #190 #00b305ff > color #191 #f15839ff > select #1.39/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #192 --- Chain | Description A | No description available > matchmaker #192 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.39) with AF3 E1 1-421.pdb, chain A (#192), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #193 --- Chain | Description A | No description available > matchmaker #193 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.39) with AF3 E1 422-461.pdb, chain A (#193), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.39/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #194 --- Chain | Description B | No description available > matchmaker #194 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.39) with AF3 E2 1-352.pdb, chain B (#194), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #195 --- Chain | Description B | No description available > matchmaker #195 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.39) with AF3 E2 353-438.pdb, chain B (#195), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.39/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel atoms > hide sel atoms > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #196 --- Chain | Description A | No description available > matchmaker #196 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.39) with AF3 CA.pdb, chain A (#196), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #192 dodgerblue > color #193 dodgerblue > color #194 #00b305ff > color #195 #00b305ff > color #196 #f15839ff > select #1.40/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #197 --- Chain | Description A | No description available > matchmaker #197 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.40) with AF3 E1 1-421.pdb, chain A (#197), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #198 --- Chain | Description A | No description available > matchmaker #198 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.40) with AF3 E1 422-461.pdb, chain A (#198), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons [Repeated 1 time(s)] > select #1.40/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #199 --- Chain | Description B | No description available > matchmaker #199 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.40) with AF3 E2 1-352.pdb, chain B (#199), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #200 --- Chain | Description B | No description available > matchmaker #200 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.40) with AF3 E2 353-438.pdb, chain B (#200), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.40/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #201 --- Chain | Description A | No description available > matchmaker #201 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.40) with AF3 CA.pdb, chain A (#201), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #197 dodgerblue > color #198 dodgerblue > color #199 #00b305ff > color #200 #00b305ff > color #201 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.41/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #202 --- Chain | Description A | No description available > matchmaker #202 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.41) with AF3 E1 1-421.pdb, chain A (#202), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #203 --- Chain | Description A | No description available > matchmaker #203 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.41) with AF3 E1 422-461.pdb, chain A (#203), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons [Repeated 1 time(s)] > select #1.41/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #204 --- Chain | Description B | No description available > matchmaker #204 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.41) with AF3 E2 1-352.pdb, chain B (#204), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #205 --- Chain | Description B | No description available > matchmaker #205 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.41) with AF3 E2 353-438.pdb, chain B (#205), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.41/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #206 --- Chain | Description A | No description available > matchmaker #206 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.41) with AF3 CA.pdb, chain A (#206), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #202 dodgerblue > color #203 dodgerblue > color #204 #00b305ff > color #205 #00b305ff > color #206 #f15839ff > select #1.42/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #207 --- Chain | Description A | No description available > matchmaker #207 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.42) with AF3 E1 1-421.pdb, chain A (#207), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #208 --- Chain | Description A | No description available > matchmaker #208 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.42) with AF3 E1 422-461.pdb, chain A (#208), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.42/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #209 --- Chain | Description B | No description available > matchmaker #209 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.42) with AF3 E2 1-352.pdb, chain B (#209), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #210 --- Chain | Description B | No description available > matchmaker #210 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.42) with AF3 E2 353-438.pdb, chain B (#210), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.42/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #211 --- Chain | Description A | No description available > matchmaker #211 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.42) with AF3 CA.pdb, chain A (#211), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #207 dodgerblue > color #208 dodgerblue > color #209 #00b305ff > color #210 #00b305ff > color #211 #f15839ff > select #1.43/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #212 --- Chain | Description A | No description available > matchmaker #212 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.43) with AF3 E1 1-421.pdb, chain A (#212), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #213 --- Chain | Description A | No description available > matchmaker #213 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.43) with AF3 E1 422-461.pdb, chain A (#213), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.43/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #214 --- Chain | Description B | No description available > matchmaker #214 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.43) with AF3 E2 1-352.pdb, chain B (#214), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #215 --- Chain | Description B | No description available > matchmaker #215 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.43) with AF3 E2 353-438.pdb, chain B (#215), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.43/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #216 --- Chain | Description A | No description available > matchmaker #216 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.43) with AF3 CA.pdb, chain A (#216), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #212 dodgerblue > color #213 dodgerblue > color #214 #00b305ff > color #215 #00b305ff > color #216 #f15839ff > select #1.44/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #217 --- Chain | Description A | No description available > matchmaker #217 to #1.43 & sel No 'to' model specified > matchmaker #217 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.44) with AF3 E1 1-421.pdb, chain A (#217), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #218 --- Chain | Description A | No description available > matchmaker #218 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.44) with AF3 E1 422-461.pdb, chain A (#218), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.44/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #219 --- Chain | Description B | No description available > matchmaker #219 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.44) with AF3 E2 1-352.pdb, chain B (#219), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #220 --- Chain | Description B | No description available > matchmaker #220 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.44) with AF3 E2 353-438.pdb, chain B (#220), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.44/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #221 --- Chain | Description A | No description available > matchmaker #221 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.44) with AF3 CA.pdb, chain A (#221), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #217 dodgerblue > color #218 dodgerblue > color #219 #00b305ff > color #220 #00b305ff > color #221 #f15839ff > select #1.45/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #222 --- Chain | Description A | No description available > matchmaker #222 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.45) with AF3 E1 1-421.pdb, chain A (#222), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #223 --- Chain | Description A | No description available > matchmaker #223 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.45) with AF3 E1 422-461.pdb, chain A (#223), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons [Repeated 1 time(s)] > select #1.45/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #224 --- Chain | Description B | No description available > matchmaker #224 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.45) with AF3 E2 1-352.pdb, chain B (#224), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #225 --- Chain | Description B | No description available > matchmaker #225 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.45) with AF3 E2 353-438.pdb, chain B (#225), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.45/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #226 --- Chain | Description A | No description available > matchmaker #226 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.45) with AF3 CA.pdb, chain A (#226), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #222 dodgerblue > color #223 dodgerblue > color #224 #00b305ff > color #225 #00b305ff > color #226 #f15839ff > select #1.46/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #227 --- Chain | Description A | No description available > matchmaker #227 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.46) with AF3 E1 1-421.pdb, chain A (#227), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #228 --- Chain | Description A | No description available > matchmaker #228 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.46) with AF3 E1 422-461.pdb, chain A (#228), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.46/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #229 --- Chain | Description B | No description available > matchmaker #229 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.46) with AF3 E2 1-352.pdb, chain B (#229), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #230 --- Chain | Description B | No description available > matchmaker #230 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.46) with AF3 E2 353-438.pdb, chain B (#230), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.46/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #231 --- Chain | Description A | No description available > matchmaker #231 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.46) with AF3 CA.pdb, chain A (#231), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #227 #408ca2ff > color #227 dodgerblue > color #228 dodgerblue > color #229 #00b305ff > color #230 #00b305ff > color #231 #f15839ff > view sel No displayed objects specified. > select > #1.1/A#1.2/A#1.3/A#1.4/A#1.5/A#1.6/A#1.7/A#1.8/A#1.9/A#1.10/A#1.11/A#1.12/A#1.13/A#1.14/A#1.15/A#1.16/A#1.17/A#1.18/A#1.19/A#1.20/A#1.21/A#1.22/A#1.23/A#1.24/A#1.25/A#1.26/A#1.27/A#1.28/A#1.29/A#1.30/A#1.31/A#1.32/A#1.33/A#1.34/A#1.35/A#1.36/A#1.37/A#1.38/A#1.39/A#1.40/A#1.41/A#1.42/A#1.43/A#1.44/A#1.45/A#1.46/A#1.47/A#1.48/A#1.49/A#1.50/A#1.51/A#1.52/A#1.53/A#1.54/A#1.55/A#1.56/A#1.57/A#1.58/A#1.59/A#1.60/A#2/A#3/A#6/A#7/A#8/A#11/A#12/A#13/A#16/A#17/A#18/A#21/A#22/A#23/A#26/A#27/A#28/A#31/A#32/A#33/A#36/A#37/A#38/A#41/A#42/A#43/A#46/A#47/A#48/A#51/A#52/A#53/A#56/A#57/A#58/A#61/A#62/A#63/A#66/A#67/A#68/A#71/A#72/A#73/A#76/A#77/A#78/A#81/A#82/A#83/A#86/A#87/A#88/A#91/A#92/A#93/A#96/A#97/A#98/A#101/A#102/A#103/A#106/A#107/A#108/A#111/A#112/A#113/A#116/A#117/A#118/A#121/A#122/A#123/A#126/A#127/A#128/A#131/A#132/A#133/A#136/A#137/A#138/A#141/A#142/A#143/A#146/A#147/A#148/A#151/A#152/A#153/A#156/A#157/A#158/A#161/A#162/A#163/A#166/A#167/A#168/A#171/A#172/A#173/A#176/A#177/A#178/A#181/A#182/A#183/A#186/A#187/A#188/A#191/A#192/A#193/A#196/A#197/A#198/A#201/A#202/A#203/A#206/A#207/A#208/A#211/A#212/A#213/A#216/A#217/A#218/A#221/A#222/A#223/A#226/A#227/A#228/A#231/A 418952 atoms, 429570 bonds, 55178 residues, 198 models selected > view sel > select clear > select #1.47/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #232 --- Chain | Description A | No description available > matchmaker #232 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.47) with AF3 E1 1-421.pdb, chain A (#232), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #233 --- Chain | Description A | No description available > matchmaker #233 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.47) with AF3 E1 422-461.pdb, chain A (#233), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.47/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #234 --- Chain | Description B | No description available > matchmaker #234 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.47) with AF3 E2 1-352.pdb, chain B (#234), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #235 --- Chain | Description B | No description available > matchmaker #235 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.47) with AF3 E2 353-438.pdb, chain B (#235), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #236 --- Chain | Description A | No description available > hide sel cartoons > select #1.47/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #236 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.47) with AF3 CA.pdb, chain A (#236), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #232 dodgerblue > color #233 dodgerblue > color #234 #00b305ff > color #235 #00b305ff > color #236 #f15839ff > select #1.48/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #237 --- Chain | Description A | No description available > matchmaker #237 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.48) with AF3 E1 1-421.pdb, chain A (#237), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #238 --- Chain | Description A | No description available > matchmaker #238 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.48) with AF3 E1 422-461.pdb, chain A (#238), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.48/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #239 --- Chain | Description B | No description available > matchmaker #239 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.48) with AF3 E2 1-352.pdb, chain B (#239), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #240 --- Chain | Description B | No description available > matchmaker #240 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.48) with AF3 E2 353-438.pdb, chain B (#240), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.48/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.48/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #241 --- Chain | Description A | No description available > matchmaker #241 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.48) with AF3 CA.pdb, chain A (#241), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #237 dodgerblue > color #238 dodgerblue > color #239 #00b305ff > color #241 #f15839ff > color #240 #00b305ff > select #1.49/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #242 --- Chain | Description A | No description available > matchmaker #242 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.49) with AF3 E1 1-421.pdb, chain A (#242), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #243 --- Chain | Description A | No description available > matchmaker #243 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.49) with AF3 E1 422-461.pdb, chain A (#243), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.49/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #244 --- Chain | Description B | No description available > matchmaker #244 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.49) with AF3 E2 1-352.pdb, chain B (#244), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #245 --- Chain | Description B | No description available > matchmaker #245 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.49) with AF3 E2 353-438.pdb, chain B (#245), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.49/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #246 --- Chain | Description A | No description available > matchmaker #246 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.49) with AF3 CA.pdb, chain A (#246), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #242 dodgerblue > color #243 dodgerblue > color #244 #00b305ff > color #245 #00b305ff > color #245 #f15839ff > color #245 #00b305ff > color #246 #f15839ff > select #1.50/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #247 --- Chain | Description A | No description available > matchmaker #247 to #1.49 & sel No 'to' model specified > matchmaker #247 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.50) with AF3 E1 1-421.pdb, chain A (#247), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #248 --- Chain | Description A | No description available > matchmaker #248 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.50) with AF3 E1 422-461.pdb, chain A (#248), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.50/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #249 --- Chain | Description B | No description available > matchmaker #249 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.50) with AF3 E2 1-352.pdb, chain B (#249), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #250 --- Chain | Description B | No description available > matchmaker #250 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.50) with AF3 E2 353-438.pdb, chain B (#250), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.50/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #251 --- Chain | Description A | No description available > matchmaker #251 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.50) with AF3 CA.pdb, chain A (#251), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #247 dodgerblue > color #248 dodgerblue > color #249 #00b305ff > color #250 #00b305ff > color #251 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.51/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #252 --- Chain | Description A | No description available > matchmaker #252 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.51) with AF3 E1 1-421.pdb, chain A (#252), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #253 --- Chain | Description A | No description available > matchmaker #253 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.51) with AF3 E1 422-461.pdb, chain A (#253), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.51/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #254 --- Chain | Description B | No description available > matchmaker #254 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.51) with AF3 E2 1-352.pdb, chain B (#254), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #255 --- Chain | Description B | No description available > matchmaker #255 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.51) with AF3 E2 353-438.pdb, chain B (#255), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.51/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #256 --- Chain | Description A | No description available > matchmaker #256 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.51) with AF3 CA.pdb, chain A (#256), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > matchmaker #256 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.51) with AF3 CA.pdb, chain A (#256), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #252 dodgerblue > color #253 dodgerblue > color #254 #00b305ff > color #255 #00b305ff > color #256 #f15839ff > select #1.52/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #257 --- Chain | Description A | No description available > matchmaker #257 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.52) with AF3 E1 1-421.pdb, chain A (#257), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #258 --- Chain | Description A | No description available > matchmaker #258 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.52) with AF3 E1 422-461.pdb, chain A (#258), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.52/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #259 --- Chain | Description B | No description available > matchmaker #259 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.52) with AF3 E2 1-352.pdb, chain B (#259), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #260 --- Chain | Description B | No description available > matchmaker #260 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.52) with AF3 E2 353-438.pdb, chain B (#260), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.52/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #261 --- Chain | Description A | No description available > matchmaker #261 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.52) with AF3 CA.pdb, chain A (#261), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons [Repeated 1 time(s)] > color #257 dodgerblue > color #258 dodgerblue > color #259 #00b305ff > color #260 #00b305ff > color #261 #f15839ff The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select 2325488 atoms, 2385760 bonds, 301652 residues, 321 models selected > hide sel cartoons > select up 2325488 atoms, 2385760 bonds, 301652 residues, 321 models selected > show #176 target m > show sel cartoons > hide #!1 models > select subtract #1 417248 atoms, 427076 bonds, 55172 residues, 260 models selected > select clear > hide #2 models > hide #3 models > hide #4 models > hide #5 models > hide #6 models > hide #7 models > hide #8 models > hide #9 models > hide #10 models > hide #11 models > hide #12 models > hide #13 models > hide #14 models > hide #15 models > hide #16 models > hide #17 models > show #16 models > show #17 models > hide #18 models > hide #19 models > hide #20 models > hide #21 models > hide #22 models > hide #23 models > hide #24 models > hide #25 models > hide #16 models > hide #17 models > hide #26 models > hide #27 models > hide #28 models > hide #29 models > hide #30 models > hide #31 models > hide #32 models > hide #33 models > hide #34 models > show #34 models > hide #35 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > hide #37 target m > hide #34 models > hide #36 models > hide #38 models > hide #39 models > hide #40 models > hide #41 models > hide #42 models > hide #43 models > hide #44 models > hide #45 models > hide #46 models > hide #47 models > hide #48 models > hide #49 models > hide #50 models > hide #51 models > hide #52 models > hide #53 models > hide #54 models > hide #55 models > hide #56 models > hide #57 models > hide #58 models > hide #59 models > hide #60 models > hide #61 models > hide #62 models > hide #63 models > hide #64 models > hide #65 models > hide #66 models > hide #67 models > hide #68 models > hide #69 models > hide #70 models > hide #71 models > hide #72 models > hide #73 models > hide #74 models > hide #75 models > hide #76 models > hide #77 models > hide #78 models > hide #79 models > hide #80 models > hide #81 models > hide #82 models > hide #83 models > hide #84 models > hide #85 models > hide #86 models > hide #87 models > hide #88 models > hide #89 models > hide #90 models > hide #91 models > hide #92 models > hide #93 models > hide #94 models > hide #95 models > hide #96 models > hide #97 models > hide #98 models > hide #99 models > hide #100 models > hide #101 models > hide #102 models > hide #103 models > hide #104 models > hide #105 models > hide #106 models > hide #107 models > hide #108 models > hide #109 models > hide #110 models > hide #111 models > hide #112 models > hide #113 models > hide #114 models > hide #115 models > hide #116 models > hide #117 models > hide #118 models > hide #119 models > hide #120 models > hide #121 models > hide #122 models > hide #123 models > hide #124 models > hide #125 models > hide #126 models > hide #127 models > hide #128 models > hide #129 models > hide #130 models > hide #131 models > hide #132 models > hide #133 models > hide #134 models > hide #135 models > hide #136 models > hide #137 models > hide #138 models > hide #139 models > hide #140 models > hide #141 models > hide #142 models > hide #143 models > hide #144 models > hide #145 models > hide #146 models > hide #147 models > hide #148 models > hide #149 models > hide #150 models > hide #151 models > hide #152 models > hide #153 models > hide #154 models > hide #155 models > hide #156 models > hide #157 models > hide #158 models > hide #159 models > hide #160 models > hide #161 models > hide #162 models > hide #163 models > hide #164 models > hide #165 models > hide #166 models > hide #167 models > hide #168 models > hide #169 models > hide #170 models > hide #171 models > hide #172 models > hide #173 models > hide #174 models > hide #175 models > hide #176 models > hide #177 models > hide #178 models > hide #179 models > hide #180 models > hide #181 models > hide #182 models > hide #183 models > hide #184 models > hide #185 models > hide #186 models > hide #187 models > hide #188 models > hide #189 models > hide #190 models > hide #191 models > hide #192 models > hide #193 models > hide #194 models > hide #195 models > hide #196 models > hide #197 models > hide #198 models > hide #199 models > hide #200 models > hide #201 models > hide #202 models > hide #203 models > hide #204 models > hide #205 models > hide #206 models > hide #207 models > hide #208 models > hide #209 models > hide #210 models > hide #211 models > hide #212 models > hide #213 models > hide #214 models > hide #215 models > hide #216 models > hide #217 models > hide #218 models > hide #219 models > hide #220 models > hide #221 models > hide #222 models > hide #223 models > hide #224 models > hide #225 models > hide #226 models > hide #227 models > hide #228 models > hide #229 models > hide #230 models > hide #231 models > hide #232 models > hide #233 models > hide #234 models > hide #235 models > hide #236 models > hide #237 models > hide #238 models > hide #239 models > hide #240 models > hide #241 models > hide #242 models > hide #243 models > hide #244 models > hide #245 models > hide #246 models > hide #247 models > hide #248 models > hide #249 models > hide #250 models > hide #251 models > hide #252 models > hide #253 models > hide #254 models > hide #255 models > hide #256 models > hide #257 models > hide #258 models > hide #259 models > hide #260 models > hide #261 models > select #1.53/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > select #1.52/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > view sel No displayed objects specified. > show #!1 models > select ~sel & ##selected 28434 atoms, 29183 bonds, 3666 residues, 1 model selected > hide sel cartoons > select > #1.1/A#1.2/A#1.3/A#1.4/A#1.5/A#1.6/A#1.7/A#1.8/A#1.9/A#1.10/A#1.11/A#1.12/A#1.13/A#1.14/A#1.15/A#1.16/A#1.17/A#1.18/A#1.19/A#1.20/A#1.21/A#1.22/A#1.23/A#1.24/A#1.25/A#1.26/A#1.27/A#1.28/A#1.29/A#1.30/A#1.31/A#1.32/A#1.33/A#1.34/A#1.35/A#1.36/A#1.37/A#1.38/A#1.39/A#1.40/A#1.41/A#1.42/A#1.43/A#1.44/A#1.45/A#1.46/A#1.47/A#1.48/A#1.49/A#1.50/A#1.51/A#1.52/A#1.53/A#1.54/A#1.55/A#1.56/A#1.57/A#1.58/A#1.59/A#1.60/A#2/A#3/A#6/A#7/A#8/A#11/A#12/A#13/A#16/A#17/A#18/A#21/A#22/A#23/A#26/A#27/A#28/A#31/A#32/A#33/A#36/A#37/A#38/A#41/A#42/A#43/A#46/A#47/A#48/A#51/A#52/A#53/A#56/A#57/A#58/A#61/A#62/A#63/A#66/A#67/A#68/A#71/A#72/A#73/A#76/A#77/A#78/A#81/A#82/A#83/A#86/A#87/A#88/A#91/A#92/A#93/A#96/A#97/A#98/A#101/A#102/A#103/A#106/A#107/A#108/A#111/A#112/A#113/A#116/A#117/A#118/A#121/A#122/A#123/A#126/A#127/A#128/A#131/A#132/A#133/A#136/A#137/A#138/A#141/A#142/A#143/A#146/A#147/A#148/A#151/A#152/A#153/A#156/A#157/A#158/A#161/A#162/A#163/A#166/A#167/A#168/A#171/A#172/A#173/A#176/A#177/A#178/A#181/A#182/A#183/A#186/A#187/A#188/A#191/A#192/A#193/A#196/A#197/A#198/A#201/A#202/A#203/A#206/A#207/A#208/A#211/A#212/A#213/A#216/A#217/A#218/A#221/A#222/A#223/A#226/A#227/A#228/A#231/A#232/A#233/A#236/A#237/A#238/A#241/A#242/A#243/A#246/A#247/A#248/A#251/A#252/A#253/A#256/A#257/A#258/A#261/A 447224 atoms, 458514 bonds, 58916 residues, 216 models selected > select 2325488 atoms, 2385760 bonds, 301652 residues, 321 models selected > hide sel & #1.1-60 cartoons > select #1.53/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #262 --- Chain | Description A | No description available > matchmaker #262 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.53) with AF3 E1 1-421.pdb, chain A (#262), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #263 --- Chain | Description A | No description available > matchmaker #263 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.53) with AF3 E1 422-461.pdb, chain A (#263), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.53/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #264 --- Chain | Description B | No description available > matchmaker #264 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.53) with AF3 E2 1-352.pdb, chain B (#264), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #265 --- Chain | Description B | No description available > matchmaker #265 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.53) with AF3 E2 353-438.pdb, chain B (#265), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.53/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #266 --- Chain | Description A | No description available > matchmaker #266 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.53) with AF3 CA.pdb, chain A (#266), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.54/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #267 --- Chain | Description A | No description available > matchmaker #267 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.54) with AF3 E1 1-421.pdb, chain A (#267), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #268 --- Chain | Description A | No description available > matchmaker #268 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.54) with AF3 E1 422-461.pdb, chain A (#268), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > matchmaker #268 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.54) with AF3 E1 422-461.pdb, chain A (#268), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.54/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #269 --- Chain | Description B | No description available > matchmaker #269 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.54) with AF3 E2 1-352.pdb, chain B (#269), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #270 --- Chain | Description B | No description available > matchmaker #270 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.54) with AF3 E2 353-438.pdb, chain B (#270), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.54/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #271 --- Chain | Description A | No description available > matchmaker #271 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.54) with AF3 CA.pdb, chain A (#271), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #262 dodgerblue > color #263 dodgerblue > color #264 #00b305ff > color #265 #00b305ff > color #266 #f15839ff > color #267 dodgerblue > color #268 dodgerblue > color #269 #00b305ff > color #270 #00b305ff > color #271 #f15839ff > select #1.55/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #272 --- Chain | Description A | No description available > matchmaker #272 to #1.54 & sel No 'to' model specified > matchmaker #272 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.55) with AF3 E1 1-421.pdb, chain A (#272), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #273 --- Chain | Description A | No description available > matchmaker #273 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.55) with AF3 E1 422-461.pdb, chain A (#273), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #274 --- Chain | Description B | No description available > select #1.55/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > matchmaker #274 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.55) with AF3 E2 1-352.pdb, chain B (#274), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #275 --- Chain | Description B | No description available > matchmaker #275 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.55) with AF3 E2 353-438.pdb, chain B (#275), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.55/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #276 --- Chain | Description A | No description available > matchmaker #276 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.55) with AF3 CA.pdb, chain A (#276), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #272 dodgerblue > color #273 dodgerblue > color #274 #00b305ff > color #275 #00b305ff > color #276 #f15839ff > select #1.56/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #277 --- Chain | Description A | No description available > matchmaker #277 to #1.55 & sel No 'to' model specified > matchmaker #277 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.56) with AF3 E1 1-421.pdb, chain A (#277), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #278 --- Chain | Description A | No description available > matchmaker #278 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.56) with AF3 E1 422-461.pdb, chain A (#278), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.56/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #279 --- Chain | Description B | No description available > matchmaker #279 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.56) with AF3 E2 1-352.pdb, chain B (#279), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #280 --- Chain | Description B | No description available > matchmaker #280 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.56) with AF3 E2 353-438.pdb, chain B (#280), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.56/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #281 --- Chain | Description A | No description available > matchmaker #281 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.56) with AF3 CA.pdb, chain A (#281), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #277 dodgerblue > color #278 dodgerblue > color #279 #00b305ff > color #280 #00b305ff > color #281 #f15839ff > select #1.57/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #282 --- Chain | Description A | No description available > matchmaker #282 to #1.56 & sel No 'to' model specified > matchmaker #282 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.57) with AF3 E1 1-421.pdb, chain A (#282), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #283 --- Chain | Description A | No description available > matchmaker #283 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.57) with AF3 E1 422-461.pdb, chain A (#283), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.57/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #284 --- Chain | Description B | No description available > matchmaker #284 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.57) with AF3 E2 1-352.pdb, chain B (#284), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #285 --- Chain | Description B | No description available > matchmaker #285 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.57) with AF3 E2 353-438.pdb, chain B (#285), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons [Repeated 1 time(s)] > select #1.57/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #286 --- Chain | Description A | No description available > matchmaker #286 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.57) with AF3 CA.pdb, chain A (#286), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #282 dodgerblue > color #283 dodgerblue > color #284 #00b305ff > color #285 #00b305ff > color #286 #f15839ff > select #1.58/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #287 --- Chain | Description A | No description available > matchmaker #287 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.58) with AF3 E1 1-421.pdb, chain A (#287), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #288 --- Chain | Description A | No description available > matchmaker #288 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.58) with AF3 E1 422-461.pdb, chain A (#288), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.58/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #289 --- Chain | Description B | No description available > matchmaker #289 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.58) with AF3 E2 1-352.pdb, chain B (#289), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #290 --- Chain | Description B | No description available > matchmaker #290 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.58) with AF3 E2 353-438.pdb, chain B (#290), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.58/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #291 --- Chain | Description A | No description available > matchmaker #291 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.58) with AF3 CA.pdb, chain A (#291), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #287 dodgerblue > color #288 dodgerblue > color #289 #00b305ff > color #290 #00b305ff > color #291 #f15839ff > select #1.59/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #292 --- Chain | Description A | No description available > matchmaker #291 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.59) with AF3 CA.pdb, chain A (#291), sequence alignment score = 32.6 RMSD between 11 pruned atom pairs is 1.204 angstroms; (across all 110 pairs: 22.675) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #293 --- Chain | Description A | No description available > matchmaker #291 to #1.58 & sel No 'to' model specified > select #1.58/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #291 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.58) with AF3 CA.pdb, chain A (#291), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.59/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > matchmaker #292 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.59) with AF3 E1 1-421.pdb, chain A (#292), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #293 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.59) with AF3 E1 422-461.pdb, chain A (#293), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > select #1.39/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > select #1.59/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.59/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #294 --- Chain | Description B | No description available > matchmaker #294 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.59) with AF3 E2 1-352.pdb, chain B (#294), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #295 --- Chain | Description B | No description available > matchmaker #295 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.59) with AF3 E2 353-438.pdb, chain B (#295), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.59/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #296 --- Chain | Description A | No description available > matchmaker #296 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.59) with AF3 CA.pdb, chain A (#296), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #292 dodgerblue > color #293 dodgerblue > color #294 #00b305ff > color #295 #00b305ff > color #296 #f15839ff > select #1.60/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #297 --- Chain | Description A | No description available > matchmaker #297 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.60) with AF3 E1 1-421.pdb, chain A (#297), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #298 --- Chain | Description A | No description available > matchmaker #298 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.60) with AF3 E1 422-461.pdb, chain A (#298), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.60/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #299 --- Chain | Description B | No description available > matchmaker #299 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.60) with AF3 E2 1-352.pdb, chain B (#299), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #300 --- Chain | Description B | No description available > matchmaker #300 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.60) with AF3 E2 353-438.pdb, chain B (#300), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.60/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #301 --- Chain | Description A | No description available > matchmaker #301 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.60) with AF3 CA.pdb, chain A (#301), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #297 dodgerblue > color #298 dodgerblue > color #299 #00b305ff > color #300 #00b305ff > color #301 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Mon Jul 15 16:48:15 2024 ——— opened ChimeraX session > show #2 models > show #3 models > show #4 models > show #5 models > show #6 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. [Repeated 1 time(s)] > hide #2-6,262-301#1.2-60 target m > show #1.2 target m > hide #1.1 target m > hide #!1 models > show #2 models > show #3 models > show #4 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > show #5 models > show #6 models > show #7 models > show #8 models > show #9 models > show #10 models > show #11 models > show #12 models > show #13 models > show #14 models > show #15 models > show #16 models > show #17 models > show #18 models > show #19 models > show #20 models > show #21 models > show #22 models > show #23 models > show #24 models > show #25 models > show #26 models > show #27 models > show #28 models > show #29 models > show #30 models > show #31 models > show #32 models > show #33 models > show #34 models > show #35 models > show #36 models > show #37 models > show #38 models > show #39 models > show #40 models > show #41 models > show #42 models > show #43 models > show #44 models > show #45 models > show #46 models > show #47 models > show #48 models > show #49 models > show #50 models > show #51 models > show #52 models > show #53 models > show #54 models > show #55 models > show #56 models > show #57 models > show #58 models > show #59 models > show #60 models > show #61 models > show #62 models > show #63 models > show #64 models > show #65 models > show #66 models > show #67 models > show #68 models > show #69 models > show #70 models > show #71 models > show #72 models > show #73 models > show #74 models > show #75 models > show #76 models > show #77 models > show #78 models > show #79 models > show #80 models > show #81 models > show #82 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > show #82-301 models > hide #2-301 models > show #2-301 models > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Mon Jul 15 16:59:09 2024 ——— opened ChimeraX session The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show #2-301 cartoons > view sel No displayed objects specified. > select add #1 1908240 atoms, 1958684 bonds, 246480 residues, 61 models selected > hide #1.2 models > show #1.1 models > hide #1.1 models > show #1.1 models > show sel & #1.1 cartoons > hide #1.1 models > hide #!1 models > show #1.1 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select subtract #1 Nothing selected > hide #!1 models > hide #1.1 models > show #1.1 models > show #1.2 models > show #1.3 models > show #1.4 models > select 2389680 atoms, 2451464 bonds, 310140 residues, 361 models selected > show sel & #2-301#1.1-4 cartoons > hide #!1 models > show #!1 models > show #1.5 models > show #1.6 models > show #1.7 models > hide #1.7 models > show #1.7 models > show #1.8 models > ui tool show ""Selection Inspector"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. [Repeated 1 time(s)] > setattr sel struct display true Assigning display attribute to 360 items > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > select ~sel & ##selected 28434 atoms, 29221 bonds, 3666 residues, 1 model selected > hide sel cartoons > select 2389680 atoms, 2451464 bonds, 310140 residues, 361 models selected > hide sel cartoons > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #302 --- Chain | Description A | No description available > matchmaker #301 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.1) with AF3 CA.pdb, chain A (#301), sequence alignment score = 32.6 RMSD between 11 pruned atom pairs is 1.228 angstroms; (across all 110 pairs: 22.710) > select #1.60/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide #301 models > show #301 models > select add #301 2536 atoms, 2591 bonds, 324 residues, 2 models selected > hide #301 models > show #301 models > color #301 #f15839ff > show sel cartoons > select subtract #301 1277 atoms, 1305 bonds, 162 residues, 1 model selected > matchmaker #301 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.60) with AF3 CA.pdb, chain A (#301), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #301 models > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > matchmaker #302 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.1) with AF3 E1 1-421.pdb, chain A (#302), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #303 --- Chain | Description A | No description available > matchmaker #303 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.1) with AF3 E1 422-461.pdb, chain A (#303), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > select #1.1/E 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #304 --- Chain | Description B | No description available > matchmaker #304 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.1) with AF3 E2 1-352.pdb, chain B (#304), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #305 --- Chain | Description B | No description available > matchmaker #305 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.1) with AF3 E2 353-438.pdb, chain B (#305), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > select #1.1/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #306 --- Chain | Description A | No description available > matchmaker #306 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.1) with AF3 CA.pdb, chain A (#306), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > select #1.1/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.1/E 3304 atoms, 3400 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide sel cartoons > color #302 dodgerblue > color #303 dodgerblue > color #304 #00b305ff > color #305 #00b305ff > color #306 #f15839ff > select #1.2/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #307 --- Chain | Description A | No description available > matchmaker #307 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.2) with AF3 E1 1-421.pdb, chain A (#307), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #308 --- Chain | Description A | No description available > matchmaker #308 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.2) with AF3 E1 422-461.pdb, chain A (#308), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons [Repeated 1 time(s)] > select #1.2/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #309 --- Chain | Description B | No description available > matchmaker #309 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.2) with AF3 E2 1-352.pdb, chain B (#309), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #310 --- Chain | Description B | No description available > matchmaker #310 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.2) with AF3 E2 353-438.pdb, chain B (#310), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.2/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #311 --- Chain | Description A | No description available > matchmaker #311 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.2) with AF3 CA.pdb, chain A (#311), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #307 dodgerblue > color #308 dodgerblue > color #309 #00b305ff > color #310 #00b305ff > color #311 #f15839ff > select #1.3/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #312 --- Chain | Description A | No description available > matchmaker #312 to #1.2 & sel No 'to' model specified > matchmaker #312 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.3) with AF3 E1 1-421.pdb, chain A (#312), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #313 --- Chain | Description A | No description available > matchmaker #313 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.3) with AF3 E1 422-461.pdb, chain A (#313), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.3/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > select #1.3/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #314 --- Chain | Description B | No description available > matchmaker #314 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.3) with AF3 E2 1-352.pdb, chain B (#314), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #315 --- Chain | Description B | No description available > matchmaker #315 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.3) with AF3 E2 353-438.pdb, chain B (#315), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.3/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #316 --- Chain | Description A | No description available > matchmaker #316 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.3) with AF3 CA.pdb, chain A (#316), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #312 dodgerblue > color #313 dodgerblue > color #314 #00b305ff > color #315 #00b305ff > color #316 #f15839ff > select #1.4/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #317 --- Chain | Description A | No description available > matchmaker #317 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.4) with AF3 E1 1-421.pdb, chain A (#317), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #318 --- Chain | Description A | No description available > matchmaker #318 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.4) with AF3 E1 422-461.pdb, chain A (#318), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.4/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #319 --- Chain | Description B | No description available > matchmaker #319 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.4) with AF3 E2 1-352.pdb, chain B (#319), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #320 --- Chain | Description B | No description available > matchmaker #320 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.4) with AF3 E2 353-438.pdb, chain B (#320), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.4/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #321 --- Chain | Description A | No description available > matchmaker #321 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.4) with AF3 CA.pdb, chain A (#321), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #317 dodgerblue > color #318 dodgerblue > color #319 #00b305ff > color #320 #00b305ff > color #321 #f15839ff > select #1.5/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #322 --- Chain | Description A | No description available > matchmaker #322 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.5) with AF3 E1 1-421.pdb, chain A (#322), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #323 --- Chain | Description A | No description available > matchmaker #323 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.5) with AF3 E1 422-461.pdb, chain A (#323), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.915) > hide sel cartoons > select #1.5/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #324 --- Chain | Description B | No description available > matchmaker #324 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.5) with AF3 E2 1-352.pdb, chain B (#324), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #325 --- Chain | Description B | No description available > matchmaker #325 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.5) with AF3 E2 353-438.pdb, chain B (#325), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.5/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #326 --- Chain | Description A | No description available > matchmaker #326 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.5) with AF3 CA.pdb, chain A (#326), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #322 dodgerblue > color #323 dodgerblue > color #324 #00b305ff > color #325 #00b305ff > color #326 #f15839ff > select #1.6/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #327 --- Chain | Description A | No description available > matchmaker #327 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.6) with AF3 E1 1-421.pdb, chain A (#327), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #328 --- Chain | Description A | No description available > matchmaker #328 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.6) with AF3 E1 422-461.pdb, chain A (#328), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.6/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #329 --- Chain | Description B | No description available > matchmaker #329 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.6) with AF3 E2 1-352.pdb, chain B (#329), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #330 --- Chain | Description B | No description available > matchmaker #330 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.6) with AF3 E2 353-438.pdb, chain B (#330), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.6/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #331 --- Chain | Description A | No description available > matchmaker #331 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.6) with AF3 CA.pdb, chain A (#331), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #327 dodgerblue > color #328 dodgerblue > color #329 #00b305ff > color #330 #00b305ff > color #331 #f15839ff > select #1.7/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #332 --- Chain | Description A | No description available > matchmaker #332 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.7) with AF3 E1 1-421.pdb, chain A (#332), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #333 --- Chain | Description A | No description available > matchmaker #333 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.7) with AF3 E1 422-461.pdb, chain A (#333), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.7/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #334 --- Chain | Description B | No description available > matchmaker #334 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.7) with AF3 E2 1-352.pdb, chain B (#334), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #335 --- Chain | Description B | No description available > matchmaker #335 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.7) with AF3 E2 353-438.pdb, chain B (#335), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.7/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #336 --- Chain | Description A | No description available > matchmaker #336 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.7) with AF3 CA.pdb, chain A (#336), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #332 dodgerblue > color #333 dodgerblue > color #334 #00b305ff > color #335 #00b305ff > color #336 #f15839ff > select #1.8/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #337 --- Chain | Description A | No description available > matchmaker #337 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.8) with AF3 E1 1-421.pdb, chain A (#337), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #338 --- Chain | Description A | No description available > matchmaker #338 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.8) with AF3 E1 422-461.pdb, chain A (#338), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.8/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #339 --- Chain | Description B | No description available > matchmaker #339 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.8) with AF3 E2 1-352.pdb, chain B (#339), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #340 --- Chain | Description B | No description available > matchmaker #340 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.8) with AF3 E2 353-438.pdb, chain B (#340), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.8/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #341 --- Chain | Description A | No description available > matchmaker #341 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.8) with AF3 CA.pdb, chain A (#341), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #337 dodgerblue > color #338 dodgerblue > color #339 #00b305ff > color #340 #00b305ff > color #341 #f15839ff > select #1.9/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #342 --- Chain | Description A | No description available > matchmaker #342 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.9) with AF3 E1 1-421.pdb, chain A (#342), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #343 --- Chain | Description A | No description available > matchmaker #343 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.9) with AF3 E1 422-461.pdb, chain A (#343), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.9/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #344 --- Chain | Description B | No description available > matchmaker #344 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.9) with AF3 E2 1-352.pdb, chain B (#344), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #345 --- Chain | Description B | No description available > matchmaker #345 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.9) with AF3 E2 353-438.pdb, chain B (#345), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.9/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #346 --- Chain | Description A | No description available > matchmaker #346 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.9) with AF3 CA.pdb, chain A (#346), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #342 dodgerblue > color #343 dodgerblue > color #344 #00b305ff > color #345 #00b305ff > color #346 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #302-346 models > select #1.10/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #347 --- Chain | Description A | No description available > matchmaker #347 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.10) with AF3 E1 1-421.pdb, chain A (#347), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #348 --- Chain | Description A | No description available > matchmaker #348 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.10) with AF3 E1 422-461.pdb, chain A (#348), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.10/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #349 --- Chain | Description B | No description available > matchmaker #349 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.10) with AF3 E2 1-352.pdb, chain B (#349), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #350 --- Chain | Description B | No description available > matchmaker #350 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.10) with AF3 E2 353-438.pdb, chain B (#350), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.10/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #351 --- Chain | Description A | No description available > matchmaker #351 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.10) with AF3 CA.pdb, chain A (#351), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #347 dodgerblue > color #348 dodgerblue > color #349 #00b305ff > color #350 #00b305ff > color #351 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.11/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #352 --- Chain | Description A | No description available > matchmaker #352 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.11) with AF3 E1 1-421.pdb, chain A (#352), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > view sel > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #353 --- Chain | Description A | No description available > matchmaker #353 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.11) with AF3 E1 422-461.pdb, chain A (#353), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.11/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #354 --- Chain | Description B | No description available > matchmaker #354 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.11) with AF3 E2 1-352.pdb, chain B (#354), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #355 --- Chain | Description B | No description available > matchmaker #355 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.11) with AF3 E2 353-438.pdb, chain B (#355), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.11/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #356 --- Chain | Description A | No description available > matchmaker #356 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.11) with AF3 CA.pdb, chain A (#356), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #352 dodgerblue > color #353 dodgerblue > color #354 #00b305ff > color #355 #00b305ff > color #356 #f15839ff > select #1.12/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #357 --- Chain | Description A | No description available > matchmaker #357 to #1.11 & sel No 'to' model specified > matchmaker #357 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.12) with AF3 E1 1-421.pdb, chain A (#357), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #358 --- Chain | Description A | No description available > matchmaker #358 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.12) with AF3 E1 422-461.pdb, chain A (#358), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.12/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #359 --- Chain | Description B | No description available > matchmaker #359 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.12) with AF3 E2 1-352.pdb, chain B (#359), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #360 --- Chain | Description B | No description available > matchmaker #360 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.12) with AF3 E2 353-438.pdb, chain B (#360), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.12/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #361 --- Chain | Description A | No description available > matchmaker #361 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.12) with AF3 CA.pdb, chain A (#361), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #357 dodgerblue > color #358 dodgerblue > color #359 #00b305ff > color #360 #00b305ff > color #361 #f15839ff > select #1.13/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > lighting soft > lighting full > lighting simple > lighting soft [Repeated 1 time(s)] > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #362 --- Chain | Description A | No description available > matchmaker #362 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.13) with AF3 E1 1-421.pdb, chain A (#362), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #363 --- Chain | Description A | No description available > matchmaker #363 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.13) with AF3 E1 422-461.pdb, chain A (#363), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > lighting simple > select #1.13/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #364 --- Chain | Description B | No description available > matchmaker #364 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.13) with AF3 E2 1-352.pdb, chain B (#364), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #365 --- Chain | Description B | No description available > matchmaker #365 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.13) with AF3 E2 353-438.pdb, chain B (#365), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.13/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #366 --- Chain | Description A | No description available > matchmaker #366 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.13) with AF3 CA.pdb, chain A (#366), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #362 dodgerblue > color #363 dodgerblue > color #364 #00b305ff > color #365 #00b305ff > color #366 #f15839ff > select #1.14/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #367 --- Chain | Description A | No description available > matchmaker #367 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.14) with AF3 E1 1-421.pdb, chain A (#367), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #368 --- Chain | Description A | No description available > matchmaker #368 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.14) with AF3 E1 422-461.pdb, chain A (#368), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.14/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #369 --- Chain | Description B | No description available > matchmaker #369 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.14) with AF3 E2 1-352.pdb, chain B (#369), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #370 --- Chain | Description B | No description available > matchmaker #370 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.14) with AF3 E2 353-438.pdb, chain B (#370), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.14/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #371 --- Chain | Description A | No description available > matchmaker #371 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.14) with AF3 CA.pdb, chain A (#371), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #367 dodgerblue > color #368 dodgerblue > color #369 #00b305ff > color #370 #00b305ff > color #371 #f15839ff > select #1.16/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #372 --- Chain | Description A | No description available > hide sel cartoons > select #1.15/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #372 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.15) with AF3 E1 1-421.pdb, chain A (#372), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #373 --- Chain | Description A | No description available > matchmaker #373 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.15) with AF3 E1 422-461.pdb, chain A (#373), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.15/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #374 --- Chain | Description B | No description available > matchmaker #374 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.15) with AF3 E2 1-352.pdb, chain B (#374), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #375 --- Chain | Description B | No description available > matchmaker #375 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.15) with AF3 E2 353-438.pdb, chain B (#375), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.15/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #376 --- Chain | Description A | No description available > matchmaker #376 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.15) with AF3 CA.pdb, chain A (#376), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #372 dodgerblue > color #373 dodgerblue > color #374 #00b305ff > color #375 #00b305ff > color #376 #f15839ff > select #1.16/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #377 --- Chain | Description A | No description available > matchmaker #377 to #1.15 & sel No 'to' model specified > matchmaker #377 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.16) with AF3 E1 1-421.pdb, chain A (#377), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #378 --- Chain | Description A | No description available > matchmaker #378 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.16) with AF3 E1 422-461.pdb, chain A (#378), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.16/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #379 --- Chain | Description B | No description available > matchmaker #379 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.16) with AF3 E2 1-352.pdb, chain B (#379), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #380 --- Chain | Description B | No description available > matchmaker #380 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.16) with AF3 E2 353-438.pdb, chain B (#380), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.16/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #381 --- Chain | Description A | No description available > matchmaker #381 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.16) with AF3 CA.pdb, chain A (#381), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #377 dodgerblue > color #378 dodgerblue > color #379 #00b305ff > color #380 #00b305ff > color #381 #f15839ff > select #1.17/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #382 --- Chain | Description A | No description available > matchmaker #382 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.17) with AF3 E1 1-421.pdb, chain A (#382), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #383 --- Chain | Description A | No description available > matchmaker #383 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.17) with AF3 E1 422-461.pdb, chain A (#383), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.915) > hide sel cartoons > select #1.17/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #384 --- Chain | Description B | No description available > matchmaker #384 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.17) with AF3 E2 1-352.pdb, chain B (#384), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #385 --- Chain | Description B | No description available > matchmaker #385 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.17) with AF3 E2 353-438.pdb, chain B (#385), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.17/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #386 --- Chain | Description A | No description available > matchmaker #386 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.17) with AF3 CA.pdb, chain A (#386), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #382 dodgerblue > color #383 dodgerblue > color #384 #00b305ff > color #385 #00b305ff > color #386 #f15839ff > select #1.18/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #387 --- Chain | Description A | No description available > matchmaker #387 to #1.17 & sel No 'to' model specified > matchmaker #387 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.18) with AF3 E1 1-421.pdb, chain A (#387), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #388 --- Chain | Description A | No description available > matchmaker #388 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.18) with AF3 E1 422-461.pdb, chain A (#388), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.18/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #389 --- Chain | Description B | No description available > matchmaker #389 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.18) with AF3 E2 1-352.pdb, chain B (#389), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #390 --- Chain | Description B | No description available > matchmaker #390 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.18) with AF3 E2 353-438.pdb, chain B (#390), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.18/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #391 --- Chain | Description A | No description available > matchmaker #391 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.18) with AF3 CA.pdb, chain A (#391), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #387 dodgerblue > color #388 dodgerblue > color #389 #00b305ff > color #390 #00b305ff > color #391 #f15839ff > select #1.19/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #392 --- Chain | Description A | No description available > matchmaker #391 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.19) with AF3 CA.pdb, chain A (#391), sequence alignment score = 32.6 RMSD between 11 pruned atom pairs is 1.228 angstroms; (across all 110 pairs: 22.710) > select #1.18/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #391 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.18) with AF3 CA.pdb, chain A (#391), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > select #1.19/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #393 --- Chain | Description A | No description available The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > close #393 > matchmaker #392 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.19) with AF3 E1 1-421.pdb, chain A (#392), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #393 --- Chain | Description A | No description available > matchmaker #393 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.19) with AF3 E1 422-461.pdb, chain A (#393), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.19/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #394 --- Chain | Description B | No description available > matchmaker #394 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.19) with AF3 E2 1-352.pdb, chain B (#394), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #395 --- Chain | Description B | No description available > matchmaker #395 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.19) with AF3 E2 353-438.pdb, chain B (#395), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.19/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #396 --- Chain | Description A | No description available > matchmaker #396 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.19) with AF3 CA.pdb, chain A (#396), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #392 dodgerblue > color #393 dodgerblue > color #394 #00b305ff > color #395 #00b305ff > color #396 #f15839ff > select #1.20/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #397 --- Chain | Description A | No description available > matchmaker #397 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.20) with AF3 E1 1-421.pdb, chain A (#397), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #398 --- Chain | Description A | No description available > matchmaker #398 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.20) with AF3 E1 422-461.pdb, chain A (#398), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.20/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #399 --- Chain | Description B | No description available > matchmaker #399 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.20) with AF3 E2 1-352.pdb, chain B (#399), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #400 --- Chain | Description B | No description available > matchmaker #400 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.20) with AF3 E2 353-438.pdb, chain B (#400), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.20/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #401 --- Chain | Description A | No description available > matchmaker #401 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.20) with AF3 CA.pdb, chain A (#401), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #397 dodgerblue > color #398 dodgerblue > color #399 #00b305ff > color #400 #00b305ff > color #401 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select add #347 4419 atoms, 4528 bonds, 583 residues, 2 models selected > select subtract #347 1277 atoms, 1305 bonds, 162 residues, 1 model selected > select add #347 4419 atoms, 4528 bonds, 583 residues, 2 models selected > select subtract #347 1277 atoms, 1305 bonds, 162 residues, 1 model selected > hide #347-396 models > select #1.21/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #402 --- Chain | Description A | No description available > matchmaker #402 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.21) with AF3 E1 1-421.pdb, chain A (#402), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #403 --- Chain | Description A | No description available > matchmaker #403 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.21) with AF3 E1 422-461.pdb, chain A (#403), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.21/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #404 --- Chain | Description B | No description available > matchmaker #404 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.21) with AF3 E2 1-352.pdb, chain B (#404), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #405 --- Chain | Description B | No description available > matchmaker #405 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.21) with AF3 E2 353-438.pdb, chain B (#405), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.21/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #406 --- Chain | Description A | No description available > matchmaker #406 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.21) with AF3 CA.pdb, chain A (#406), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #402 dodgerblue > color #403 dodgerblue > color #404 #00b305ff > color #405 #00b305ff > color #406 #f15839ff > select #1.22/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #407 --- Chain | Description A | No description available > matchmaker #407 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.22) with AF3 E1 1-421.pdb, chain A (#407), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #408 --- Chain | Description A | No description available > matchmaker #408 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.22) with AF3 E1 422-461.pdb, chain A (#408), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.22/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #409 --- Chain | Description B | No description available > matchmaker #409 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.22) with AF3 E2 1-352.pdb, chain B (#409), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #410 --- Chain | Description B | No description available > matchmaker #410 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.22) with AF3 E2 353-438.pdb, chain B (#410), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > select #1.22/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #411 --- Chain | Description A | No description available > matchmaker #411 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.22) with AF3 CA.pdb, chain A (#411), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #407 dodgerblue > color #408 dodgerblue > color #409 #00b305ff > color #410 #00b305ff > color #411 #f15839ff > select #1.22/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.23/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #412 --- Chain | Description A | No description available > matchmaker #412 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.23) with AF3 E1 1-421.pdb, chain A (#412), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #413 --- Chain | Description A | No description available > matchmaker #413 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.23) with AF3 E1 422-461.pdb, chain A (#413), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.23/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.23/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #414 --- Chain | Description B | No description available > matchmaker #414 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.23) with AF3 E2 1-352.pdb, chain B (#414), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #415 --- Chain | Description B | No description available > matchmaker #415 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.23) with AF3 E2 353-438.pdb, chain B (#415), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.23/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #416 --- Chain | Description A | No description available > matchmaker #416 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.23) with AF3 CA.pdb, chain A (#416), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #412 dodgerblue > color #413 dodgerblue > color #414 #00b305ff > color #415 #00b305ff > color #416 #f15839ff > select #1.24/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #417 --- Chain | Description A | No description available > matchmaker #417 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.24) with AF3 E1 1-421.pdb, chain A (#417), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #418 --- Chain | Description A | No description available > matchmaker #418 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.24) with AF3 E1 422-461.pdb, chain A (#418), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.24/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #419 --- Chain | Description B | No description available > matchmaker #419 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.24) with AF3 E2 1-352.pdb, chain B (#419), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #420 --- Chain | Description B | No description available > matchmaker #420 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.24) with AF3 E2 353-438.pdb, chain B (#420), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.24/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #421 --- Chain | Description A | No description available > matchmaker #421 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.24) with AF3 CA.pdb, chain A (#421), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #417 dodgerblue > color #418 dodgerblue > color #419 #00b305ff > color #420 #00b305ff > color #421 #f15839ff > select #1.25/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #422 --- Chain | Description A | No description available > matchmaker #422 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.25) with AF3 E1 1-421.pdb, chain A (#422), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #423 --- Chain | Description A | No description available > matchmaker #423 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.25) with AF3 E1 422-461.pdb, chain A (#423), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.25/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #424 --- Chain | Description B | No description available > matchmaker #424 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.25) with AF3 E2 1-352.pdb, chain B (#424), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #425 --- Chain | Description B | No description available > matchmaker #425 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.25) with AF3 E2 353-438.pdb, chain B (#425), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.25/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #426 --- Chain | Description A | No description available > matchmaker #426 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.25) with AF3 CA.pdb, chain A (#426), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #422 dodgerblue > color #423 dodgerblue > color #424 #00b305ff > color #425 #00b305ff > color #426 #f15839ff > select #1.26/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #427 --- Chain | Description A | No description available > matchmaker #427 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.26) with AF3 E1 1-421.pdb, chain A (#427), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #428 --- Chain | Description A | No description available > matchmaker #428 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.26) with AF3 E1 422-461.pdb, chain A (#428), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.26/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #429 --- Chain | Description B | No description available > matchmaker #429 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.26) with AF3 E2 1-352.pdb, chain B (#429), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #430 --- Chain | Description B | No description available > matchmaker #430 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.26) with AF3 E2 353-438.pdb, chain B (#430), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.26/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #431 --- Chain | Description A | No description available > matchmaker #431 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.26) with AF3 CA.pdb, chain A (#431), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #427 dodgerblue > color #428 dodgerblue > color #429 #00b305ff > color #430 #00b305ff > color #431 #f15839ff > select #1.27/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #432 --- Chain | Description A | No description available > matchmaker #432 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.27) with AF3 E1 1-421.pdb, chain A (#432), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #433 --- Chain | Description A | No description available > matchmaker #433 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.27) with AF3 E1 422-461.pdb, chain A (#433), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.27/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #434 --- Chain | Description B | No description available > matchmaker #434 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.27) with AF3 E2 1-352.pdb, chain B (#434), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #435 --- Chain | Description B | No description available > matchmaker #435 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.27) with AF3 E2 353-438.pdb, chain B (#435), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.27/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #436 --- Chain | Description A | No description available > matchmaker #436 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.27) with AF3 CA.pdb, chain A (#436), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #432 dodgerblue > color #433 dodgerblue > color #434 #00b305ff > color #435 #00b305ff > color #436 #f15839ff > select #1.28/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #437 --- Chain | Description A | No description available > matchmaker #437 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.28) with AF3 E1 1-421.pdb, chain A (#437), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #438 --- Chain | Description A | No description available > matchmaker #438 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.28) with AF3 E1 422-461.pdb, chain A (#438), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.28/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #439 --- Chain | Description B | No description available > matchmaker #439 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.28) with AF3 E2 1-352.pdb, chain B (#439), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #440 --- Chain | Description B | No description available > matchmaker #440 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.28) with AF3 E2 353-438.pdb, chain B (#440), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.28/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #441 --- Chain | Description A | No description available > matchmaker #441 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.28) with AF3 CA.pdb, chain A (#441), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #437 dodgerblue > color #438 dodgerblue > color #439 #00b305ff > color #440 #00b305ff > color #441 #f15839ff > select #1.29/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #442 --- Chain | Description A | No description available > matchmaker #442 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.29) with AF3 E1 1-421.pdb, chain A (#442), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #443 --- Chain | Description A | No description available > matchmaker #443 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.29) with AF3 E1 422-461.pdb, chain A (#443), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.29/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #444 --- Chain | Description B | No description available > matchmaker #444 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.29) with AF3 E2 1-352.pdb, chain B (#444), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #445 --- Chain | Description B | No description available > matchmaker #445 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.29) with AF3 E2 353-438.pdb, chain B (#445), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.29/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #446 --- Chain | Description A | No description available > matchmaker #446 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.29) with AF3 CA.pdb, chain A (#446), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #442 dodgerblue > color #443 dodgerblue > color #444 #00b305ff > color #445 #00b305ff > color #446 #f15839ff > select #1.30/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #447 --- Chain | Description A | No description available > matchmaker #447 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.30) with AF3 E1 1-421.pdb, chain A (#447), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #448 --- Chain | Description A | No description available > matchmaker #448 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.30) with AF3 E1 422-461.pdb, chain A (#448), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.30/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #449 --- Chain | Description B | No description available > matchmaker #449 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.30) with AF3 E2 1-352.pdb, chain B (#449), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #450 --- Chain | Description B | No description available > matchmaker #450 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.30) with AF3 E2 353-438.pdb, chain B (#450), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.30/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #451 --- Chain | Description A | No description available > matchmaker #451 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.30) with AF3 CA.pdb, chain A (#451), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #447 dodgerblue > color #448 dodgerblue > color #449 #00b305ff > color #450 #00b305ff > color #451 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #397-451 models > select #1.31/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #452 --- Chain | Description A | No description available > matchmaker #452 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.31) with AF3 E1 1-421.pdb, chain A (#452), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > view sel > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #453 --- Chain | Description A | No description available > matchmaker #453 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.31) with AF3 E1 422-461.pdb, chain A (#453), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > view > hide sel cartoons > select #1.31/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #454 --- Chain | Description B | No description available > matchmaker #454 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.31) with AF3 E2 1-352.pdb, chain B (#454), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #455 --- Chain | Description B | No description available > matchmaker #455 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.31) with AF3 E2 353-438.pdb, chain B (#455), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.31/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #456 --- Chain | Description A | No description available > matchmaker #456 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.31) with AF3 CA.pdb, chain A (#456), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #452 dodgerblue > color #453 dodgerblue > color #454 #00b305ff > color #455 #00b305ff > color #456 #f15839ff > select #1.32/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #457 --- Chain | Description A | No description available > matchmaker #457 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.32) with AF3 E1 1-421.pdb, chain A (#457), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #458 --- Chain | Description A | No description available > matchmaker #458 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.32) with AF3 E1 422-461.pdb, chain A (#458), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.31/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.32/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #459 --- Chain | Description B | No description available > matchmaker #459 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.32) with AF3 E2 1-352.pdb, chain B (#459), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #460 --- Chain | Description B | No description available > matchmaker #460 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.32) with AF3 E2 353-438.pdb, chain B (#460), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.32/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #461 --- Chain | Description A | No description available > matchmaker #461 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.32) with AF3 CA.pdb, chain A (#461), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #457 dodgerblue > color #458 dodgerblue > color #459 #00b305ff > color #460 #00b305ff > color #461 #f15839ff > select #1.33/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #462 --- Chain | Description A | No description available > matchmaker #462 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.33) with AF3 E1 1-421.pdb, chain A (#462), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #463 --- Chain | Description A | No description available > matchmaker #463 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.33) with AF3 E1 422-461.pdb, chain A (#463), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.33/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #464 --- Chain | Description B | No description available > matchmaker #464 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.33) with AF3 E2 1-352.pdb, chain B (#464), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #465 --- Chain | Description B | No description available > matchmaker #465 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.33) with AF3 E2 353-438.pdb, chain B (#465), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.33/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #466 --- Chain | Description A | No description available > matchmaker #466 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.33) with AF3 CA.pdb, chain A (#466), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #462 dodgerblue > color #463 dodgerblue > color #464 #00b305ff > color #465 #00b305ff > color #466 #f15839ff > select #1.34/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #467 --- Chain | Description A | No description available > view > matchmaker #467 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.34) with AF3 E1 1-421.pdb, chain A (#467), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #468 --- Chain | Description A | No description available > matchmaker #468 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.34) with AF3 E1 422-461.pdb, chain A (#468), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.34/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #469 --- Chain | Description B | No description available > matchmaker #469 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.34) with AF3 E2 1-352.pdb, chain B (#469), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #470 --- Chain | Description B | No description available > matchmaker #470 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.34) with AF3 E2 353-438.pdb, chain B (#470), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.34/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #471 --- Chain | Description A | No description available > matchmaker #471 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.34) with AF3 CA.pdb, chain A (#471), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #467 dodgerblue > color #468 dodgerblue > color #469 #00b305ff > color #470 #00b305ff > color #471 #f15839ff > select #1.35/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #472 --- Chain | Description A | No description available > matchmaker #472 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.35) with AF3 E1 1-421.pdb, chain A (#472), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #473 --- Chain | Description A | No description available > matchmaker #473 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.35) with AF3 E1 422-461.pdb, chain A (#473), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.35/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #474 --- Chain | Description B | No description available > matchmaker #474 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.35) with AF3 E2 1-352.pdb, chain B (#474), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #475 --- Chain | Description B | No description available > matchmaker #475 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.35) with AF3 E2 353-438.pdb, chain B (#475), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.35/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #476 --- Chain | Description A | No description available > matchmaker #476 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.35) with AF3 CA.pdb, chain A (#476), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #472 dodgerblue > color #473 dodgerblue > color #474 #00b305ff > color #475 #00b305ff > color #476 #f15839ff > select #1.36/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #477 --- Chain | Description A | No description available > matchmaker #477 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.36) with AF3 E1 1-421.pdb, chain A (#477), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #478 --- Chain | Description A | No description available > matchmaker #478 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.36) with AF3 E1 422-461.pdb, chain A (#478), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.36/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #479 --- Chain | Description B | No description available > matchmaker #479 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.36) with AF3 E2 1-352.pdb, chain B (#479), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #480 --- Chain | Description B | No description available > matchmaker #480 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.36) with AF3 E2 353-438.pdb, chain B (#480), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.36/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #481 --- Chain | Description A | No description available > matchmaker #481 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.36) with AF3 CA.pdb, chain A (#481), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #477 dodgerblue > color #478 dodgerblue > color #479 #00b305ff > color #480 #00b305ff > color #481 #f15839ff > select #1.37/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #482 --- Chain | Description A | No description available > matchmaker #482 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.37) with AF3 E1 1-421.pdb, chain A (#482), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #483 --- Chain | Description A | No description available > matchmaker #483 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.37) with AF3 E1 422-461.pdb, chain A (#483), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.37/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #484 --- Chain | Description B | No description available > matchmaker #484 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.37) with AF3 E2 1-352.pdb, chain B (#484), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #485 --- Chain | Description B | No description available > matchmaker #485 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.37) with AF3 E2 353-438.pdb, chain B (#485), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons [Repeated 1 time(s)] > select #1.37/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #486 --- Chain | Description A | No description available > matchmaker #486 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.37) with AF3 CA.pdb, chain A (#486), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons [Repeated 1 time(s)] > color #482 dodgerblue > color #483 dodgerblue > color #484 #00b305ff > color #485 #00b305ff > color #486 #f15839ff > select #1.38/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #487 --- Chain | Description A | No description available > matchmaker #487 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.38) with AF3 E1 1-421.pdb, chain A (#487), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #488 --- Chain | Description A | No description available > matchmaker #488 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.38) with AF3 E1 422-461.pdb, chain A (#488), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.38/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #489 --- Chain | Description B | No description available > matchmaker #489 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.38) with AF3 E2 1-352.pdb, chain B (#489), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #490 --- Chain | Description B | No description available > matchmaker #490 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.38) with AF3 E2 353-438.pdb, chain B (#490), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.38/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #491 --- Chain | Description A | No description available > matchmaker #491 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.38) with AF3 CA.pdb, chain A (#491), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons [Repeated 1 time(s)] > color #487 dodgerblue > color #488 dodgerblue > color #489 #00b305ff > color #490 #00b305ff > color #491 #f15839ff > select #1.39/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #492 --- Chain | Description A | No description available > matchmaker #492 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.39) with AF3 E1 1-421.pdb, chain A (#492), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #493 --- Chain | Description A | No description available > matchmaker #493 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.39) with AF3 E1 422-461.pdb, chain A (#493), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.39/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #494 --- Chain | Description B | No description available > matchmaker #494 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.39) with AF3 E2 1-352.pdb, chain B (#494), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #495 --- Chain | Description B | No description available > matchmaker #495 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.39) with AF3 E2 353-438.pdb, chain B (#495), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.39/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #496 --- Chain | Description A | No description available > matchmaker #496 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.39) with AF3 CA.pdb, chain A (#496), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #492 dodgerblue > color #493 dodgerblue > color #494 #00b305ff > color #495 #00b305ff > color #496 #f15839ff > select #1.40/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #497 --- Chain | Description A | No description available > matchmaker #497 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.40) with AF3 E1 1-421.pdb, chain A (#497), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #498 --- Chain | Description A | No description available > matchmaker #498 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.40) with AF3 E1 422-461.pdb, chain A (#498), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.40/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #499 --- Chain | Description B | No description available > matchmaker #499 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.40) with AF3 E2 1-352.pdb, chain B (#499), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #500 --- Chain | Description B | No description available > matchmaker #500 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.40) with AF3 E2 353-438.pdb, chain B (#500), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > select #1.40/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #501 --- Chain | Description A | No description available > matchmaker #501 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.40) with AF3 CA.pdb, chain A (#501), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > select #1.40/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #497 dodgerblue > color #498 dodgerblue > color #499 #00b305ff > color #500 #00b305ff > color #501 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #452-501 models > select #1.41/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #502 --- Chain | Description A | No description available > matchmaker #502 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.41) with AF3 E1 1-421.pdb, chain A (#502), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #503 --- Chain | Description A | No description available > matchmaker #503 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.41) with AF3 E1 422-461.pdb, chain A (#503), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.41/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #504 --- Chain | Description B | No description available > matchmaker #504 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.41) with AF3 E2 1-352.pdb, chain B (#504), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #505 --- Chain | Description B | No description available > matchmaker #505 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.41) with AF3 E2 353-438.pdb, chain B (#505), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.41/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #506 --- Chain | Description A | No description available > matchmaker #506 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.41) with AF3 CA.pdb, chain A (#506), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons [Repeated 1 time(s)] > color #502 dodgerblue > color #503 dodgerblue > color #504 #00b305ff > color #505 #00b305ff > color #506 #f15839ff > select #1.42/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #507 --- Chain | Description A | No description available > matchmaker #507 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.42) with AF3 E1 1-421.pdb, chain A (#507), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #508 --- Chain | Description A | No description available > matchmaker #508 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.42) with AF3 E1 422-461.pdb, chain A (#508), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.42/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #509 --- Chain | Description B | No description available > matchmaker #509 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.42) with AF3 E2 1-352.pdb, chain B (#509), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #510 --- Chain | Description B | No description available > matchmaker #510 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.42) with AF3 E2 353-438.pdb, chain B (#510), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.42/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #511 --- Chain | Description A | No description available > matchmaker #511 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.42) with AF3 CA.pdb, chain A (#511), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #507 dodgerblue > color #508 dodgerblue > color #509 #00b305ff > color #510 #00b305ff > color #511 #f15839ff > select #1.43/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #512 --- Chain | Description A | No description available > matchmaker #512 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.43) with AF3 E1 1-421.pdb, chain A (#512), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #513 --- Chain | Description A | No description available > matchmaker #513 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.43) with AF3 E1 422-461.pdb, chain A (#513), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.43/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #514 --- Chain | Description B | No description available > matchmaker #514 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.43) with AF3 E2 1-352.pdb, chain B (#514), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #515 --- Chain | Description B | No description available > matchmaker #515 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.43) with AF3 E2 353-438.pdb, chain B (#515), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.43/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #516 --- Chain | Description A | No description available > matchmaker #516 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.43) with AF3 CA.pdb, chain A (#516), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #512 dodgerblue > color #513 dodgerblue > color #515 #00b305ff > color #516 #f15839ff > select #1.44/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #517 --- Chain | Description A | No description available > matchmaker #517 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.44) with AF3 E1 1-421.pdb, chain A (#517), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #518 --- Chain | Description A | No description available > matchmaker #518 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.44) with AF3 E1 422-461.pdb, chain A (#518), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.44/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #519 --- Chain | Description B | No description available > matchmaker #519 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.44) with AF3 E2 1-352.pdb, chain B (#519), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #520 --- Chain | Description B | No description available > matchmaker #520 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.44) with AF3 E2 353-438.pdb, chain B (#520), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.44/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #521 --- Chain | Description A | No description available > matchmaker #521 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.44) with AF3 CA.pdb, chain A (#521), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #517 dodgerblue > color #518 dodgerblue > color #519 #00b305ff > color #520 #00b305ff > color #521 #f15839ff > select #1.45/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #522 --- Chain | Description A | No description available > matchmaker #522 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.45) with AF3 E1 1-421.pdb, chain A (#522), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #523 --- Chain | Description A | No description available > matchmaker #523 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.45) with AF3 E1 422-461.pdb, chain A (#523), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.45/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #524 --- Chain | Description B | No description available > matchmaker #524 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.45) with AF3 E2 1-352.pdb, chain B (#524), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #525 --- Chain | Description B | No description available > matchmaker #525 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.45) with AF3 E2 353-438.pdb, chain B (#525), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.45/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #526 --- Chain | Description A | No description available > matchmaker #526 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.45) with AF3 CA.pdb, chain A (#526), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #522 dodgerblue > color #523 dodgerblue > color #524 #00b305ff > color #525 #00b305ff > color #526 #f15839ff > select #1.46/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #527 --- Chain | Description A | No description available > matchmaker #527 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.46) with AF3 E1 1-421.pdb, chain A (#527), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #528 --- Chain | Description A | No description available > matchmaker #528 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.46) with AF3 E1 422-461.pdb, chain A (#528), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.46/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #529 --- Chain | Description B | No description available > matchmaker #529 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.46) with AF3 E2 1-352.pdb, chain B (#529), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #530 --- Chain | Description B | No description available > matchmaker #530 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.46) with AF3 E2 353-438.pdb, chain B (#530), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.46/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #531 --- Chain | Description A | No description available > matchmaker #531 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.46) with AF3 CA.pdb, chain A (#531), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #527 dodgerblue > color #528 dodgerblue > color #529 #00b305ff > color #530 #00b305ff > color #531 #f15839ff > select #1.47/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #532 --- Chain | Description A | No description available > matchmaker #532 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.47) with AF3 E1 1-421.pdb, chain A (#532), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #533 --- Chain | Description A | No description available > matchmaker #533 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.47) with AF3 E1 422-461.pdb, chain A (#533), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.47/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #534 --- Chain | Description B | No description available > matchmaker #534 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.47) with AF3 E2 1-352.pdb, chain B (#534), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #535 --- Chain | Description B | No description available > matchmaker #535 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.47) with AF3 E2 353-438.pdb, chain B (#535), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.47/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #536 --- Chain | Description A | No description available > matchmaker #536 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.47) with AF3 CA.pdb, chain A (#536), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #532 dodgerblue > color #533 dodgerblue > color #534 #00b305ff > color #535 #00b305ff > color #536 #f15839ff > select #1.48/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #537 --- Chain | Description A | No description available > matchmaker #537 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.48) with AF3 E1 1-421.pdb, chain A (#537), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #538 --- Chain | Description A | No description available > matchmaker #538 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.48) with AF3 E1 422-461.pdb, chain A (#538), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.48/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #539 --- Chain | Description B | No description available > matchmaker #539 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.48) with AF3 E2 1-352.pdb, chain B (#539), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #540 --- Chain | Description B | No description available > matchmaker #540 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.48) with AF3 E2 353-438.pdb, chain B (#540), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.48/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #541 --- Chain | Description A | No description available > matchmaker #541 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.48) with AF3 CA.pdb, chain A (#541), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #537 dodgerblue > color #538 dodgerblue > color #539 #00b305ff > color #540 #00b305ff > color #541 #f15839ff > select #1.49/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #542 --- Chain | Description A | No description available > matchmaker #542 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.49) with AF3 E1 1-421.pdb, chain A (#542), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #543 --- Chain | Description A | No description available > matchmaker #543 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.49) with AF3 E1 422-461.pdb, chain A (#543), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.49/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #544 --- Chain | Description B | No description available > matchmaker #544 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.49) with AF3 E2 1-352.pdb, chain B (#544), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #545 --- Chain | Description B | No description available > matchmaker #545 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.49) with AF3 E2 353-438.pdb, chain B (#545), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.49/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #546 --- Chain | Description A | No description available > matchmaker #546 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.49) with AF3 CA.pdb, chain A (#546), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #542 dodgerblue > color #543 dodgerblue > color #544 #00b305ff > color #545 #00b305ff > color #546 #f15839ff > select #1.50/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #547 --- Chain | Description A | No description available > matchmaker #547 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.50) with AF3 E1 1-421.pdb, chain A (#547), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #548 --- Chain | Description A | No description available > matchmaker #548 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.50) with AF3 E1 422-461.pdb, chain A (#548), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.50/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #549 --- Chain | Description B | No description available > matchmaker #549 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.50) with AF3 E2 1-352.pdb, chain B (#549), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #550 --- Chain | Description B | No description available > matchmaker #550 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.50) with AF3 E2 353-438.pdb, chain B (#550), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.50/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #551 --- Chain | Description A | No description available > matchmaker #551 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.50) with AF3 CA.pdb, chain A (#551), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #547 dodgerblue > color #548 dodgerblue > color #549 #00b305ff > color #550 #00b305ff > color #551 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #502-551 models > show #547 models > show #548 models > select #1.50/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons [Repeated 1 time(s)] > hide #547 models > hide #548 models > select #1.51/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #552 --- Chain | Description A | No description available > matchmaker #552 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.51) with AF3 E1 1-421.pdb, chain A (#552), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #553 --- Chain | Description A | No description available > matchmaker #553 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.51) with AF3 E1 422-461.pdb, chain A (#553), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.51/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #554 --- Chain | Description B | No description available > matchmaker #554 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.51) with AF3 E2 1-352.pdb, chain B (#554), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #555 --- Chain | Description B | No description available > matchmaker #555 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.51) with AF3 E2 353-438.pdb, chain B (#555), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.51/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #556 --- Chain | Description A | No description available > matchmaker #556 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.51) with AF3 CA.pdb, chain A (#556), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #552 dodgerblue > color #553 dodgerblue > color #554 #00b305ff > color #555 #00b305ff > color #556 #f15839ff > select #1.52/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #557 --- Chain | Description A | No description available > matchmaker #557 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.52) with AF3 E1 1-421.pdb, chain A (#557), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #558 --- Chain | Description A | No description available > matchmaker #558 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.52) with AF3 E1 422-461.pdb, chain A (#558), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.52/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #559 --- Chain | Description B | No description available > matchmaker #559 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.52) with AF3 E2 1-352.pdb, chain B (#559), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #560 --- Chain | Description B | No description available > matchmaker #560 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.52) with AF3 E2 353-438.pdb, chain B (#560), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.52/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #561 --- Chain | Description A | No description available > matchmaker #561 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.52) with AF3 CA.pdb, chain A (#561), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #557 dodgerblue > color #558 dodgerblue > color #559 #00b305ff > color #560 #00b305ff > color #561 #f15839ff > select #1.53/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > select #1.53/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #562 --- Chain | Description A | No description available > matchmaker #562 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.53) with AF3 E1 1-421.pdb, chain A (#562), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #563 --- Chain | Description A | No description available > matchmaker #563 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.53) with AF3 E1 422-461.pdb, chain A (#563), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #564 --- Chain | Description B | No description available > select #1.53/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > matchmaker #564 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.53) with AF3 E2 1-352.pdb, chain B (#564), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #565 --- Chain | Description B | No description available > matchmaker #565 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.53) with AF3 E2 353-438.pdb, chain B (#565), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.53/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #566 --- Chain | Description A | No description available > matchmaker #566 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.53) with AF3 CA.pdb, chain A (#566), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #562 dodgerblue > color #563 dodgerblue > color #564 #00b305ff > color #565 #00b305ff > color #566 #f15839ff > select #1.54/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #567 --- Chain | Description A | No description available > matchmaker #567 to #1.53 & sel No 'to' model specified > matchmaker #567 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.54) with AF3 E1 1-421.pdb, chain A (#567), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #568 --- Chain | Description A | No description available > matchmaker #568 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.54) with AF3 E1 422-461.pdb, chain A (#568), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.54/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #569 --- Chain | Description B | No description available > matchmaker #569 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.54) with AF3 E2 1-352.pdb, chain B (#569), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #570 --- Chain | Description B | No description available > matchmaker #570 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.54) with AF3 E2 353-438.pdb, chain B (#570), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.54/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #571 --- Chain | Description A | No description available > matchmaker #571 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.54) with AF3 CA.pdb, chain A (#571), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #567 dodgerblue > color #568 dodgerblue > color #569 #00b305ff > color #570 #00b305ff > color #571 #f15839ff > select #1.55/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #572 --- Chain | Description A | No description available > matchmaker #572 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.55) with AF3 E1 1-421.pdb, chain A (#572), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #573 --- Chain | Description A | No description available > matchmaker #573 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.55) with AF3 E1 422-461.pdb, chain A (#573), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.55/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #574 --- Chain | Description B | No description available > matchmaker #574 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.55) with AF3 E2 1-352.pdb, chain B (#574), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #575 --- Chain | Description B | No description available > matchmaker #575 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.55) with AF3 E2 353-438.pdb, chain B (#575), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select #1.55/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #576 --- Chain | Description A | No description available > matchmaker #576 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.55) with AF3 CA.pdb, chain A (#576), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #572 dodgerblue > color #573 dodgerblue > color #574 #00b305ff > color #575 #00b305ff > color #576 #f15839ff > select #1.56/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #577 --- Chain | Description A | No description available > matchmaker #577 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.56) with AF3 E1 1-421.pdb, chain A (#577), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #578 --- Chain | Description A | No description available > matchmaker #578 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.56) with AF3 E1 422-461.pdb, chain A (#578), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.56/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #579 --- Chain | Description B | No description available > matchmaker #579 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.56) with AF3 E2 1-352.pdb, chain B (#579), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #580 --- Chain | Description B | No description available > matchmaker #580 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.56) with AF3 E2 353-438.pdb, chain B (#580), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.56/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #581 --- Chain | Description A | No description available > matchmaker #581 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.56) with AF3 CA.pdb, chain A (#581), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #577 dodgerblue > color #578 dodgerblue > color #579 #00b305ff > color #580 #00b305ff > color #581 #f15839ff > select #1.57/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #582 --- Chain | Description A | No description available > matchmaker #582 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.57) with AF3 E1 1-421.pdb, chain A (#582), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #583 --- Chain | Description A | No description available > matchmaker #583 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.57) with AF3 E1 422-461.pdb, chain A (#583), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.57/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #584 --- Chain | Description B | No description available > matchmaker #584 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.57) with AF3 E2 1-352.pdb, chain B (#584), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #585 --- Chain | Description B | No description available > matchmaker #585 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.57) with AF3 E2 353-438.pdb, chain B (#585), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.57/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #586 --- Chain | Description A | No description available > matchmaker #586 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.57) with AF3 CA.pdb, chain A (#586), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #582 dodgerblue > color #583 dodgerblue > color #584 #00b305ff > color #585 #00b305ff > color #586 #f15839ff > select #1.58/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #587 --- Chain | Description A | No description available > matchmaker #587 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.58) with AF3 E1 1-421.pdb, chain A (#587), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #588 --- Chain | Description A | No description available > matchmaker #588 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.58) with AF3 E1 422-461.pdb, chain A (#588), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel atoms > hide sel cartoons > select #1.58/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #589 --- Chain | Description B | No description available > matchmaker #589 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.58) with AF3 E2 1-352.pdb, chain B (#589), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #590 --- Chain | Description B | No description available > matchmaker #590 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.58) with AF3 E2 353-438.pdb, chain B (#590), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.58/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #591 --- Chain | Description A | No description available > matchmaker #591 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.58) with AF3 CA.pdb, chain A (#591), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #587 dodgerblue > color #588 dodgerblue > color #589 #00b305ff > color #590 #00b305ff > color #591 #f15839ff > select #1.59/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #592 --- Chain | Description A | No description available > matchmaker #592 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.59) with AF3 E1 1-421.pdb, chain A (#592), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #593 --- Chain | Description A | No description available > matchmaker #593 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.59) with AF3 E1 422-461.pdb, chain A (#593), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.59/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #594 --- Chain | Description B | No description available > matchmaker #594 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.59) with AF3 E2 1-352.pdb, chain B (#594), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #595 --- Chain | Description B | No description available > matchmaker #595 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.59) with AF3 E2 353-438.pdb, chain B (#595), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.59/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #596 --- Chain | Description A | No description available > matchmaker #596 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.59) with AF3 CA.pdb, chain A (#596), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel atoms > hide sel cartoons > color #592 dodgerblue > color #593 dodgerblue > color #594 #00b305ff > color #595 #00b305ff > color #596 #f15839ff > select #1.60/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #597 --- Chain | Description A | No description available > matchmaker #597 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.60) with AF3 E1 1-421.pdb, chain A (#597), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #598 --- Chain | Description A | No description available > matchmaker #598 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.60) with AF3 E1 422-461.pdb, chain A (#598), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.60/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #599 --- Chain | Description B | No description available > matchmaker #599 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.60) with AF3 E2 1-352.pdb, chain B (#599), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #600 --- Chain | Description B | No description available > matchmaker #600 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.60) with AF3 E2 353-438.pdb, chain B (#600), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.60/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #601 --- Chain | Description A | No description available > matchmaker #601 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.60) with AF3 CA.pdb, chain A (#601), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #597 dodgerblue > color #598 dodgerblue > color #599 #00b305ff > color #600 #00b305ff > color #601 #f15839ff > view sel No displayed objects specified. > view > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > show #2-601 models > view > hide sel cartoons > save /Users/Jean/Desktop/image1.png supersample 3 > hide #300 models > show #300 models > hide #299 models > show #299 models > hide #299 models > show #299 models > select 2871120 atoms, 2944244 bonds, 373800 residues, 661 models selected > show sel cartoons > hide #!1 models > select subtract #1 962880 atoms, 985560 bonds, 127320 residues, 600 models selected > select clear > view > hide #2-601 cartoons > show #2-601 atoms > style #2-601 sphere Changed 962880 atom styles > save /Users/Jean/Desktop/image1.png supersample 3 > view > color #514 #00b305ff > view > hide #2-601 atoms > show #2-601 cartoons > save /Users/Jean/Desktop/image2.png supersample 3 > hide #2-601 cartoons > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show #2-601 cartoons > select clear > hide #2-601 cartoons > select clear > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show #2-601 cartoons > hide #2-601 models > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > view sel No displayed objects specified. > show #!1 models > select ~sel & ##selected 28434 atoms, 29221 bonds, 3666 residues, 1 model selected > select ~sel 2842686 atoms, 2915023 bonds, 370134 residues, 661 models selected > hide sel & #1.1-60 cartoons > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > ui mousemode right select > select clear > select #1.1/B:287 8 atoms, 7 bonds, 1 residue, 1 model selected > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide #1.1 models > show #1.1 models > hide #1.1 models > show #1.1 models > select add #1.1 31804 atoms, 32688 bonds, 4108 residues, 1 model selected > select subtract #1.1 Nothing selected > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > select ~sel & ##selected 28434 atoms, 29221 bonds, 3666 residues, 1 model selected > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #602 --- Chain | Description A | No description available > view sel No displayed objects specified. > view > matchmaker #602 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 1-421.pdb, chain A (#602), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > matchmaker #602 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E1 1-421.pdb, chain A (#602), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #603 --- Chain | Description A | No description available > matchmaker #603 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E1 422-461.pdb, chain A (#603), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #604 --- Chain | Description B | No description available > matchmaker #603 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.1) with AF3 E1 422-461.pdb, chain A (#603), sequence alignment score = 9.2 RMSD between 6 pruned atom pairs is 0.871 angstroms; (across all 11 pairs: 3.614) > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #603 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E1 422-461.pdb, chain A (#603), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > matchmaker #604 to #1.2 & sel No 'to' model specified > matchmaker #604 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E2 1-352.pdb, chain B (#604), sequence alignment score = 71.8 RMSD between 4 pruned atom pairs is 1.398 angstroms; (across all 265 pairs: 48.114) > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > matchmaker #604 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.1) with AF3 E2 1-352.pdb, chain B (#604), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #605 --- Chain | Description B | No description available > matchmaker #605 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.1) with AF3 E2 353-438.pdb, chain B (#605), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > show sel atoms > hide sel cartoons > hide sel atoms > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.1/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #606 --- Chain | Description A | No description available > matchmaker #606 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.1) with AF3 CA.pdb, chain A (#606), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #602 dodgerblue > color #603 dodgerblue > color #604 #00b305ff > color #605 #00b305ff > color #606 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Tue Jul 16 18:02:55 2024 ——— opened ChimeraX session > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select #1.2/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #607 --- Chain | Description A | No description available > matchmaker #607 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.2) with AF3 E1 1-421.pdb, chain A (#607), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #608 --- Chain | Description A | No description available > matchmaker #608 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.2) with AF3 E1 422-461.pdb, chain A (#608), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > select #1.2/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #609 --- Chain | Description B | No description available > matchmaker #609 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.2) with AF3 E2 1-352.pdb, chain B (#609), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #610 --- Chain | Description B | No description available > matchmaker #610 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.2) with AF3 E2 353-438.pdb, chain B (#610), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.2/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #611 --- Chain | Description A | No description available > matchmaker #611 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.2) with AF3 CA.pdb, chain A (#611), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #607 dodgerblue > color #608 dodgerblue > color #609 #00b305ff > color #610 #00b305ff > color #611 #f15839ff > select #1.2/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.3/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #612 --- Chain | Description A | No description available > matchmaker #612 to #1.2 & sel No 'to' model specified > matchmaker #612 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.3) with AF3 E1 1-421.pdb, chain A (#612), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > matchmaker #612 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.3) with AF3 E1 1-421.pdb, chain A (#612), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #613 --- Chain | Description A | No description available > matchmaker #613 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.3) with AF3 E1 422-461.pdb, chain A (#613), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.3/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #614 --- Chain | Description B | No description available > matchmaker #614 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.3) with AF3 E2 1-352.pdb, chain B (#614), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #615 --- Chain | Description B | No description available > matchmaker #615 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.3) with AF3 E2 353-438.pdb, chain B (#615), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.3/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #616 --- Chain | Description A | No description available > matchmaker #616 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.3) with AF3 CA.pdb, chain A (#616), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #612 dodgerblue > color #613 dodgerblue > color #614 #00b305ff > color #615 #00b305ff > color #616 #f15839ff > select #1.4/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.3/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.4/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #617 --- Chain | Description A | No description available > matchmaker #617 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.4) with AF3 E1 1-421.pdb, chain A (#617), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > hide sel cartoons > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #618 --- Chain | Description A | No description available > matchmaker #618 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.4) with AF3 E1 422-461.pdb, chain A (#618), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.4/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #619 --- Chain | Description B | No description available > matchmaker #619 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.4) with AF3 E2 1-352.pdb, chain B (#619), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #620 --- Chain | Description B | No description available > matchmaker #620 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.4) with AF3 E2 353-438.pdb, chain B (#620), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.4/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #621 --- Chain | Description A | No description available > matchmaker #621 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.4) with AF3 CA.pdb, chain A (#621), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #617 dodgerblue > color #618 dodgerblue > color #619 #00b305ff > color #620 #00b305ff > color #621 #f15839ff > select #1.5/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #622 --- Chain | Description A | No description available > matchmaker #622 to #1.4 & sel No 'to' model specified > matchmaker #622 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.5) with AF3 E1 1-421.pdb, chain A (#622), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #623 --- Chain | Description A | No description available > matchmaker #623 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.5) with AF3 E1 422-461.pdb, chain A (#623), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.5/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #624 --- Chain | Description B | No description available > matchmaker #624 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.5) with AF3 E2 1-352.pdb, chain B (#624), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #625 --- Chain | Description B | No description available > hide sel cartoons > show sel cartoons > matchmaker #625 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.5) with AF3 E2 353-438.pdb, chain B (#625), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > select #1.5/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #626 --- Chain | Description A | No description available > matchmaker #626 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.5) with AF3 CA.pdb, chain A (#626), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #622 dodgerblue > color #623 dodgerblue > color #624 #00b305ff > color #625 #00b305ff > color #626 #f15839ff > select #1.5/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.6/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #627 --- Chain | Description A | No description available > matchmaker #627 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.6) with AF3 E1 1-421.pdb, chain A (#627), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #628 --- Chain | Description A | No description available > matchmaker #628 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.6) with AF3 E1 422-461.pdb, chain A (#628), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.6/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #629 --- Chain | Description B | No description available > matchmaker #629 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.6) with AF3 E2 1-352.pdb, chain B (#629), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #630 --- Chain | Description B | No description available > matchmaker #630 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.6) with AF3 E2 353-438.pdb, chain B (#630), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.6/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #631 --- Chain | Description A | No description available > matchmaker #631 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.6) with AF3 CA.pdb, chain A (#631), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #627 dodgerblue > color #628 dodgerblue > color #629 #00b305ff > color #630 #00b305ff > color #631 #f15839ff > select #1.7/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #632 --- Chain | Description A | No description available > matchmaker #632 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.7) with AF3 E1 1-421.pdb, chain A (#632), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #633 --- Chain | Description A | No description available > matchmaker #633 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.7) with AF3 E1 422-461.pdb, chain A (#633), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.7/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #634 --- Chain | Description B | No description available > matchmaker #634 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.7) with AF3 E2 1-352.pdb, chain B (#634), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #635 --- Chain | Description B | No description available > matchmaker #635 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.7) with AF3 E2 353-438.pdb, chain B (#635), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.7/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #636 --- Chain | Description A | No description available > matchmaker #636 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.7) with AF3 CA.pdb, chain A (#636), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #632 dodgerblue > color #633 dodgerblue > color #634 #00b305ff > color #635 #00b305ff > color #636 #f15839ff > select #1.8/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #637 --- Chain | Description A | No description available > matchmaker #637 to #1.7 & sel No 'to' model specified > matchmaker #637 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.8) with AF3 E1 1-421.pdb, chain A (#637), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #638 --- Chain | Description A | No description available > matchmaker #638 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.8) with AF3 E1 422-461.pdb, chain A (#638), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.8/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #639 --- Chain | Description B | No description available > matchmaker #639 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.8) with AF3 E2 1-352.pdb, chain B (#639), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #640 --- Chain | Description B | No description available > matchmaker #640 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.8) with AF3 E2 353-438.pdb, chain B (#640), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.8/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #641 --- Chain | Description A | No description available > matchmaker #641 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.8) with AF3 CA.pdb, chain A (#641), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #637 dodgerblue > color #638 dodgerblue > color #639 #00b305ff > color #640 #00b305ff > color #641 #f15839ff > select #1.9/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #642 --- Chain | Description A | No description available > matchmaker #642 to #1.8 & sel No 'to' model specified > matchmaker #642 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.9) with AF3 E1 1-421.pdb, chain A (#642), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #643 --- Chain | Description A | No description available > matchmaker #643 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.9) with AF3 E1 422-461.pdb, chain A (#643), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.9/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #644 --- Chain | Description B | No description available > matchmaker #644 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.9) with AF3 E2 1-352.pdb, chain B (#644), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #645 --- Chain | Description B | No description available > matchmaker #645 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.9) with AF3 E2 353-438.pdb, chain B (#645), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.9/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #646 --- Chain | Description A | No description available > matchmaker #646 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.9) with AF3 CA.pdb, chain A (#646), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #642 dodgerblue > color #643 dodgerblue > color #644 #00b305ff > color #645 #00b305ff > color #646 #f15839ff > select #1.10/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #647 --- Chain | Description A | No description available > matchmaker #647 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.10) with AF3 E1 1-421.pdb, chain A (#647), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #648 --- Chain | Description A | No description available > matchmaker #648 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.10) with AF3 E1 422-461.pdb, chain A (#648), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.10/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #649 --- Chain | Description B | No description available > matchmaker #649 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.10) with AF3 E2 1-352.pdb, chain B (#649), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #650 --- Chain | Description B | No description available > matchmaker #650 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.10) with AF3 E2 353-438.pdb, chain B (#650), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.10/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #651 --- Chain | Description A | No description available > matchmaker #651 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.10) with AF3 CA.pdb, chain A (#651), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #647 dodgerblue > color #648 dodgerblue > color #649 #00b305ff > color #650 #00b305ff > color #651 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #602 models > hide #603 models > hide #604 models > hide #605 models > hide #606 models > hide #607 models > hide #608 models > hide #609 models > hide #610 models > hide #611 models > hide #612 models > hide #613 models > hide #614 models > hide #615 models > hide #616 models > hide #617 models > hide #618 models > hide #619 models > hide #620 models > hide #621 models > hide #622 models > hide #623 models > hide #624 models > hide #625 models > hide #626 models > hide #627 models > hide #628 models > hide #629 models > hide #630 models > hide #631 models > hide #632 models > hide #633 models > hide #634 models > hide #635 models > hide #636 models > hide #637 models > hide #638 models > hide #639 models > hide #640 models > hide #641 models > hide #642 models > hide #643 models > hide #644 models > hide #645 models > hide #646 models > hide #647 models > hide #648 models > hide #649 models > hide #650 models > hide #651 models > select #1.11/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #652 --- Chain | Description A | No description available > matchmaker #652 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.11) with AF3 E1 1-421.pdb, chain A (#652), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > view > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #653 --- Chain | Description A | No description available > matchmaker #653 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.11) with AF3 E1 422-461.pdb, chain A (#653), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.11/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #654 --- Chain | Description B | No description available > matchmaker #654 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.11) with AF3 E2 1-352.pdb, chain B (#654), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #655 --- Chain | Description B | No description available > matchmaker #655 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.11) with AF3 E2 353-438.pdb, chain B (#655), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.11/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #656 --- Chain | Description A | No description available > matchmaker #656 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.11) with AF3 CA.pdb, chain A (#656), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #652 dodgerblue > color #653 dodgerblue > color #654 #00b305ff > color #655 #00b305ff > color #656 #f15839ff > select #1.12/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #657 --- Chain | Description A | No description available > matchmaker #657 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.12) with AF3 E1 1-421.pdb, chain A (#657), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #658 --- Chain | Description A | No description available > matchmaker #658 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.12) with AF3 E1 422-461.pdb, chain A (#658), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.12/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #659 --- Chain | Description B | No description available > matchmaker #659 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.12) with AF3 E2 1-352.pdb, chain B (#659), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #660 --- Chain | Description B | No description available > matchmaker #660 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.12) with AF3 E2 353-438.pdb, chain B (#660), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.12/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #661 --- Chain | Description A | No description available > matchmaker #661 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.12) with AF3 CA.pdb, chain A (#661), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #657 dodgerblue > color #658 dodgerblue > color #659 #00b305ff > color #660 #00b305ff > color #661 #f15839ff > select #1.13/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #662 --- Chain | Description A | No description available > matchmaker #662 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.13) with AF3 E1 1-421.pdb, chain A (#662), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #663 --- Chain | Description A | No description available > matchmaker #663 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.13) with AF3 E1 422-461.pdb, chain A (#663), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.13/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #664 --- Chain | Description A | No description available > matchmaker #664 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.13) with AF3 CA.pdb, chain A (#664), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #665 --- Chain | Description B | No description available > matchmaker #665 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 1-352.pdb, chain B (#665), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #666 --- Chain | Description B | No description available > matchmaker #666 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 353-438.pdb, chain B (#666), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > close #664 > select #1.13/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #664 --- Chain | Description A | No description available > close #666 > close #665 > close #664 > hide sel cartoons > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #664 --- Chain | Description B | No description available > matchmaker #664 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 1-352.pdb, chain B (#664), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #665 --- Chain | Description B | No description available > matchmaker #665 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 353-438.pdb, chain B (#665), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.13/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #666 --- Chain | Description A | No description available > matchmaker #666 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.13) with AF3 CA.pdb, chain A (#666), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #662 dodgerblue > color #663 dodgerblue > color #664 #00b305ff > color #665 #00b305ff > color #666 #f15839ff > select #1.14/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #667 --- Chain | Description A | No description available > matchmaker #667 to #1.13 & sel No 'to' model specified > matchmaker #667 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.14) with AF3 E1 1-421.pdb, chain A (#667), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #668 --- Chain | Description A | No description available > matchmaker #668 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.14) with AF3 E1 422-461.pdb, chain A (#668), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > select #1.14/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #669 --- Chain | Description B | No description available > matchmaker #669 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.14) with AF3 E2 1-352.pdb, chain B (#669), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #670 --- Chain | Description B | No description available > matchmaker #670 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.14) with AF3 E2 353-438.pdb, chain B (#670), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.14/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #671 --- Chain | Description A | No description available > matchmaker #671 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.14) with AF3 CA.pdb, chain A (#671), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #667 dodgerblue > color #668 dodgerblue > color #669 #00b305ff > color #670 #00b305ff > color #671 #f15839ff > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.14/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.15/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #672 --- Chain | Description A | No description available > matchmaker #672 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.15) with AF3 E1 1-421.pdb, chain A (#672), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #673 --- Chain | Description A | No description available > matchmaker #673 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.15) with AF3 E1 422-461.pdb, chain A (#673), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.15/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #674 --- Chain | Description B | No description available > matchmaker #674 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.15) with AF3 E2 1-352.pdb, chain B (#674), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #675 --- Chain | Description B | No description available > matchmaker #675 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.15) with AF3 E2 353-438.pdb, chain B (#675), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.15/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #676 --- Chain | Description A | No description available > matchmaker #676 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.15) with AF3 CA.pdb, chain A (#676), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #672 dodgerblue > color #673 dodgerblue > color #674 #00b305ff > color #675 #00b305ff > color #676 #f15839ff > select #1.16/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #677 --- Chain | Description A | No description available > matchmaker #677 to #1.15 & sel No 'to' model specified > matchmaker #677 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.16) with AF3 E1 1-421.pdb, chain A (#677), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #678 --- Chain | Description A | No description available > matchmaker #678 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.16) with AF3 E1 422-461.pdb, chain A (#678), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.16/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #679 --- Chain | Description B | No description available > matchmaker #679 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.16) with AF3 E2 1-352.pdb, chain B (#679), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #680 --- Chain | Description B | No description available > matchmaker #680 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.16) with AF3 E2 353-438.pdb, chain B (#680), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.16/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #681 --- Chain | Description A | No description available > matchmaker #681 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.16) with AF3 CA.pdb, chain A (#681), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #677 dodgerblue > color #678 dodgerblue > color #679 #00b305ff > color #680 dodgerblue > color #680 #00b305ff > color #681 #f15839ff > select #1.17/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #682 --- Chain | Description A | No description available > matchmaker #682 to #1.16 & sel No 'to' model specified > matchmaker #682 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.17) with AF3 E1 1-421.pdb, chain A (#682), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #683 --- Chain | Description A | No description available > matchmaker #683 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.17) with AF3 E1 422-461.pdb, chain A (#683), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.17/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #684 --- Chain | Description B | No description available > matchmaker #684 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.17) with AF3 E2 1-352.pdb, chain B (#684), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #685 --- Chain | Description B | No description available > matchmaker #685 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.17) with AF3 E2 353-438.pdb, chain B (#685), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > select #1.17/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #686 --- Chain | Description A | No description available > matchmaker #686 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.17) with AF3 CA.pdb, chain A (#686), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #682 dodgerblue > color #683 dodgerblue > color #684 #00b305ff > color #685 #00b305ff > color #686 #f15839ff > select #1.18/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #687 --- Chain | Description A | No description available > matchmaker #687 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.18) with AF3 E1 1-421.pdb, chain A (#687), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #688 --- Chain | Description A | No description available > matchmaker #688 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.18) with AF3 E1 422-461.pdb, chain A (#688), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.18/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #689 --- Chain | Description B | No description available > matchmaker #689 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.18) with AF3 E2 1-352.pdb, chain B (#689), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #690 --- Chain | Description B | No description available > matchmaker #690 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.18) with AF3 E2 353-438.pdb, chain B (#690), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.18/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #691 --- Chain | Description A | No description available > matchmaker #691 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.18) with AF3 CA.pdb, chain A (#691), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #687 dodgerblue > color #688 dodgerblue > color #689 #00b305ff > color #690 #00b305ff > color #691 #f15839ff > select #1.19/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #692 --- Chain | Description A | No description available > matchmaker #692 to #1.18 & sel No 'to' model specified > matchmaker #692 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.19) with AF3 E1 1-421.pdb, chain A (#692), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #693 --- Chain | Description A | No description available > matchmaker #693 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.19) with AF3 E1 422-461.pdb, chain A (#693), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.19/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #694 --- Chain | Description B | No description available > matchmaker #694 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.19) with AF3 E2 1-352.pdb, chain B (#694), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #695 --- Chain | Description B | No description available > matchmaker #695 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.19) with AF3 E2 353-438.pdb, chain B (#695), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.19/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #696 --- Chain | Description A | No description available > matchmaker #696 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.19) with AF3 CA.pdb, chain A (#696), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #692 dodgerblue > color #693 dodgerblue > color #694 #00b305ff > color #695 #00b305ff > color #696 #f15839ff > select #1.20/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #697 --- Chain | Description A | No description available > matchmaker #697 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.20) with AF3 E1 1-421.pdb, chain A (#697), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #698 --- Chain | Description A | No description available > matchmaker #698 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.20) with AF3 E1 422-461.pdb, chain A (#698), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.20/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #699 --- Chain | Description B | No description available > matchmaker #699 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.20) with AF3 E2 1-352.pdb, chain B (#699), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #700 --- Chain | Description B | No description available > matchmaker #700 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.20) with AF3 E2 353-438.pdb, chain B (#700), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.20/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #701 --- Chain | Description A | No description available > matchmaker #701 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.20) with AF3 CA.pdb, chain A (#701), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #697 dodgerblue > color #698 dodgerblue > color #699 #00b305ff > color #700 #00b305ff > color #701 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #652 models > hide #653 models > hide #654 models > hide #655 models > hide #656 models > hide #657 models > hide #658 models > hide #660 models > hide #661 models > hide #659 models > hide #662 models > hide #663 models > hide #664 models > hide #665 models > hide #666 models > hide #667 models > hide #668 models > hide #669 models > hide #670 models > hide #671 models > hide #672 models > hide #673 models > hide #674 models > hide #675 models > hide #676 models > hide #677 models > hide #678 models > hide #679 models > hide #680 models > hide #681 models > hide #682 models > hide #683 models > hide #684 models > hide #685 models > hide #686 models > hide #687 models > hide #688 models > hide #689 models > hide #690 models > hide #691 models > hide #692 models > hide #693 models > hide #694 models > hide #695 models > hide #696 models > hide #697 models > hide #698 models > hide #699 models > hide #700 models > hide #701 models > select #1.21/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #702 --- Chain | Description A | No description available > matchmaker #702 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.21) with AF3 E1 1-421.pdb, chain A (#702), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #703 --- Chain | Description A | No description available > matchmaker #703 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.21) with AF3 E1 422-461.pdb, chain A (#703), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > select #1.21/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #704 --- Chain | Description B | No description available > matchmaker #704 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.21) with AF3 E2 1-352.pdb, chain B (#704), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #705 --- Chain | Description B | No description available > matchmaker #705 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.21) with AF3 E2 353-438.pdb, chain B (#705), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.21/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.21/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #706 --- Chain | Description A | No description available > matchmaker #706 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.21) with AF3 CA.pdb, chain A (#706), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #702 dodgerblue > color #703 dodgerblue > color #704 #00b305ff > color #705 #00b305ff > color #706 #f15839ff > select #1.22/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #707 --- Chain | Description A | No description available > matchmaker #707 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.22) with AF3 E1 1-421.pdb, chain A (#707), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #708 --- Chain | Description A | No description available > matchmaker #708 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.22) with AF3 E1 422-461.pdb, chain A (#708), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.21/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.22/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #709 --- Chain | Description B | No description available > matchmaker #709 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.22) with AF3 E2 1-352.pdb, chain B (#709), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #710 --- Chain | Description B | No description available > matchmaker #710 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.22) with AF3 E2 353-438.pdb, chain B (#710), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.22/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #711 --- Chain | Description A | No description available > matchmaker #711 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.22) with AF3 CA.pdb, chain A (#711), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #707 dodgerblue > color #708 dodgerblue > color #709 #00b305ff > color #710 #00b305ff > color #711 #f15839ff > select #1.23/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #712 --- Chain | Description A | No description available > matchmaker #712 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.23) with AF3 E1 1-421.pdb, chain A (#712), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #713 --- Chain | Description A | No description available > matchmaker #713 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.23) with AF3 E1 422-461.pdb, chain A (#713), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.23/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #714 --- Chain | Description B | No description available > matchmaker #714 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.23) with AF3 E2 1-352.pdb, chain B (#714), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #715 --- Chain | Description B | No description available > matchmaker #715 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.23) with AF3 E2 353-438.pdb, chain B (#715), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.23/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #716 --- Chain | Description A | No description available > matchmaker #716 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.23) with AF3 CA.pdb, chain A (#716), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #712 dodgerblue > color #713 dodgerblue > color #714 #00b305ff > color #715 #00b305ff > color #716 #f15839ff > select #1.24/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #717 --- Chain | Description A | No description available > matchmaker #717 to #1.23 & sel No 'to' model specified > matchmaker #717 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.24) with AF3 E1 1-421.pdb, chain A (#717), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #718 --- Chain | Description A | No description available > matchmaker #718 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.24) with AF3 E1 422-461.pdb, chain A (#718), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.24/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #719 --- Chain | Description B | No description available > matchmaker #719 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.24) with AF3 E2 1-352.pdb, chain B (#719), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #720 --- Chain | Description B | No description available > matchmaker #720 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.24) with AF3 E2 353-438.pdb, chain B (#720), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.24/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #721 --- Chain | Description A | No description available > matchmaker #721 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.24) with AF3 CA.pdb, chain A (#721), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #717 dodgerblue > color #718 dodgerblue > color #719 #00b305ff > color #720 #00b305ff > color #721 #f15839ff > select #1.25/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #722 --- Chain | Description A | No description available > matchmaker #722 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.25) with AF3 E1 1-421.pdb, chain A (#722), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #723 --- Chain | Description A | No description available > matchmaker #723 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.25) with AF3 E1 422-461.pdb, chain A (#723), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.25/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #724 --- Chain | Description B | No description available > matchmaker #724 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.25) with AF3 E2 1-352.pdb, chain B (#724), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #725 --- Chain | Description B | No description available > matchmaker #725 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.25) with AF3 E2 353-438.pdb, chain B (#725), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.25/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #726 --- Chain | Description A | No description available > matchmaker #726 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.25) with AF3 CA.pdb, chain A (#726), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #722 dodgerblue > color #723 dodgerblue > color #724 #00b305ff > color #725 #00b305ff > color #726 #f15839ff > select #1.26/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #727 --- Chain | Description A | No description available > matchmaker #727 to #1.25 & sel No 'to' model specified > matchmaker #727 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.26) with AF3 E1 1-421.pdb, chain A (#727), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #728 --- Chain | Description A | No description available > matchmaker #728 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.26) with AF3 E1 422-461.pdb, chain A (#728), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.26/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #729 --- Chain | Description B | No description available > matchmaker #729 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.26) with AF3 E2 1-352.pdb, chain B (#729), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #730 --- Chain | Description B | No description available > matchmaker #730 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.26) with AF3 E2 353-438.pdb, chain B (#730), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.27/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.26/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.25/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.25/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > select #1.26/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #731 --- Chain | Description A | No description available > matchmaker #731 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.26) with AF3 CA.pdb, chain A (#731), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #727 dodgerblue > color #728 dodgerblue > color #729 #00b305ff > color #730 #00b305ff > color #731 #f15839ff > select #1.27/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #732 --- Chain | Description A | No description available > matchmaker #732 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.27) with AF3 E1 1-421.pdb, chain A (#732), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #733 --- Chain | Description A | No description available > matchmaker #733 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.27) with AF3 E1 422-461.pdb, chain A (#733), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.27/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #734 --- Chain | Description B | No description available > matchmaker #734 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.27) with AF3 E2 1-352.pdb, chain B (#734), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #735 --- Chain | Description B | No description available > matchmaker #735 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.27) with AF3 E2 353-438.pdb, chain B (#735), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.27/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #736 --- Chain | Description A | No description available > matchmaker #736 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.27) with AF3 CA.pdb, chain A (#736), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #732 dodgerblue > color #733 dodgerblue > color #734 #00b305ff > color #735 #00b305ff > color #736 #f15839ff > select #1.28/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #737 --- Chain | Description A | No description available > matchmaker #737 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.28) with AF3 E1 1-421.pdb, chain A (#737), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #738 --- Chain | Description A | No description available > matchmaker #738 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.28) with AF3 E1 422-461.pdb, chain A (#738), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.28/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #739 --- Chain | Description B | No description available > matchmaker #739 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.28) with AF3 E2 1-352.pdb, chain B (#739), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #740 --- Chain | Description B | No description available > matchmaker #740 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.28) with AF3 E2 353-438.pdb, chain B (#740), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.28/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #741 --- Chain | Description A | No description available > matchmaker #741 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.28) with AF3 CA.pdb, chain A (#741), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #737 dodgerblue > color #738 dodgerblue > color #739 #00b305ff > color #740 #00b305ff > color #741 #f15839ff > select #1.29/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #742 --- Chain | Description A | No description available > matchmaker #742 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.29) with AF3 E1 1-421.pdb, chain A (#742), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #743 --- Chain | Description A | No description available > matchmaker #743 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.29) with AF3 E1 422-461.pdb, chain A (#743), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.29/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #744 --- Chain | Description B | No description available > matchmaker #744 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.29) with AF3 E2 1-352.pdb, chain B (#744), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #745 --- Chain | Description B | No description available > matchmaker #745 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.29) with AF3 E2 353-438.pdb, chain B (#745), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.29/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #746 --- Chain | Description A | No description available > matchmaker #746 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.29) with AF3 CA.pdb, chain A (#746), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #742 dodgerblue > color #743 dodgerblue > color #744 #00b305ff > color #745 #00b305ff > color #746 #f15839ff > select #1.30/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #747 --- Chain | Description A | No description available > matchmaker #747 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.30) with AF3 E1 1-421.pdb, chain A (#747), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #748 --- Chain | Description A | No description available > matchmaker #748 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.30) with AF3 E1 422-461.pdb, chain A (#748), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.30/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #749 --- Chain | Description B | No description available > matchmaker #749 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.30) with AF3 E2 1-352.pdb, chain B (#749), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #750 --- Chain | Description B | No description available > matchmaker #750 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.30) with AF3 E2 353-438.pdb, chain B (#750), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.30/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.30/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #751 --- Chain | Description A | No description available > matchmaker #751 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.30) with AF3 CA.pdb, chain A (#751), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #747 dodgerblue > color #748 dodgerblue > color #749 #00b305ff > color #750 #00b305ff > color #751 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Wed Jul 17 13:58:06 2024 ——— opened ChimeraX session > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > hide #702 models > hide #703 models > hide #704 models > hide #705 models > hide #706 models > hide #707 models > hide #708 models > hide #709 models > hide #710 models > hide #711 models > hide #712 models > hide #713 models > hide #714 models > hide #715 models > hide #716 models > hide #717 models > hide #718 models > hide #719 models > hide #720 models > hide #721 models > hide #722 models > hide #723 models > hide #724 models > hide #725 models > hide #726 models > hide #727 models > hide #728 models > hide #729 models > hide #730 models > hide #731 models > hide #732 models > hide #733 models > hide #734 models > hide #735 models > hide #736 models > hide #737 models > hide #738 models > hide #739 models > hide #740 models > hide #741 models > hide #742 models > hide #743 models > hide #744 models > hide #745 models > hide #746 models > hide #747 models > hide #748 models > hide #749 models > hide #750 models > hide #751 models > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #752 --- Chain | Description A | No description available > matchmaker #752 to #1.1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 1-421.pdb, chain A (#752), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #752 to #1.1 & sel No 'to' model specified > matchmaker #752 to #1.1 & sel No 'to' model specified > close #752 > hide sel cartoons > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #752 --- Chain | Description A | No description available > matchmaker #752 to #1.1 & sel No 'to' model specified > matchmaker #752 & sel to #1.1 & sel No 'to' model specified > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #752 to #1.1 & sel No 'to' model specified > show #751 models > show #750 models > show #749 models > show #748 models > show #747 models > select #1.30/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > show sel cartoons > hide sel cartoons > select #1.30/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > matchmaker #752 to #1.31 & sel No 'to' model specified > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #752 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.31) with AF3 E1 1-421.pdb, chain A (#752), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > view > hide sel cartoons > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #753 --- Chain | Description A | No description available > matchmaker #753 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.31) with AF3 E1 422-461.pdb, chain A (#753), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.31/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #754 --- Chain | Description B | No description available > matchmaker #754 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.31) with AF3 E2 1-352.pdb, chain B (#754), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #755 --- Chain | Description B | No description available > matchmaker #755 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.31) with AF3 E2 353-438.pdb, chain B (#755), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.31/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #756 --- Chain | Description A | No description available > matchmaker #756 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.31) with AF3 CA.pdb, chain A (#756), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > hide #747 models > hide #748 models > hide #749 models > hide #750 models > hide #751 models > color #752 dodgerblue > color #753 dodgerblue > color #754 #00b305ff > color #755 #00b305ff > color #756 #f15839ff > select #1.32/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #757 --- Chain | Description A | No description available > matchmaker #757 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.32) with AF3 E1 1-421.pdb, chain A (#757), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #758 --- Chain | Description A | No description available > matchmaker #758 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.32) with AF3 E1 422-461.pdb, chain A (#758), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.32/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #759 --- Chain | Description B | No description available > matchmaker #759 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.32) with AF3 E2 1-352.pdb, chain B (#759), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #760 --- Chain | Description B | No description available > matchmaker #760 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.32) with AF3 E2 353-438.pdb, chain B (#760), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.32/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #761 --- Chain | Description A | No description available > matchmaker #761 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.32) with AF3 CA.pdb, chain A (#761), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #757 dodgerblue > color #758 dodgerblue > color #759 #00b305ff > color #760 #00b305ff > color #761 #f15839ff > select #1.33/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #762 --- Chain | Description A | No description available > matchmaker #762 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.33) with AF3 E1 1-421.pdb, chain A (#762), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #763 --- Chain | Description A | No description available > matchmaker #763 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.33) with AF3 E1 422-461.pdb, chain A (#763), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > select #1.32/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.33/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #764 --- Chain | Description B | No description available > matchmaker #764 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.33) with AF3 E2 1-352.pdb, chain B (#764), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #765 --- Chain | Description B | No description available > matchmaker #765 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.33) with AF3 E2 353-438.pdb, chain B (#765), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.33/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #766 --- Chain | Description A | No description available > matchmaker #766 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.33) with AF3 CA.pdb, chain A (#766), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #762 dodgerblue > color #763 dodgerblue > color #764 #00b305ff > color #765 #00b305ff > color #766 #f15839ff > select #1.33/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.34/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #767 --- Chain | Description A | No description available > matchmaker #767 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.34) with AF3 E1 1-421.pdb, chain A (#767), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #768 --- Chain | Description A | No description available > matchmaker #768 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.34) with AF3 E1 422-461.pdb, chain A (#768), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.34/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #769 --- Chain | Description B | No description available > matchmaker #769 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.34) with AF3 E2 1-352.pdb, chain B (#769), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #770 --- Chain | Description B | No description available > matchmaker #770 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.34) with AF3 E2 353-438.pdb, chain B (#770), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.34/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #771 --- Chain | Description A | No description available > matchmaker #771 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.34) with AF3 CA.pdb, chain A (#771), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #767 dodgerblue > color #768 dodgerblue > color #769 #00b305ff > color #770 #00b305ff > color #771 #f15839ff > select #1.35/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #772 --- Chain | Description A | No description available > matchmaker #772 to #1.34 & sel No 'to' model specified > matchmaker #772 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.35) with AF3 E1 1-421.pdb, chain A (#772), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #773 --- Chain | Description A | No description available > matchmaker #773 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.35) with AF3 E1 422-461.pdb, chain A (#773), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.35/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #774 --- Chain | Description B | No description available > matchmaker #774 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.35) with AF3 E2 1-352.pdb, chain B (#774), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #775 --- Chain | Description B | No description available > matchmaker #775 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.35) with AF3 E2 353-438.pdb, chain B (#775), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.35/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #776 --- Chain | Description A | No description available > matchmaker #776 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.35) with AF3 CA.pdb, chain A (#776), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #772 dodgerblue > color #773 dodgerblue > color #774 #00b305ff > color #775 #00b305ff > color #776 #f15839ff > select #1.36/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #777 --- Chain | Description A | No description available > matchmaker #777 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.36) with AF3 E1 1-421.pdb, chain A (#777), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #778 --- Chain | Description A | No description available > matchmaker #778 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.36) with AF3 E1 422-461.pdb, chain A (#778), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.36/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #779 --- Chain | Description B | No description available > matchmaker #779 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.36) with AF3 E2 1-352.pdb, chain B (#779), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #780 --- Chain | Description B | No description available > matchmaker #780 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.36) with AF3 E2 353-438.pdb, chain B (#780), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.36/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #781 --- Chain | Description A | No description available > matchmaker #781 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.36) with AF3 CA.pdb, chain A (#781), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #777 dodgerblue > color #778 dodgerblue > color #779 #00b305ff > color #780 #00b305ff > color #781 #f15839ff > select #1.38/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #782 --- Chain | Description A | No description available > matchmaker #782 to #1.36 & sel No 'to' model specified > matchmaker #782 to #1.37 & sel No 'to' model specified > matchmaker #782 to #1.37 & sel No 'to' model specified > hide sel cartoons > select #1.38/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #782 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.38) with AF3 E1 1-421.pdb, chain A (#782), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #783 --- Chain | Description A | No description available > matchmaker #783 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.38) with AF3 E1 422-461.pdb, chain A (#783), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.38/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #784 --- Chain | Description B | No description available > matchmaker #784 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.38) with AF3 E2 1-352.pdb, chain B (#784), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #785 --- Chain | Description B | No description available > matchmaker #785 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.38) with AF3 E2 353-438.pdb, chain B (#785), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.38/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #786 --- Chain | Description A | No description available > matchmaker #786 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.38) with AF3 CA.pdb, chain A (#786), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #782 dodgerblue > color #783 dodgerblue > color #784 #00b305ff > color #785 #00b305ff > color #786 #f15839ff > select #1.39/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #787 --- Chain | Description A | No description available > matchmaker #787 to #1.38 & sel No 'to' model specified > matchmaker #787 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.39) with AF3 E1 1-421.pdb, chain A (#787), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #788 --- Chain | Description A | No description available > matchmaker #788 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.39) with AF3 E1 422-461.pdb, chain A (#788), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.39/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #789 --- Chain | Description B | No description available > matchmaker #789 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.39) with AF3 E2 1-352.pdb, chain B (#789), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #790 --- Chain | Description B | No description available > matchmaker #790 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.39) with AF3 E2 353-438.pdb, chain B (#790), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.39/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #791 --- Chain | Description A | No description available > matchmaker #791 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.39) with AF3 CA.pdb, chain A (#791), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #787 dodgerblue > color #788 dodgerblue > color #789 #00b305ff > color #790 #00b305ff > color #791 #f15839ff > select #1.40/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #792 --- Chain | Description A | No description available > matchmaker #792 to #1.39 & sel No 'to' model specified > matchmaker #792 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.40) with AF3 E1 1-421.pdb, chain A (#792), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #793 --- Chain | Description A | No description available > matchmaker #793 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.40) with AF3 E1 422-461.pdb, chain A (#793), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.40/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #794 --- Chain | Description B | No description available > matchmaker #794 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.40) with AF3 E2 1-352.pdb, chain B (#794), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #795 --- Chain | Description B | No description available > matchmaker #795 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.40) with AF3 E2 353-438.pdb, chain B (#795), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.40/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #796 --- Chain | Description A | No description available > matchmaker #796 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.40) with AF3 CA.pdb, chain A (#796), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > color #792 dodgerblue > color #793 dodgerblue > color #794 #00b305ff > color #795 #00b305ff > color #796 #f15839ff > show #751 models > show #750 models > show #749 models > show #748 models > show #747 models > hide #747 models > hide #748 models > hide #749 models > hide #750 models > hide #751 models > select #1.37/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #797 --- Chain | Description A | No description available > matchmaker #796 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.37) with AF3 CA.pdb, chain A (#796), sequence alignment score = 32.6 RMSD between 10 pruned atom pairs is 1.151 angstroms; (across all 110 pairs: 22.900) > matchmaker #796 to #1.40 & sel No 'to' model specified > select #1.40/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #796 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.40) with AF3 CA.pdb, chain A (#796), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > select #1.37/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > matchmaker #797 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.37) with AF3 E1 1-421.pdb, chain A (#797), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #798 --- Chain | Description A | No description available > matchmaker #798 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.37) with AF3 E1 422-461.pdb, chain A (#798), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.37/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #799 --- Chain | Description B | No description available > matchmaker #799 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.37) with AF3 E2 1-352.pdb, chain B (#799), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #800 --- Chain | Description B | No description available > matchmaker #800 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.37) with AF3 E2 353-438.pdb, chain B (#800), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.37/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #801 --- Chain | Description A | No description available > matchmaker #801 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.37) with AF3 CA.pdb, chain A (#801), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #797 dodgerblue > color #798 dodgerblue > color #799 #00b305ff > color #800 #00b305ff > color #801 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #752 models > hide #753 models > hide #754 models > hide #755 models > hide #756 models > hide #757 models > hide #758 models > hide #759 models > hide #760 models > hide #761 models > hide #762 models > hide #763 models > hide #764 models > hide #765 models > hide #766 models > hide #767 models > hide #768 models > hide #769 models > hide #770 models > hide #771 models > hide #772 models > hide #773 models > hide #774 models > hide #776 models > hide #775 models > hide #777 models > hide #778 models > hide #779 models > hide #780 models > hide #781 models > hide #782 models > hide #783 models > hide #784 models > hide #785 models > hide #786 models > hide #787 models > hide #788 models > hide #789 models > hide #790 models > hide #791 models > hide #792 models > hide #793 models > hide #794 models > hide #795 models > hide #796 models > hide #797 models > hide #798 models > hide #799 models > hide #800 models > hide #801 models > select #1.38/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.41/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #802 --- Chain | Description A | No description available > matchmaker #802 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.41) with AF3 E1 1-421.pdb, chain A (#802), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #803 --- Chain | Description A | No description available > matchmaker #803 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.41) with AF3 E1 422-461.pdb, chain A (#803), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.41/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #804 --- Chain | Description B | No description available > matchmaker #804 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.41) with AF3 E2 1-352.pdb, chain B (#804), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #805 --- Chain | Description B | No description available > matchmaker #805 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.41) with AF3 E2 353-438.pdb, chain B (#805), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.41/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #806 --- Chain | Description A | No description available > matchmaker #806 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.41) with AF3 CA.pdb, chain A (#806), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #802 dodgerblue > color #803 dodgerblue > color #804 #00b305ff > color #805 #00b305ff > color #806 #f15839ff > select #1.42/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #807 --- Chain | Description A | No description available > matchmaker #807 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.42) with AF3 E1 1-421.pdb, chain A (#807), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #808 --- Chain | Description A | No description available > matchmaker #808 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.42) with AF3 E1 422-461.pdb, chain A (#808), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.42/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #809 --- Chain | Description B | No description available > matchmaker #809 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.42) with AF3 E2 1-352.pdb, chain B (#809), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #810 --- Chain | Description B | No description available > matchmaker #810 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.42) with AF3 E2 353-438.pdb, chain B (#810), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.42/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #811 --- Chain | Description A | No description available > matchmaker #811 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.42) with AF3 CA.pdb, chain A (#811), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #807 dodgerblue > color #808 dodgerblue > color #809 #00b305ff > color #810 #00b305ff > color #811 #f15839ff > select #1.43/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #812 --- Chain | Description A | No description available > matchmaker #812 to #1.42 & sel No 'to' model specified > matchmaker #812 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.43) with AF3 E1 1-421.pdb, chain A (#812), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #813 --- Chain | Description A | No description available > matchmaker #813 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.43) with AF3 E1 422-461.pdb, chain A (#813), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.43/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #814 --- Chain | Description B | No description available > matchmaker #814 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.43) with AF3 E2 1-352.pdb, chain B (#814), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #815 --- Chain | Description B | No description available > matchmaker #815 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.43) with AF3 E2 353-438.pdb, chain B (#815), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.43/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #816 --- Chain | Description A | No description available > matchmaker #816 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.43) with AF3 CA.pdb, chain A (#816), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #812 dodgerblue > color #813 dodgerblue > color #814 #00b305ff > color #815 #00b305ff > color #816 #f15839ff > select #1.43/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.44/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #817 --- Chain | Description A | No description available > matchmaker #817 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.44) with AF3 E1 1-421.pdb, chain A (#817), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #818 --- Chain | Description A | No description available > matchmaker #818 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.44) with AF3 E1 422-461.pdb, chain A (#818), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.44/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #819 --- Chain | Description B | No description available > matchmaker #819 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.44) with AF3 E2 1-352.pdb, chain B (#819), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #820 --- Chain | Description B | No description available > matchmaker #820 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.44) with AF3 E2 353-438.pdb, chain B (#820), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > show sel cartoons > hide sel cartoons > select #1.44/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #821 --- Chain | Description A | No description available > matchmaker #821 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.44) with AF3 CA.pdb, chain A (#821), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #817 dodgerblue > color #818 dodgerblue > color #819 #00b305ff > color #820 #00b305ff > color #821 #f15839ff > select #1.45/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #822 --- Chain | Description A | No description available > matchmaker #822 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.45) with AF3 E1 1-421.pdb, chain A (#822), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #823 --- Chain | Description A | No description available > matchmaker #823 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.45) with AF3 E1 422-461.pdb, chain A (#823), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.45/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #824 --- Chain | Description B | No description available > matchmaker #824 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.45) with AF3 E2 1-352.pdb, chain B (#824), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #825 --- Chain | Description B | No description available > matchmaker #825 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.45) with AF3 E2 353-438.pdb, chain B (#825), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.45/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #826 --- Chain | Description A | No description available > matchmaker #826 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.45) with AF3 CA.pdb, chain A (#826), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #822 dodgerblue > color #823 dodgerblue > color #824 #00b305ff > color #825 #00b305ff > color #826 #f15839ff > select #1.46/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #827 --- Chain | Description A | No description available > matchmaker #827 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.46) with AF3 E1 1-421.pdb, chain A (#827), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #828 --- Chain | Description A | No description available > matchmaker #828 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.46) with AF3 E1 422-461.pdb, chain A (#828), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.46/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #829 --- Chain | Description B | No description available > matchmaker #829 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.46) with AF3 E2 1-352.pdb, chain B (#829), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #830 --- Chain | Description B | No description available > matchmaker #830 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.46) with AF3 E2 353-438.pdb, chain B (#830), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.46/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #831 --- Chain | Description A | No description available > matchmaker #831 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.46) with AF3 CA.pdb, chain A (#831), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #827 dodgerblue > color #828 dodgerblue > color #829 #00b305ff > color #830 #00b305ff > color #831 #f15839ff > select #1.47/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #832 --- Chain | Description A | No description available > matchmaker #832 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.47) with AF3 E1 1-421.pdb, chain A (#832), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #833 --- Chain | Description A | No description available > matchmaker #833 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.47) with AF3 E1 422-461.pdb, chain A (#833), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.47/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #834 --- Chain | Description B | No description available > matchmaker #834 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.47) with AF3 E2 1-352.pdb, chain B (#834), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #835 --- Chain | Description B | No description available > matchmaker #835 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.47) with AF3 E2 353-438.pdb, chain B (#835), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.47/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #836 --- Chain | Description A | No description available > matchmaker #836 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.47) with AF3 CA.pdb, chain A (#836), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #832 dodgerblue > color #833 dodgerblue > color #834 #00b305ff > color #835 #00b305ff > color #836 #f15839ff > select #1.48/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #837 --- Chain | Description A | No description available > matchmaker #837 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.48) with AF3 E1 1-421.pdb, chain A (#837), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #838 --- Chain | Description A | No description available > matchmaker #838 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.48) with AF3 E1 422-461.pdb, chain A (#838), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.48/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #839 --- Chain | Description B | No description available > matchmaker #839 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.48) with AF3 E2 1-352.pdb, chain B (#839), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #840 --- Chain | Description B | No description available > matchmaker #840 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.48) with AF3 E2 353-438.pdb, chain B (#840), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.48/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #841 --- Chain | Description A | No description available > matchmaker #841 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.48) with AF3 CA.pdb, chain A (#841), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #837 dodgerblue > color #838 dodgerblue > color #839 #00b305ff > color #840 #00b305ff > color #841 #f15839ff > select #1.49/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #842 --- Chain | Description A | No description available > matchmaker #842 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.49) with AF3 E1 1-421.pdb, chain A (#842), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #843 --- Chain | Description A | No description available > matchmaker #843 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.49) with AF3 E1 422-461.pdb, chain A (#843), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.49/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #844 --- Chain | Description B | No description available > matchmaker #844 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.49) with AF3 E2 1-352.pdb, chain B (#844), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #845 --- Chain | Description B | No description available > matchmaker #845 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.49) with AF3 E2 353-438.pdb, chain B (#845), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.39/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > select #1.49/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #846 --- Chain | Description A | No description available > matchmaker #846 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.49) with AF3 CA.pdb, chain A (#846), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #842 dodgerblue > color #843 dodgerblue > color #844 #00b305ff > color #845 #00b305ff > color #846 #f15839ff > select #1.50/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #847 --- Chain | Description A | No description available > matchmaker #847 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.50) with AF3 E1 1-421.pdb, chain A (#847), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #848 --- Chain | Description A | No description available > matchmaker #848 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.50) with AF3 E1 422-461.pdb, chain A (#848), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons [Repeated 1 time(s)] > select #1.50/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #849 --- Chain | Description B | No description available > matchmaker #849 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.50) with AF3 E2 1-352.pdb, chain B (#849), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #850 --- Chain | Description B | No description available > matchmaker #850 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.50) with AF3 E2 353-438.pdb, chain B (#850), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #851 --- Chain | Description A | No description available > hide sel cartoons > select #1.50/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #851 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.50) with AF3 CA.pdb, chain A (#851), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #847 dodgerblue > color #848 dodgerblue > color #849 #00b305ff > color #850 #00b305ff > color #851 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #802 models > hide #803 models > hide #804 models > hide #805 models > hide #806 models > hide #807 models > hide #808 models > hide #809 models > hide #810 models > hide #811 models > hide #812 models > hide #813 models > hide #814 models > hide #815 models > hide #816 models > hide #817 models > hide #818 models > hide #819 models > hide #820 models > hide #821 models > hide #822 models > hide #823 models > hide #824 models > hide #825 models > hide #826 models > hide #827 models > hide #828 models > hide #829 models > hide #830 models > hide #831 models > hide #832 models > hide #833 models > hide #834 models > hide #835 models > hide #836 models > hide #837 models > hide #838 models > hide #839 models > hide #840 models > hide #841 models > hide #842 models > hide #844 models > hide #843 models > hide #845 models > hide #846 models > hide #847 models > hide #848 models > hide #849 models > hide #850 models > hide #851 models > select #1.51/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #852 --- Chain | Description A | No description available > matchmaker #852 to #1.50 & sel No 'to' model specified > matchmaker #852 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.51) with AF3 E1 1-421.pdb, chain A (#852), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #853 --- Chain | Description A | No description available > matchmaker #853 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.51) with AF3 E1 422-461.pdb, chain A (#853), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.51/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #854 --- Chain | Description B | No description available > matchmaker #854 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.51) with AF3 E2 1-352.pdb, chain B (#854), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #855 --- Chain | Description B | No description available > matchmaker #855 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.51) with AF3 E2 353-438.pdb, chain B (#855), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.51/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #856 --- Chain | Description A | No description available > matchmaker #856 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.51) with AF3 CA.pdb, chain A (#856), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #852 dodgerblue > color #853 dodgerblue > color #854 #00b305ff > color #855 #00b305ff > color #856 #f15839ff > select #1.52/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #857 --- Chain | Description A | No description available > matchmaker #857 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.52) with AF3 E1 1-421.pdb, chain A (#857), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #858 --- Chain | Description A | No description available > matchmaker #858 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.52) with AF3 E1 422-461.pdb, chain A (#858), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.52/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #859 --- Chain | Description B | No description available > matchmaker #859 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.52) with AF3 E2 1-352.pdb, chain B (#859), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #860 --- Chain | Description B | No description available > matchmaker #860 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.52) with AF3 E2 353-438.pdb, chain B (#860), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.52/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #861 --- Chain | Description A | No description available > matchmaker #861 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.52) with AF3 CA.pdb, chain A (#861), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #857 dodgerblue > color #858 dodgerblue > color #859 #00b305ff > color #860 #00b305ff > color #861 #f15839ff > select #1.53/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #862 --- Chain | Description A | No description available > matchmaker #862 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.53) with AF3 E1 1-421.pdb, chain A (#862), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #863 --- Chain | Description A | No description available > matchmaker #863 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.53) with AF3 E1 422-461.pdb, chain A (#863), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.53/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #864 --- Chain | Description B | No description available > matchmaker #864 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.53) with AF3 E2 1-352.pdb, chain B (#864), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #865 --- Chain | Description B | No description available > matchmaker #865 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.53) with AF3 E2 353-438.pdb, chain B (#865), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.53/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #866 --- Chain | Description A | No description available > matchmaker #866 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.53) with AF3 CA.pdb, chain A (#866), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #862 dodgerblue > color #863 dodgerblue > color #864 #00b305ff > color #865 #00b305ff > color #866 #f15839ff > select #1.54/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #867 --- Chain | Description A | No description available > matchmaker #867 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.54) with AF3 E1 1-421.pdb, chain A (#867), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #868 --- Chain | Description A | No description available > matchmaker #868 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.54) with AF3 E1 422-461.pdb, chain A (#868), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.54/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #869 --- Chain | Description B | No description available > matchmaker #869 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.54) with AF3 E2 1-352.pdb, chain B (#869), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #870 --- Chain | Description B | No description available > matchmaker #870 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.54) with AF3 E2 353-438.pdb, chain B (#870), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.54/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #871 --- Chain | Description A | No description available > matchmaker #871 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.54) with AF3 CA.pdb, chain A (#871), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #867 dodgerblue > color #868 dodgerblue > color #869 #00b305ff > color #870 #00b305ff > color #871 #f15839ff > select #1.55/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #872 --- Chain | Description A | No description available > matchmaker #872 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.55) with AF3 E1 1-421.pdb, chain A (#872), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #873 --- Chain | Description A | No description available > matchmaker #873 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.55) with AF3 E1 422-461.pdb, chain A (#873), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons [Repeated 1 time(s)] > select #1.55/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #874 --- Chain | Description B | No description available > matchmaker #874 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.55) with AF3 E2 1-352.pdb, chain B (#874), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #875 --- Chain | Description B | No description available > matchmaker #875 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.55) with AF3 E2 353-438.pdb, chain B (#875), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.55/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #876 --- Chain | Description A | No description available > matchmaker #876 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.55) with AF3 CA.pdb, chain A (#876), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #872 dodgerblue > color #873 dodgerblue > color #874 #00b305ff > color #875 #00b305ff > color #876 #f15839ff > select #1.56/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #877 --- Chain | Description A | No description available > matchmaker #877 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.56) with AF3 E1 1-421.pdb, chain A (#877), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #878 --- Chain | Description A | No description available > matchmaker #878 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.56) with AF3 E1 422-461.pdb, chain A (#878), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons [Repeated 1 time(s)] > select #1.56/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #879 --- Chain | Description B | No description available > matchmaker #879 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.56) with AF3 E2 1-352.pdb, chain B (#879), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #880 --- Chain | Description B | No description available > matchmaker #880 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.56) with AF3 E2 353-438.pdb, chain B (#880), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.56/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #881 --- Chain | Description A | No description available > matchmaker #881 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.56) with AF3 CA.pdb, chain A (#881), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #877 dodgerblue > color #878 dodgerblue > color #879 #00b305ff > color #880 #00b305ff > color #881 #f15839ff > select #1.57/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #882 --- Chain | Description A | No description available > matchmaker #882 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.57) with AF3 E1 1-421.pdb, chain A (#882), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #883 --- Chain | Description A | No description available > matchmaker #883 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.57) with AF3 E1 422-461.pdb, chain A (#883), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.57/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #884 --- Chain | Description B | No description available > matchmaker #884 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.57) with AF3 E2 1-352.pdb, chain B (#884), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #885 --- Chain | Description B | No description available > matchmaker #885 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.57) with AF3 E2 353-438.pdb, chain B (#885), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.57/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #886 --- Chain | Description A | No description available > matchmaker #886 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.57) with AF3 CA.pdb, chain A (#886), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #882 dodgerblue > color #883 dodgerblue > color #884 #00b305ff > color #885 #00b305ff > color #886 #f15839ff > select #1.58/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #887 --- Chain | Description A | No description available > matchmaker #887 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.58) with AF3 E1 1-421.pdb, chain A (#887), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #888 --- Chain | Description A | No description available > matchmaker #888 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.58) with AF3 E1 422-461.pdb, chain A (#888), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.58/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #889 --- Chain | Description B | No description available > matchmaker #889 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.58) with AF3 E2 1-352.pdb, chain B (#889), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #890 --- Chain | Description B | No description available > matchmaker #890 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.58) with AF3 E2 353-438.pdb, chain B (#890), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.58/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #891 --- Chain | Description A | No description available > matchmaker #891 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.58) with AF3 CA.pdb, chain A (#891), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #887 dodgerblue > color #888 dodgerblue > color #889 #00b305ff > color #890 #00b305ff > color #891 #f15839ff > select #1.59/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #892 --- Chain | Description A | No description available > matchmaker #892 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.59) with AF3 E1 1-421.pdb, chain A (#892), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #893 --- Chain | Description A | No description available > matchmaker #893 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.59) with AF3 E1 422-461.pdb, chain A (#893), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.59/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #894 --- Chain | Description B | No description available > matchmaker #894 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.59) with AF3 E2 1-352.pdb, chain B (#894), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #895 --- Chain | Description B | No description available > matchmaker #895 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.59) with AF3 E2 353-438.pdb, chain B (#895), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.59/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #896 --- Chain | Description A | No description available > matchmaker #896 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.59) with AF3 CA.pdb, chain A (#896), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #892 dodgerblue > color #893 dodgerblue > color #894 #00b305ff > color #895 #00b305ff > color #896 #f15839ff > select #1.60/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #897 --- Chain | Description A | No description available > matchmaker #897 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.60) with AF3 E1 1-421.pdb, chain A (#897), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #898 --- Chain | Description A | No description available > matchmaker #898 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.60) with AF3 E1 422-461.pdb, chain A (#898), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.60/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #899 --- Chain | Description B | No description available > matchmaker #899 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.60) with AF3 E2 1-352.pdb, chain B (#899), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #900 --- Chain | Description B | No description available > matchmaker #900 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.60) with AF3 E2 353-438.pdb, chain B (#900), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #901 --- Chain | Description A | No description available > select #1.60/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #901 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.60) with AF3 CA.pdb, chain A (#901), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #897 dodgerblue > color #898 dodgerblue > color #899 #00b305ff > color #901 #f15839ff > color #900 #00b305ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Wed Jul 17 16:12:00 2024 ——— opened ChimeraX session > ui tool show Matchmaker ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Wed Jul 17 16:12:00 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Wed Jul 17 13:58:06 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Tue Jul 16 18:02:55 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Mon Jul 15 16:59:09 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Mon Jul 15 16:48:15 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Mon Jul 15 14:11:54 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Sun Jul 14 15:37:22 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" Log from Sun Jul 14 15:13:35 2024UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. > open ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" format session Log from Sun Jul 14 14:55:26 2024 Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/Jean/Desktop/3j0c.pdb1 3j0c.pdb1 title: Models of E1, E2 and CP of venezuelan equine encephalitis virus Tc-83 strain restrained by A near atomic resolution cryo-em map [more info...] Chain information for 3j0c.pdb1 --- Chain | Description 1.1/A 1.2/A 1.3/A 1.4/A 1.5/A 1.6/A 1.7/A 1.8/A 1.9/A 1.10/A 1.11/A 1.12/A 1.13/A 1.14/A 1.15/A 1.16/A 1.17/A 1.18/A 1.19/A 1.20/A 1.21/A 1.22/A 1.23/A 1.24/A 1.25/A 1.26/A 1.27/A 1.28/A 1.29/A 1.30/A 1.31/A 1.32/A 1.33/A 1.34/A 1.35/A 1.36/A 1.37/A 1.38/A 1.39/A 1.40/A 1.41/A 1.42/A 1.43/A 1.44/A 1.45/A 1.46/A 1.47/A 1.48/A 1.49/A 1.50/A 1.51/A 1.52/A 1.53/A 1.54/A 1.55/A 1.56/A 1.57/A 1.58/A 1.59/A 1.60/A 1.1/D 1.2/D 1.3/D 1.4/D 1.5/D 1.6/D 1.7/D 1.8/D 1.9/D 1.10/D 1.11/D 1.12/D 1.13/D 1.14/D 1.15/D 1.16/D 1.17/D 1.18/D 1.19/D 1.20/D 1.21/D 1.22/D 1.23/D 1.24/D 1.25/D 1.26/D 1.27/D 1.28/D 1.29/D 1.30/D 1.31/D 1.32/D 1.33/D 1.34/D 1.35/D 1.36/D 1.37/D 1.38/D 1.39/D 1.40/D 1.41/D 1.42/D 1.43/D 1.44/D 1.45/D 1.46/D 1.47/D 1.48/D 1.49/D 1.50/D 1.51/D 1.52/D 1.53/D 1.54/D 1.55/D 1.56/D 1.57/D 1.58/D 1.59/D 1.60/D 1.1/G 1.2/G 1.3/G 1.4/G 1.5/G 1.6/G 1.7/G 1.8/G 1.9/G 1.10/G 1.11/G 1.12/G 1.13/G 1.14/G 1.15/G 1.16/G 1.17/G 1.18/G 1.19/G 1.20/G 1.21/G 1.22/G 1.23/G 1.24/G 1.25/G 1.26/G 1.27/G 1.28/G 1.29/G 1.30/G 1.31/G 1.32/G 1.33/G 1.34/G 1.35/G 1.36/G 1.37/G 1.38/G 1.39/G 1.40/G 1.41/G 1.42/G 1.43/G 1.44/G 1.45/G 1.46/G 1.47/G 1.48/G 1.49/G 1.50/G 1.51/G 1.52/G 1.53/G 1.54/G 1.55/G 1.56/G 1.57/G 1.58/G 1.59/G 1.60/G 1.1/J 1.2/J 1.3/J 1.4/J 1.5/J 1.6/J 1.7/J 1.8/J 1.9/J 1.10/J 1.11/J 1.12/J 1.13/J 1.14/J 1.15/J 1.16/J 1.17/J 1.18/J 1.19/J 1.20/J 1.21/J 1.22/J 1.23/J 1.24/J 1.25/J 1.26/J 1.27/J 1.28/J 1.29/J 1.30/J 1.31/J 1.32/J 1.33/J 1.34/J 1.35/J 1.36/J 1.37/J 1.38/J 1.39/J 1.40/J 1.41/J 1.42/J 1.43/J 1.44/J 1.45/J 1.46/J 1.47/J 1.48/J 1.49/J 1.50/J 1.51/J 1.52/J 1.53/J 1.54/J 1.55/J 1.56/J 1.57/J 1.58/J 1.59/J 1.60/J | No description available 1.1/B 1.2/B 1.3/B 1.4/B 1.5/B 1.6/B 1.7/B 1.8/B 1.9/B 1.10/B 1.11/B 1.12/B 1.13/B 1.14/B 1.15/B 1.16/B 1.17/B 1.18/B 1.19/B 1.20/B 1.21/B 1.22/B 1.23/B 1.24/B 1.25/B 1.26/B 1.27/B 1.28/B 1.29/B 1.30/B 1.31/B 1.32/B 1.33/B 1.34/B 1.35/B 1.36/B 1.37/B 1.38/B 1.39/B 1.40/B 1.41/B 1.42/B 1.43/B 1.44/B 1.45/B 1.46/B 1.47/B 1.48/B 1.49/B 1.50/B 1.51/B 1.52/B 1.53/B 1.54/B 1.55/B 1.56/B 1.57/B 1.58/B 1.59/B 1.60/B 1.1/E 1.2/E 1.3/E 1.4/E 1.5/E 1.6/E 1.7/E 1.8/E 1.9/E 1.10/E 1.11/E 1.12/E 1.13/E 1.14/E 1.15/E 1.16/E 1.17/E 1.18/E 1.19/E 1.20/E 1.21/E 1.22/E 1.23/E 1.24/E 1.25/E 1.26/E 1.27/E 1.28/E 1.29/E 1.30/E 1.31/E 1.32/E 1.33/E 1.34/E 1.35/E 1.36/E 1.37/E 1.38/E 1.39/E 1.40/E 1.41/E 1.42/E 1.43/E 1.44/E 1.45/E 1.46/E 1.47/E 1.48/E 1.49/E 1.50/E 1.51/E 1.52/E 1.53/E 1.54/E 1.55/E 1.56/E 1.57/E 1.58/E 1.59/E 1.60/E 1.1/H 1.2/H 1.3/H 1.4/H 1.5/H 1.6/H 1.7/H 1.8/H 1.9/H 1.10/H 1.11/H 1.12/H 1.13/H 1.14/H 1.15/H 1.16/H 1.17/H 1.18/H 1.19/H 1.20/H 1.21/H 1.22/H 1.23/H 1.24/H 1.25/H 1.26/H 1.27/H 1.28/H 1.29/H 1.30/H 1.31/H 1.32/H 1.33/H 1.34/H 1.35/H 1.36/H 1.37/H 1.38/H 1.39/H 1.40/H 1.41/H 1.42/H 1.43/H 1.44/H 1.45/H 1.46/H 1.47/H 1.48/H 1.49/H 1.50/H 1.51/H 1.52/H 1.53/H 1.54/H 1.55/H 1.56/H 1.57/H 1.58/H 1.59/H 1.60/H 1.1/K 1.2/K 1.3/K 1.4/K 1.5/K 1.6/K 1.7/K 1.8/K 1.9/K 1.10/K 1.11/K 1.12/K 1.13/K 1.14/K 1.15/K 1.16/K 1.17/K 1.18/K 1.19/K 1.20/K 1.21/K 1.22/K 1.23/K 1.24/K 1.25/K 1.26/K 1.27/K 1.28/K 1.29/K 1.30/K 1.31/K 1.32/K 1.33/K 1.34/K 1.35/K 1.36/K 1.37/K 1.38/K 1.39/K 1.40/K 1.41/K 1.42/K 1.43/K 1.44/K 1.45/K 1.46/K 1.47/K 1.48/K 1.49/K 1.50/K 1.51/K 1.52/K 1.53/K 1.54/K 1.55/K 1.56/K 1.57/K 1.58/K 1.59/K 1.60/K | No description available 1.1/C 1.2/C 1.3/C 1.4/C 1.5/C 1.6/C 1.7/C 1.8/C 1.9/C 1.10/C 1.11/C 1.12/C 1.13/C 1.14/C 1.15/C 1.16/C 1.17/C 1.18/C 1.19/C 1.20/C 1.21/C 1.22/C 1.23/C 1.24/C 1.25/C 1.26/C 1.27/C 1.28/C 1.29/C 1.30/C 1.31/C 1.32/C 1.33/C 1.34/C 1.35/C 1.36/C 1.37/C 1.38/C 1.39/C 1.40/C 1.41/C 1.42/C 1.43/C 1.44/C 1.45/C 1.46/C 1.47/C 1.48/C 1.49/C 1.50/C 1.51/C 1.52/C 1.53/C 1.54/C 1.55/C 1.56/C 1.57/C 1.58/C 1.59/C 1.60/C 1.1/F 1.2/F 1.3/F 1.4/F 1.5/F 1.6/F 1.7/F 1.8/F 1.9/F 1.10/F 1.11/F 1.12/F 1.13/F 1.14/F 1.15/F 1.16/F 1.17/F 1.18/F 1.19/F 1.20/F 1.21/F 1.22/F 1.23/F 1.24/F 1.25/F 1.26/F 1.27/F 1.28/F 1.29/F 1.30/F 1.31/F 1.32/F 1.33/F 1.34/F 1.35/F 1.36/F 1.37/F 1.38/F 1.39/F 1.40/F 1.41/F 1.42/F 1.43/F 1.44/F 1.45/F 1.46/F 1.47/F 1.48/F 1.49/F 1.50/F 1.51/F 1.52/F 1.53/F 1.54/F 1.55/F 1.56/F 1.57/F 1.58/F 1.59/F 1.60/F 1.1/I 1.2/I 1.3/I 1.4/I 1.5/I 1.6/I 1.7/I 1.8/I 1.9/I 1.10/I 1.11/I 1.12/I 1.13/I 1.14/I 1.15/I 1.16/I 1.17/I 1.18/I 1.19/I 1.20/I 1.21/I 1.22/I 1.23/I 1.24/I 1.25/I 1.26/I 1.27/I 1.28/I 1.29/I 1.30/I 1.31/I 1.32/I 1.33/I 1.34/I 1.35/I 1.36/I 1.37/I 1.38/I 1.39/I 1.40/I 1.41/I 1.42/I 1.43/I 1.44/I 1.45/I 1.46/I 1.47/I 1.48/I 1.49/I 1.50/I 1.51/I 1.52/I 1.53/I 1.54/I 1.55/I 1.56/I 1.57/I 1.58/I 1.59/I 1.60/I 1.1/L 1.2/L 1.3/L 1.4/L 1.5/L 1.6/L 1.7/L 1.8/L 1.9/L 1.10/L 1.11/L 1.12/L 1.13/L 1.14/L 1.15/L 1.16/L 1.17/L 1.18/L 1.19/L 1.20/L 1.21/L 1.22/L 1.23/L 1.24/L 1.25/L 1.26/L 1.27/L 1.28/L 1.29/L 1.30/L 1.31/L 1.32/L 1.33/L 1.34/L 1.35/L 1.36/L 1.37/L 1.38/L 1.39/L 1.40/L 1.41/L 1.42/L 1.43/L 1.44/L 1.45/L 1.46/L 1.47/L 1.48/L 1.49/L 1.50/L 1.51/L 1.52/L 1.53/L 1.54/L 1.55/L 1.56/L 1.57/L 1.58/L 1.59/L 1.60/L | No description available > set bgColor white > save /Users/Jean/Desktop/image1.png supersample 3 > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Sun Jul 14 14:55:26 2024 ——— opened ChimeraX session > hide cartoons > hide atoms > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > ui tool show Matchmaker > show sel cartoons > view sel > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #2 --- Chain | Description A | No description available > matchmaker #2 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 1-421.pdb, chain A (#2), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #3 --- Chain | Description A | No description available > matchmaker #3 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 422-461.pdb, chain A (#3), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > select #1.1/B 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #4 --- Chain | Description B | No description available > matchmaker #4 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.1) with AF3 E2 1-352.pdb, chain B (#4), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #5 --- Chain | Description B | No description available > matchmaker #5 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.1) with AF3 E2 353-438.pdb, chain B (#5), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Sun Jul 14 15:13:35 2024 ——— opened ChimeraX session > select #1.1/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #6 --- Chain | Description A | No description available > ui tool show Matchmaker > matchmaker #6 to #1.1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.1) with AF3 CA.pdb, chain A (#6), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > matchmaker #6 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.1) with AF3 CA.pdb, chain A (#6), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Sun Jul 14 15:37:22 2024 ——— opened ChimeraX session > color #2 dodgerblue > color #3 dodgerblue > color #4 #00b305ff > color #5 #00b305ff > color #6 #f15839ff > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.1/B 3304 atoms, 3400 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.1/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > hide sel cartoons > ui tool show Matchmaker > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #7 --- Chain | Description A | No description available > select #1.2/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #7 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.2) with AF3 E1 1-421.pdb, chain A (#7), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #8 --- Chain | Description A | No description available > matchmaker #8 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.2) with AF3 E1 422-461.pdb, chain A (#8), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > select #1.2/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #9 --- Chain | Description B | No description available > matchmaker #9 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.2) with AF3 E2 1-352.pdb, chain B (#9), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #10 --- Chain | Description B | No description available > matchmaker #10 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.2) with AF3 E2 353-438.pdb, chain B (#10), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > select clear > select #1.2/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #11 --- Chain | Description A | No description available > matchmaker #10 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.2) with AF3 E2 353-438.pdb, chain B (#10), sequence alignment score = 16.2 RMSD between 8 pruned atom pairs is 0.563 angstroms; (across all 28 pairs: 19.587) > select #1.2/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > matchmaker #10 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.2) with AF3 E2 353-438.pdb, chain B (#10), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.2/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #11 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.2) with AF3 CA.pdb, chain A (#11), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.2/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.2/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #7 dodgerblue > color #8 dodgerblue > color #9 #00b305ff > color #10 #00b305ff > color #11 #f15839ff > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > select #1.3/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > select #1.4/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Mon Jul 15 14:11:54 2024 ——— opened ChimeraX session > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view sel > lighting soft > set bgColor black > lighting full > lighting soft > lighting simple > lighting soft > lighting full > view sel > view > select #1.4/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > hide sel cartoons > show sel cartoons > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #12 --- Chain | Description A | No description available > matchmaker #12 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.3) with AF3 E1 1-421.pdb, chain A (#12), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #13 --- Chain | Description A | No description available > matchmaker #12 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.3) with AF3 E1 1-421.pdb, chain A (#12), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > matchmaker #13 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.3) with AF3 E1 422-461.pdb, chain A (#13), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > select #1.3/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #14 --- Chain | Description B | No description available > matchmaker #14 to #1.3 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.3) with AF3 E2 1-352.pdb, chain B (#14), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > matchmaker #14 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.3) with AF3 E2 1-352.pdb, chain B (#14), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #15 --- Chain | Description B | No description available > matchmaker #15 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.3) with AF3 E2 353-438.pdb, chain B (#15), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.3/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #16 --- Chain | Description A | No description available > matchmaker #16 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.3) with AF3 CA.pdb, chain A (#16), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.3/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > hide #12 models > show #12 models > color #12 dodgerblue > color #13 dodgerblue > color #14 #00b305ff > color #15 #00b305ff > color #16 #f15839ff > select #1.4/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #17 --- Chain | Description A | No description available > matchmaker #17 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.4) with AF3 E1 1-421.pdb, chain A (#17), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #18 --- Chain | Description A | No description available > matchmaker #18 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.4) with AF3 E1 422-461.pdb, chain A (#18), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.4/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #19 --- Chain | Description B | No description available > matchmaker #19 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.4) with AF3 E2 1-352.pdb, chain B (#19), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #20 --- Chain | Description B | No description available > matchmaker #20 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.4) with AF3 E2 353-438.pdb, chain B (#20), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.4/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #21 --- Chain | Description A | No description available > matchmaker #21 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.4) with AF3 CA.pdb, chain A (#21), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.4/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #17 dodgerblue > color #18 dodgerblue > color #19 #00b305ff > color #20 #00b305ff > color #21 #f15839ff > select #1.5/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #22 --- Chain | Description A | No description available > matchmaker #22 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.5) with AF3 E1 1-421.pdb, chain A (#22), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #23 --- Chain | Description A | No description available > matchmaker #23 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.5) with AF3 E1 422-461.pdb, chain A (#23), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > select #1.5/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #24 --- Chain | Description B | No description available > matchmaker #24 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.5) with AF3 E2 1-352.pdb, chain B (#24), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #25 --- Chain | Description B | No description available > matchmaker #25 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.5) with AF3 E2 353-438.pdb, chain B (#25), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.5/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.5/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #26 --- Chain | Description A | No description available > matchmaker #26 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.5) with AF3 CA.pdb, chain A (#26), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #22 dodgerblue > color #23 dodgerblue > color #24 #00b305ff > color #25 #00b305ff > color #26 #f15839ff > select #1.6/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #27 --- Chain | Description A | No description available > matchmaker #27 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.6) with AF3 E1 1-421.pdb, chain A (#27), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #28 --- Chain | Description A | No description available > matchmaker #28 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.6) with AF3 E1 422-461.pdb, chain A (#28), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.6/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #29 --- Chain | Description B | No description available > matchmaker #29 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.6) with AF3 E2 1-352.pdb, chain B (#29), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #30 --- Chain | Description B | No description available > matchmaker #30 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.6) with AF3 E2 353-438.pdb, chain B (#30), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.6/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #31 --- Chain | Description A | No description available > matchmaker #31 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.6) with AF3 CA.pdb, chain A (#31), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #27 dodgerblue > color #28 dodgerblue > color #29 #00b305ff > color #30 #00b305ff > color #31 #f15839ff > select #1.7/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #32 --- Chain | Description A | No description available > matchmaker #32 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.7) with AF3 E1 1-421.pdb, chain A (#32), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #33 --- Chain | Description A | No description available > matchmaker #33 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.7) with AF3 E1 422-461.pdb, chain A (#33), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.7/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #34 --- Chain | Description B | No description available > matchmaker #34 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.7) with AF3 E2 1-352.pdb, chain B (#34), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #35 --- Chain | Description B | No description available > matchmaker #35 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.7) with AF3 E2 353-438.pdb, chain B (#35), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.7/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #36 --- Chain | Description A | No description available > matchmaker #36 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.7) with AF3 CA.pdb, chain A (#36), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #32 models > color #32 dodgerblue > color #33 dodgerblue > color #34 #00b305ff > color #35 #00b305ff > color #36 #f15839ff > select #1.8/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #37 --- Chain | Description A | No description available > matchmaker #37 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.8) with AF3 E1 1-421.pdb, chain A (#37), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #38 --- Chain | Description A | No description available > matchmaker #38 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.8) with AF3 E1 422-461.pdb, chain A (#38), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.8/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #39 --- Chain | Description B | No description available > matchmaker #39 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.8) with AF3 E2 1-352.pdb, chain B (#39), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #40 --- Chain | Description B | No description available > matchmaker #40 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.8) with AF3 E2 353-438.pdb, chain B (#40), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons [Repeated 1 time(s)] > select #1.8/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #41 --- Chain | Description A | No description available > matchmaker #41 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.8) with AF3 CA.pdb, chain A (#41), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > show #32 models > color #37 dodgerblue > color #38 dodgerblue > color #39 #00b305ff > color #40 #00b305ff > color #41 #f15839ff > select #1.9/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #42 --- Chain | Description A | No description available > matchmaker #42 to #1.8 & sel No 'to' model specified > matchmaker #42 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.9) with AF3 E1 1-421.pdb, chain A (#42), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #43 --- Chain | Description A | No description available > matchmaker #43 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.9) with AF3 E1 422-461.pdb, chain A (#43), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.9/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #44 --- Chain | Description B | No description available > matchmaker #44 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.9) with AF3 E2 1-352.pdb, chain B (#44), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #45 --- Chain | Description B | No description available > matchmaker #45 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.9) with AF3 E2 353-438.pdb, chain B (#45), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.9/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #46 --- Chain | Description A | No description available > matchmaker #46 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.9) with AF3 CA.pdb, chain A (#46), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #42 models > show #42 models > color #42 dodgerblue > color #43 dodgerblue > color #44 #00b305ff > color #45 #00b305ff > color #46 #f15839ff > select #1.10/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #47 --- Chain | Description A | No description available > matchmaker #47 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 1-421.pdb, chain A (#47), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #48 --- Chain | Description A | No description available > matchmaker #47 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 1-421.pdb, chain A (#47), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #47 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 1-421.pdb, chain A (#47), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #48 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.10) with AF3 E1 422-461.pdb, chain A (#48), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.10/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #49 --- Chain | Description B | No description available > matchmaker #49 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.10) with AF3 E2 1-352.pdb, chain B (#49), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #50 --- Chain | Description B | No description available > matchmaker #50 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.10) with AF3 E2 353-438.pdb, chain B (#50), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.10/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #51 --- Chain | Description A | No description available > matchmaker #51 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.10) with AF3 CA.pdb, chain A (#51), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #47 dodgerblue > color #48 dodgerblue > color #49 #00b305ff > color #50 #00b305ff > color #51 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.11/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #52 --- Chain | Description A | No description available > matchmaker #52 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.11) with AF3 E1 1-421.pdb, chain A (#52), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #53 --- Chain | Description A | No description available > matchmaker #53 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.11) with AF3 E1 422-461.pdb, chain A (#53), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.11/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #54 --- Chain | Description B | No description available > matchmaker #54 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.11) with AF3 E2 1-352.pdb, chain B (#54), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #55 --- Chain | Description B | No description available > matchmaker #55 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.11) with AF3 E2 353-438.pdb, chain B (#55), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.11/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #56 --- Chain | Description A | No description available > matchmaker #56 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.11) with AF3 CA.pdb, chain A (#56), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #52 dodgerblue > color #53 dodgerblue > color #54 #00b305ff > color #55 #00b305ff > color #56 #f15839ff > select #1.12/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #57 --- Chain | Description A | No description available > matchmaker #57 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.12) with AF3 E1 1-421.pdb, chain A (#57), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #58 --- Chain | Description A | No description available > matchmaker #58 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.12) with AF3 E1 422-461.pdb, chain A (#58), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.12/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #59 --- Chain | Description B | No description available > matchmaker #59 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.12) with AF3 E2 1-352.pdb, chain B (#59), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #60 --- Chain | Description B | No description available > matchmaker #60 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.12) with AF3 E2 353-438.pdb, chain B (#60), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.12/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #61 --- Chain | Description A | No description available > matchmaker #61 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.12) with AF3 CA.pdb, chain A (#61), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #57 models > show #57 models > color #57 dodgerblue > color #58 dodgerblue > color #59 #00b305ff > color #60 #00b305ff > color #61 #f15839ff > select #1.13/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #62 --- Chain | Description A | No description available > matchmaker #62 to #1.12 & sel No 'to' model specified > matchmaker #62 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.13) with AF3 E1 1-421.pdb, chain A (#62), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #63 --- Chain | Description A | No description available > matchmaker #63 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.13) with AF3 E1 422-461.pdb, chain A (#63), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.13/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #64 --- Chain | Description B | No description available > matchmaker #64 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.13) with AF3 E2 1-352.pdb, chain B (#64), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #65 --- Chain | Description B | No description available > matchmaker #65 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.13) with AF3 E2 353-438.pdb, chain B (#65), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.13/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #66 --- Chain | Description A | No description available > matchmaker #66 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.13) with AF3 CA.pdb, chain A (#66), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.13/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #62 dodgerblue > color #63 dodgerblue > color #64 #00b305ff > color #65 #00b305ff > color #66 #f15839ff > select #1.14/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #67 --- Chain | Description A | No description available > matchmaker #67 to #1.13 & sel No 'to' model specified > matchmaker #67 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.14) with AF3 E1 1-421.pdb, chain A (#67), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #68 --- Chain | Description A | No description available > matchmaker #68 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.14) with AF3 E1 422-461.pdb, chain A (#68), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.14/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #69 --- Chain | Description B | No description available > matchmaker #69 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.14) with AF3 E2 1-352.pdb, chain B (#69), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #70 --- Chain | Description B | No description available > matchmaker #70 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.14) with AF3 E2 353-438.pdb, chain B (#70), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.14/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #71 --- Chain | Description A | No description available > matchmaker #71 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.14) with AF3 CA.pdb, chain A (#71), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #67 dodgerblue > color #68 dodgerblue > color #69 #00b305ff > color #70 #00b305ff > color #71 #f15839ff > select #1.15/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #72 --- Chain | Description A | No description available > matchmaker #72 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.15) with AF3 E1 1-421.pdb, chain A (#72), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #73 --- Chain | Description A | No description available > matchmaker #73 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.15) with AF3 E1 422-461.pdb, chain A (#73), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.15/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #74 --- Chain | Description B | No description available > matchmaker #74 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.15) with AF3 E2 1-352.pdb, chain B (#74), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #75 --- Chain | Description B | No description available > matchmaker #75 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.15) with AF3 E2 353-438.pdb, chain B (#75), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.15/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #76 --- Chain | Description A | No description available > matchmaker #76 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.15) with AF3 CA.pdb, chain A (#76), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #72 dodgerblue > color #73 dodgerblue > color #74 #00b305ff > color #75 #00b305ff > color #76 #f15839ff > select #1.16/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #77 --- Chain | Description A | No description available > matchmaker #77 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.16) with AF3 E1 1-421.pdb, chain A (#77), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #78 --- Chain | Description A | No description available > matchmaker #78 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.16) with AF3 E1 422-461.pdb, chain A (#78), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.16/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #79 --- Chain | Description B | No description available > matchmaker #79 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.16) with AF3 E2 1-352.pdb, chain B (#79), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #80 --- Chain | Description B | No description available > matchmaker #80 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.16) with AF3 E2 353-438.pdb, chain B (#80), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.16/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #81 --- Chain | Description A | No description available > matchmaker #81 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.16) with AF3 CA.pdb, chain A (#81), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #77 dodgerblue > color #78 dodgerblue > color #79 #00b305ff > color #80 #00b305ff > color #81 #f15839ff > select #1.17/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #82 --- Chain | Description A | No description available > matchmaker #82 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.17) with AF3 E1 1-421.pdb, chain A (#82), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #83 --- Chain | Description A | No description available > matchmaker #83 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.17) with AF3 E1 422-461.pdb, chain A (#83), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.17/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #84 --- Chain | Description B | No description available > matchmaker #84 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.17) with AF3 E2 1-352.pdb, chain B (#84), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #85 --- Chain | Description B | No description available > matchmaker #85 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.17) with AF3 E2 353-438.pdb, chain B (#85), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.17/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #86 --- Chain | Description A | No description available > matchmaker #86 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.17) with AF3 CA.pdb, chain A (#86), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #82 dodgerblue > color #83 dodgerblue > color #84 #00b305ff > color #85 #00b305ff > color #86 #f15839ff > select #1.18/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #87 --- Chain | Description A | No description available > matchmaker #87 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.18) with AF3 E1 1-421.pdb, chain A (#87), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #88 --- Chain | Description A | No description available > matchmaker #88 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.18) with AF3 E1 422-461.pdb, chain A (#88), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.18/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #89 --- Chain | Description B | No description available > matchmaker #89 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.18) with AF3 E2 1-352.pdb, chain B (#89), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #90 --- Chain | Description B | No description available > matchmaker #90 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.18) with AF3 E2 353-438.pdb, chain B (#90), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.18/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #91 --- Chain | Description A | No description available > matchmaker #91 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.18) with AF3 CA.pdb, chain A (#91), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #87 dodgerblue > color #88 dodgerblue > color #89 #00b305ff > color #90 #00b305ff > color #91 #f15839ff > select #1.19/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #92 --- Chain | Description A | No description available > matchmaker #92 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.19) with AF3 E1 1-421.pdb, chain A (#92), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #93 --- Chain | Description A | No description available > matchmaker #93 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.19) with AF3 E1 422-461.pdb, chain A (#93), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.19/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #94 --- Chain | Description B | No description available > matchmaker #94 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.19) with AF3 E2 1-352.pdb, chain B (#94), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #95 --- Chain | Description B | No description available > matchmaker #95 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.19) with AF3 E2 353-438.pdb, chain B (#95), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.19/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #96 --- Chain | Description A | No description available > matchmaker #96 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.19) with AF3 CA.pdb, chain A (#96), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #92 dodgerblue > color #93 dodgerblue > color #94 dodgerblue > color #94 #00b305ff > color #95 #00b305ff > color #96 #f15839ff > select #1.20/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #97 --- Chain | Description A | No description available > matchmaker #97 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.20) with AF3 E1 1-421.pdb, chain A (#97), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #98 --- Chain | Description A | No description available > matchmaker #98 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.20) with AF3 E1 422-461.pdb, chain A (#98), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.20/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #99 --- Chain | Description B | No description available > matchmaker #99 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.20) with AF3 E2 1-352.pdb, chain B (#99), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #100 --- Chain | Description B | No description available > matchmaker #100 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.20) with AF3 E2 353-438.pdb, chain B (#100), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.20/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #101 --- Chain | Description A | No description available > matchmaker #101 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.20) with AF3 CA.pdb, chain A (#101), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #97 dodgerblue > color #98 dodgerblue > color #99 #00b305ff > color #100 #00b305ff > color #101 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.21/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #102 --- Chain | Description A | No description available > matchmaker #102 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.21) with AF3 E1 1-421.pdb, chain A (#102), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #103 --- Chain | Description A | No description available > matchmaker #103 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.21) with AF3 E1 422-461.pdb, chain A (#103), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.21/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #104 --- Chain | Description B | No description available > matchmaker #104 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.21) with AF3 E2 1-352.pdb, chain B (#104), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #105 --- Chain | Description B | No description available > matchmaker #105 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.21) with AF3 E2 353-438.pdb, chain B (#105), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.21/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #106 --- Chain | Description A | No description available > matchmaker #106 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.21) with AF3 CA.pdb, chain A (#106), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #102 dodgerblue > color #103 dodgerblue > color #104 #00b305ff > color #105 #00b305ff > color #106 #f15839ff > select #1.22/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #107 --- Chain | Description A | No description available > matchmaker #107 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.22) with AF3 E1 1-421.pdb, chain A (#107), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #108 --- Chain | Description A | No description available > matchmaker #108 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.22) with AF3 E1 422-461.pdb, chain A (#108), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.22/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #109 --- Chain | Description B | No description available > matchmaker #109 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.22) with AF3 E2 1-352.pdb, chain B (#109), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #110 --- Chain | Description B | No description available > matchmaker #110 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.22) with AF3 E2 353-438.pdb, chain B (#110), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.22/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #111 --- Chain | Description A | No description available > matchmaker #111 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.22) with AF3 CA.pdb, chain A (#111), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #107 dodgerblue > color #108 dodgerblue > color #109 #00b305ff > color #110 #00b305ff > color #111 #f15839ff > select #1.23/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #112 --- Chain | Description A | No description available > matchmaker #112 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.23) with AF3 E1 1-421.pdb, chain A (#112), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #113 --- Chain | Description A | No description available > matchmaker #113 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.23) with AF3 E1 422-461.pdb, chain A (#113), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons [Repeated 1 time(s)] > select #1.23/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #114 --- Chain | Description B | No description available > matchmaker #114 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.23) with AF3 E2 1-352.pdb, chain B (#114), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #115 --- Chain | Description B | No description available > matchmaker #115 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.23) with AF3 E2 353-438.pdb, chain B (#115), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.23/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #116 --- Chain | Description A | No description available > matchmaker #116 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.23) with AF3 CA.pdb, chain A (#116), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #112 dodgerblue > color #113 dodgerblue > color #114 #00b305ff > color #115 #00b305ff > color #116 #f15839ff > select #1.24/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #117 --- Chain | Description A | No description available > matchmaker #117 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.24) with AF3 E1 1-421.pdb, chain A (#117), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #118 --- Chain | Description A | No description available > matchmaker #118 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.24) with AF3 E1 422-461.pdb, chain A (#118), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.24/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #119 --- Chain | Description B | No description available > matchmaker #119 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.24) with AF3 E2 1-352.pdb, chain B (#119), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #120 --- Chain | Description B | No description available > matchmaker #120 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.24) with AF3 E2 353-438.pdb, chain B (#120), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.24/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #121 --- Chain | Description A | No description available > matchmaker #121 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.24) with AF3 CA.pdb, chain A (#121), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #117 dodgerblue > color #118 dodgerblue > color #119 #00b305ff > color #120 #00b305ff > color #121 #f15839ff > select #1.25/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #122 --- Chain | Description A | No description available > matchmaker #122 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.25) with AF3 E1 1-421.pdb, chain A (#122), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #123 --- Chain | Description A | No description available > matchmaker #123 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.25) with AF3 E1 422-461.pdb, chain A (#123), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.25/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #124 --- Chain | Description B | No description available > matchmaker #124 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.25) with AF3 E2 1-352.pdb, chain B (#124), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #125 --- Chain | Description B | No description available > matchmaker #125 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.25) with AF3 E2 353-438.pdb, chain B (#125), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.25/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #126 --- Chain | Description A | No description available > matchmaker #126 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.25) with AF3 CA.pdb, chain A (#126), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #122 dodgerblue > color #123 dodgerblue > color #124 #00b305ff > color #125 #00b305ff > color #126 #f15839ff > select #1.26/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #127 --- Chain | Description A | No description available > matchmaker #127 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.26) with AF3 E1 1-421.pdb, chain A (#127), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #128 --- Chain | Description A | No description available > matchmaker #128 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.26) with AF3 E1 422-461.pdb, chain A (#128), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.26/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #129 --- Chain | Description B | No description available > matchmaker #129 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.26) with AF3 E2 1-352.pdb, chain B (#129), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #130 --- Chain | Description B | No description available > matchmaker #130 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.26) with AF3 E2 353-438.pdb, chain B (#130), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.26/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #131 --- Chain | Description A | No description available > matchmaker #131 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.26) with AF3 CA.pdb, chain A (#131), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #127 dodgerblue > color #128 dodgerblue > color #129 #00b305ff > color #130 #00b305ff > color #131 #f15839ff > select #1.27/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #132 --- Chain | Description A | No description available > matchmaker #132 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.27) with AF3 E1 1-421.pdb, chain A (#132), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #133 --- Chain | Description A | No description available > matchmaker #133 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.27) with AF3 E1 422-461.pdb, chain A (#133), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.27/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #134 --- Chain | Description B | No description available > matchmaker #134 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.27) with AF3 E2 1-352.pdb, chain B (#134), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #135 --- Chain | Description B | No description available > matchmaker #135 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.27) with AF3 E2 353-438.pdb, chain B (#135), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.27/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #136 --- Chain | Description A | No description available > matchmaker #136 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.27) with AF3 CA.pdb, chain A (#136), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #132 dodgerblue > color #133 dodgerblue > color #134 #00b305ff > color #135 #00b305ff > color #136 #f15839ff > select #1.28/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #137 --- Chain | Description A | No description available > matchmaker #137 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.28) with AF3 E1 1-421.pdb, chain A (#137), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #138 --- Chain | Description A | No description available > matchmaker #138 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.28) with AF3 E1 422-461.pdb, chain A (#138), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.28/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #139 --- Chain | Description B | No description available > matchmaker #139 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.28) with AF3 E2 1-352.pdb, chain B (#139), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #140 --- Chain | Description B | No description available > matchmaker #140 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.28) with AF3 E2 353-438.pdb, chain B (#140), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.28/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #141 --- Chain | Description A | No description available > matchmaker #141 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.28) with AF3 CA.pdb, chain A (#141), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #137 dodgerblue > color #138 dodgerblue > color #139 #00b305ff > color #140 #00b305ff > color #141 #f15839ff > select #1.29/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #142 --- Chain | Description A | No description available > matchmaker #142 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.29) with AF3 E1 1-421.pdb, chain A (#142), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #143 --- Chain | Description A | No description available > matchmaker #143 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.29) with AF3 E1 422-461.pdb, chain A (#143), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.29/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #144 --- Chain | Description B | No description available > matchmaker #144 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.29) with AF3 E2 1-352.pdb, chain B (#144), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #145 --- Chain | Description B | No description available > matchmaker #145 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.29) with AF3 E2 353-438.pdb, chain B (#145), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.29/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #146 --- Chain | Description A | No description available > matchmaker #146 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.29) with AF3 CA.pdb, chain A (#146), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #142 dodgerblue > color #143 dodgerblue > color #144 #00b305ff > color #145 #00b305ff > color #146 #f15839ff > select #1.30/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > select #1.30/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > select #1.30/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #147 --- Chain | Description A | No description available > matchmaker #147 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.30) with AF3 E1 1-421.pdb, chain A (#147), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #148 --- Chain | Description A | No description available > matchmaker #148 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.30) with AF3 E1 422-461.pdb, chain A (#148), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.30/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #149 --- Chain | Description B | No description available > matchmaker #149 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.30) with AF3 E2 1-352.pdb, chain B (#149), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #150 --- Chain | Description B | No description available > matchmaker #150 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.30) with AF3 E2 353-438.pdb, chain B (#150), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.30/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #151 --- Chain | Description A | No description available > matchmaker #151 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.30) with AF3 CA.pdb, chain A (#151), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #147 dodgerblue > color #148 dodgerblue > color #149 #00b305ff > color #150 #00b305ff > color #151 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.31/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #152 --- Chain | Description A | No description available > matchmaker #152 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.31) with AF3 E1 1-421.pdb, chain A (#152), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #153 --- Chain | Description A | No description available > matchmaker #153 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.31) with AF3 E1 422-461.pdb, chain A (#153), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.31/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #154 --- Chain | Description B | No description available > matchmaker #154 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.31) with AF3 E2 1-352.pdb, chain B (#154), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #155 --- Chain | Description B | No description available > matchmaker #155 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.31) with AF3 E2 353-438.pdb, chain B (#155), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > select #1.31/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #156 --- Chain | Description A | No description available > matchmaker #156 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.31) with AF3 CA.pdb, chain A (#156), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.31/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #152 dodgerblue > color #153 dodgerblue > color #154 #00b305ff > color #155 #00b305ff > color #156 #f15839ff > select #1.32/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #157 --- Chain | Description A | No description available > matchmaker #157 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.32) with AF3 E1 1-421.pdb, chain A (#157), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #158 --- Chain | Description A | No description available > matchmaker #158 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.32) with AF3 E1 422-461.pdb, chain A (#158), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.32/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #159 --- Chain | Description B | No description available > matchmaker #159 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.32) with AF3 E2 1-352.pdb, chain B (#159), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #160 --- Chain | Description B | No description available > matchmaker #160 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.32) with AF3 E2 353-438.pdb, chain B (#160), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.32/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #161 --- Chain | Description A | No description available > matchmaker #161 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.32) with AF3 CA.pdb, chain A (#161), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #157 dodgerblue > color #158 dodgerblue > color #159 #00b305ff > color #160 #00b305ff > color #161 #f15839ff > select #1.33/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #162 --- Chain | Description A | No description available > matchmaker #162 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.33) with AF3 E1 1-421.pdb, chain A (#162), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #163 --- Chain | Description A | No description available > matchmaker #163 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.33) with AF3 E1 422-461.pdb, chain A (#163), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.33/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #164 --- Chain | Description B | No description available > matchmaker #164 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.33) with AF3 E2 1-352.pdb, chain B (#164), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #165 --- Chain | Description B | No description available > matchmaker #165 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.33) with AF3 E2 353-438.pdb, chain B (#165), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.33/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #166 --- Chain | Description A | No description available > matchmaker #166 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.33) with AF3 CA.pdb, chain A (#166), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #162 dodgerblue > color #163 dodgerblue > color #164 #00b305ff > color #165 #00b305ff > color #166 #f15839ff > select #1.34/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #167 --- Chain | Description A | No description available > matchmaker #167 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.34) with AF3 E1 1-421.pdb, chain A (#167), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #168 --- Chain | Description A | No description available > matchmaker #168 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.34) with AF3 E1 422-461.pdb, chain A (#168), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.34/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #169 --- Chain | Description B | No description available > matchmaker #169 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.34) with AF3 E2 1-352.pdb, chain B (#169), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #170 --- Chain | Description B | No description available > matchmaker #170 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.34) with AF3 E2 353-438.pdb, chain B (#170), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.34/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #171 --- Chain | Description A | No description available > matchmaker #171 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.34) with AF3 CA.pdb, chain A (#171), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #167 dodgerblue > color #168 dodgerblue > color #169 #00b305ff > color #170 #00b305ff > color #171 #f15839ff > select #1.35/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #172 --- Chain | Description A | No description available > matchmaker #172 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.35) with AF3 E1 1-421.pdb, chain A (#172), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #173 --- Chain | Description A | No description available > matchmaker #173 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.35) with AF3 E1 422-461.pdb, chain A (#173), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.35/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #174 --- Chain | Description B | No description available > matchmaker #174 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.35) with AF3 E2 1-352.pdb, chain B (#174), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #175 --- Chain | Description B | No description available > matchmaker #175 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.35) with AF3 E2 353-438.pdb, chain B (#175), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.35/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #176 --- Chain | Description A | No description available > matchmaker #176 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.35) with AF3 CA.pdb, chain A (#176), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #172 dodgerblue > color #173 dodgerblue > color #174 #00b305ff > color #175 #00b305ff > color #176 #f15839ff > select #1.36/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #177 --- Chain | Description A | No description available > matchmaker #177 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.36) with AF3 E1 1-421.pdb, chain A (#177), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #178 --- Chain | Description A | No description available > matchmaker #178 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.36) with AF3 E1 422-461.pdb, chain A (#178), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.36/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #179 --- Chain | Description B | No description available > matchmaker #179 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.36) with AF3 E2 1-352.pdb, chain B (#179), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #180 --- Chain | Description B | No description available > matchmaker #180 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.36) with AF3 E2 353-438.pdb, chain B (#180), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.36/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #181 --- Chain | Description A | No description available > matchmaker #181 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.36) with AF3 CA.pdb, chain A (#181), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #177 dodgerblue > color #178 dodgerblue > color #179 #00b305ff > color #180 #00b305ff > color #181 #f15839ff > select #1.37/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #182 --- Chain | Description A | No description available > matchmaker #182 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.37) with AF3 E1 1-421.pdb, chain A (#182), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #183 --- Chain | Description A | No description available > matchmaker #183 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.37) with AF3 E1 422-461.pdb, chain A (#183), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.37/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #184 --- Chain | Description B | No description available > matchmaker #184 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.37) with AF3 E2 1-352.pdb, chain B (#184), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #185 --- Chain | Description B | No description available > matchmaker #185 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.37) with AF3 E2 353-438.pdb, chain B (#185), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.37/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #186 --- Chain | Description A | No description available > matchmaker #186 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.37) with AF3 CA.pdb, chain A (#186), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #182 dodgerblue > color #183 dodgerblue > color #184 #00b305ff > color #185 #00b305ff > color #186 #f15839ff > select #1.38/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #187 --- Chain | Description A | No description available > matchmaker #187 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.38) with AF3 E1 1-421.pdb, chain A (#187), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #188 --- Chain | Description A | No description available > matchmaker #188 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.38) with AF3 E1 422-461.pdb, chain A (#188), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.38/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #189 --- Chain | Description B | No description available > matchmaker #189 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.38) with AF3 E2 1-352.pdb, chain B (#189), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #190 --- Chain | Description B | No description available > matchmaker #190 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.38) with AF3 E2 353-438.pdb, chain B (#190), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.38/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #191 --- Chain | Description A | No description available > matchmaker #191 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.38) with AF3 CA.pdb, chain A (#191), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #187 dodgerblue > color #188 dodgerblue > color #189 #00b305ff > color #190 #00b305ff > color #191 #f15839ff > select #1.39/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #192 --- Chain | Description A | No description available > matchmaker #192 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.39) with AF3 E1 1-421.pdb, chain A (#192), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #193 --- Chain | Description A | No description available > matchmaker #193 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.39) with AF3 E1 422-461.pdb, chain A (#193), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.39/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #194 --- Chain | Description B | No description available > matchmaker #194 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.39) with AF3 E2 1-352.pdb, chain B (#194), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #195 --- Chain | Description B | No description available > matchmaker #195 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.39) with AF3 E2 353-438.pdb, chain B (#195), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.39/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel atoms > hide sel atoms > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #196 --- Chain | Description A | No description available > matchmaker #196 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.39) with AF3 CA.pdb, chain A (#196), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #192 dodgerblue > color #193 dodgerblue > color #194 #00b305ff > color #195 #00b305ff > color #196 #f15839ff > select #1.40/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #197 --- Chain | Description A | No description available > matchmaker #197 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.40) with AF3 E1 1-421.pdb, chain A (#197), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #198 --- Chain | Description A | No description available > matchmaker #198 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.40) with AF3 E1 422-461.pdb, chain A (#198), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons [Repeated 1 time(s)] > select #1.40/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #199 --- Chain | Description B | No description available > matchmaker #199 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.40) with AF3 E2 1-352.pdb, chain B (#199), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #200 --- Chain | Description B | No description available > matchmaker #200 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.40) with AF3 E2 353-438.pdb, chain B (#200), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.40/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #201 --- Chain | Description A | No description available > matchmaker #201 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.40) with AF3 CA.pdb, chain A (#201), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #197 dodgerblue > color #198 dodgerblue > color #199 #00b305ff > color #200 #00b305ff > color #201 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.41/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #202 --- Chain | Description A | No description available > matchmaker #202 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.41) with AF3 E1 1-421.pdb, chain A (#202), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #203 --- Chain | Description A | No description available > matchmaker #203 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.41) with AF3 E1 422-461.pdb, chain A (#203), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons [Repeated 1 time(s)] > select #1.41/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #204 --- Chain | Description B | No description available > matchmaker #204 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.41) with AF3 E2 1-352.pdb, chain B (#204), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #205 --- Chain | Description B | No description available > matchmaker #205 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.41) with AF3 E2 353-438.pdb, chain B (#205), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.41/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #206 --- Chain | Description A | No description available > matchmaker #206 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.41) with AF3 CA.pdb, chain A (#206), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #202 dodgerblue > color #203 dodgerblue > color #204 #00b305ff > color #205 #00b305ff > color #206 #f15839ff > select #1.42/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #207 --- Chain | Description A | No description available > matchmaker #207 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.42) with AF3 E1 1-421.pdb, chain A (#207), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #208 --- Chain | Description A | No description available > matchmaker #208 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.42) with AF3 E1 422-461.pdb, chain A (#208), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.42/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #209 --- Chain | Description B | No description available > matchmaker #209 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.42) with AF3 E2 1-352.pdb, chain B (#209), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #210 --- Chain | Description B | No description available > matchmaker #210 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.42) with AF3 E2 353-438.pdb, chain B (#210), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.42/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #211 --- Chain | Description A | No description available > matchmaker #211 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.42) with AF3 CA.pdb, chain A (#211), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #207 dodgerblue > color #208 dodgerblue > color #209 #00b305ff > color #210 #00b305ff > color #211 #f15839ff > select #1.43/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #212 --- Chain | Description A | No description available > matchmaker #212 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.43) with AF3 E1 1-421.pdb, chain A (#212), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #213 --- Chain | Description A | No description available > matchmaker #213 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.43) with AF3 E1 422-461.pdb, chain A (#213), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.43/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #214 --- Chain | Description B | No description available > matchmaker #214 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.43) with AF3 E2 1-352.pdb, chain B (#214), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #215 --- Chain | Description B | No description available > matchmaker #215 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.43) with AF3 E2 353-438.pdb, chain B (#215), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.43/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #216 --- Chain | Description A | No description available > matchmaker #216 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.43) with AF3 CA.pdb, chain A (#216), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #212 dodgerblue > color #213 dodgerblue > color #214 #00b305ff > color #215 #00b305ff > color #216 #f15839ff > select #1.44/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #217 --- Chain | Description A | No description available > matchmaker #217 to #1.43 & sel No 'to' model specified > matchmaker #217 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.44) with AF3 E1 1-421.pdb, chain A (#217), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #218 --- Chain | Description A | No description available > matchmaker #218 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.44) with AF3 E1 422-461.pdb, chain A (#218), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.44/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #219 --- Chain | Description B | No description available > matchmaker #219 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.44) with AF3 E2 1-352.pdb, chain B (#219), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #220 --- Chain | Description B | No description available > matchmaker #220 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.44) with AF3 E2 353-438.pdb, chain B (#220), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.44/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #221 --- Chain | Description A | No description available > matchmaker #221 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.44) with AF3 CA.pdb, chain A (#221), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #217 dodgerblue > color #218 dodgerblue > color #219 #00b305ff > color #220 #00b305ff > color #221 #f15839ff > select #1.45/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #222 --- Chain | Description A | No description available > matchmaker #222 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.45) with AF3 E1 1-421.pdb, chain A (#222), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #223 --- Chain | Description A | No description available > matchmaker #223 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.45) with AF3 E1 422-461.pdb, chain A (#223), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons [Repeated 1 time(s)] > select #1.45/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #224 --- Chain | Description B | No description available > matchmaker #224 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.45) with AF3 E2 1-352.pdb, chain B (#224), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #225 --- Chain | Description B | No description available > matchmaker #225 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.45) with AF3 E2 353-438.pdb, chain B (#225), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.45/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #226 --- Chain | Description A | No description available > matchmaker #226 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.45) with AF3 CA.pdb, chain A (#226), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #222 dodgerblue > color #223 dodgerblue > color #224 #00b305ff > color #225 #00b305ff > color #226 #f15839ff > select #1.46/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #227 --- Chain | Description A | No description available > matchmaker #227 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.46) with AF3 E1 1-421.pdb, chain A (#227), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #228 --- Chain | Description A | No description available > matchmaker #228 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.46) with AF3 E1 422-461.pdb, chain A (#228), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.46/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #229 --- Chain | Description B | No description available > matchmaker #229 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.46) with AF3 E2 1-352.pdb, chain B (#229), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #230 --- Chain | Description B | No description available > matchmaker #230 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.46) with AF3 E2 353-438.pdb, chain B (#230), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.46/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #231 --- Chain | Description A | No description available > matchmaker #231 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.46) with AF3 CA.pdb, chain A (#231), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #227 #408ca2ff > color #227 dodgerblue > color #228 dodgerblue > color #229 #00b305ff > color #230 #00b305ff > color #231 #f15839ff > view sel No displayed objects specified. > select > #1.1/A#1.2/A#1.3/A#1.4/A#1.5/A#1.6/A#1.7/A#1.8/A#1.9/A#1.10/A#1.11/A#1.12/A#1.13/A#1.14/A#1.15/A#1.16/A#1.17/A#1.18/A#1.19/A#1.20/A#1.21/A#1.22/A#1.23/A#1.24/A#1.25/A#1.26/A#1.27/A#1.28/A#1.29/A#1.30/A#1.31/A#1.32/A#1.33/A#1.34/A#1.35/A#1.36/A#1.37/A#1.38/A#1.39/A#1.40/A#1.41/A#1.42/A#1.43/A#1.44/A#1.45/A#1.46/A#1.47/A#1.48/A#1.49/A#1.50/A#1.51/A#1.52/A#1.53/A#1.54/A#1.55/A#1.56/A#1.57/A#1.58/A#1.59/A#1.60/A#2/A#3/A#6/A#7/A#8/A#11/A#12/A#13/A#16/A#17/A#18/A#21/A#22/A#23/A#26/A#27/A#28/A#31/A#32/A#33/A#36/A#37/A#38/A#41/A#42/A#43/A#46/A#47/A#48/A#51/A#52/A#53/A#56/A#57/A#58/A#61/A#62/A#63/A#66/A#67/A#68/A#71/A#72/A#73/A#76/A#77/A#78/A#81/A#82/A#83/A#86/A#87/A#88/A#91/A#92/A#93/A#96/A#97/A#98/A#101/A#102/A#103/A#106/A#107/A#108/A#111/A#112/A#113/A#116/A#117/A#118/A#121/A#122/A#123/A#126/A#127/A#128/A#131/A#132/A#133/A#136/A#137/A#138/A#141/A#142/A#143/A#146/A#147/A#148/A#151/A#152/A#153/A#156/A#157/A#158/A#161/A#162/A#163/A#166/A#167/A#168/A#171/A#172/A#173/A#176/A#177/A#178/A#181/A#182/A#183/A#186/A#187/A#188/A#191/A#192/A#193/A#196/A#197/A#198/A#201/A#202/A#203/A#206/A#207/A#208/A#211/A#212/A#213/A#216/A#217/A#218/A#221/A#222/A#223/A#226/A#227/A#228/A#231/A 418952 atoms, 429570 bonds, 55178 residues, 198 models selected > view sel > select clear > select #1.47/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #232 --- Chain | Description A | No description available > matchmaker #232 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.47) with AF3 E1 1-421.pdb, chain A (#232), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #233 --- Chain | Description A | No description available > matchmaker #233 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.47) with AF3 E1 422-461.pdb, chain A (#233), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.47/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #234 --- Chain | Description B | No description available > matchmaker #234 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.47) with AF3 E2 1-352.pdb, chain B (#234), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #235 --- Chain | Description B | No description available > matchmaker #235 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.47) with AF3 E2 353-438.pdb, chain B (#235), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #236 --- Chain | Description A | No description available > hide sel cartoons > select #1.47/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #236 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.47) with AF3 CA.pdb, chain A (#236), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #232 dodgerblue > color #233 dodgerblue > color #234 #00b305ff > color #235 #00b305ff > color #236 #f15839ff > select #1.48/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #237 --- Chain | Description A | No description available > matchmaker #237 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.48) with AF3 E1 1-421.pdb, chain A (#237), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #238 --- Chain | Description A | No description available > matchmaker #238 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.48) with AF3 E1 422-461.pdb, chain A (#238), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.48/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #239 --- Chain | Description B | No description available > matchmaker #239 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.48) with AF3 E2 1-352.pdb, chain B (#239), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #240 --- Chain | Description B | No description available > matchmaker #240 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.48) with AF3 E2 353-438.pdb, chain B (#240), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.48/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.48/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #241 --- Chain | Description A | No description available > matchmaker #241 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.48) with AF3 CA.pdb, chain A (#241), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #237 dodgerblue > color #238 dodgerblue > color #239 #00b305ff > color #241 #f15839ff > color #240 #00b305ff > select #1.49/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #242 --- Chain | Description A | No description available > matchmaker #242 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.49) with AF3 E1 1-421.pdb, chain A (#242), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #243 --- Chain | Description A | No description available > matchmaker #243 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.49) with AF3 E1 422-461.pdb, chain A (#243), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.49/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #244 --- Chain | Description B | No description available > matchmaker #244 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.49) with AF3 E2 1-352.pdb, chain B (#244), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #245 --- Chain | Description B | No description available > matchmaker #245 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.49) with AF3 E2 353-438.pdb, chain B (#245), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.49/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #246 --- Chain | Description A | No description available > matchmaker #246 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.49) with AF3 CA.pdb, chain A (#246), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #242 dodgerblue > color #243 dodgerblue > color #244 #00b305ff > color #245 #00b305ff > color #245 #f15839ff > color #245 #00b305ff > color #246 #f15839ff > select #1.50/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #247 --- Chain | Description A | No description available > matchmaker #247 to #1.49 & sel No 'to' model specified > matchmaker #247 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.50) with AF3 E1 1-421.pdb, chain A (#247), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #248 --- Chain | Description A | No description available > matchmaker #248 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.50) with AF3 E1 422-461.pdb, chain A (#248), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.50/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #249 --- Chain | Description B | No description available > matchmaker #249 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.50) with AF3 E2 1-352.pdb, chain B (#249), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #250 --- Chain | Description B | No description available > matchmaker #250 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.50) with AF3 E2 353-438.pdb, chain B (#250), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.50/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #251 --- Chain | Description A | No description available > matchmaker #251 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.50) with AF3 CA.pdb, chain A (#251), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #247 dodgerblue > color #248 dodgerblue > color #249 #00b305ff > color #250 #00b305ff > color #251 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.51/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #252 --- Chain | Description A | No description available > matchmaker #252 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.51) with AF3 E1 1-421.pdb, chain A (#252), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #253 --- Chain | Description A | No description available > matchmaker #253 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.51) with AF3 E1 422-461.pdb, chain A (#253), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.51/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #254 --- Chain | Description B | No description available > matchmaker #254 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.51) with AF3 E2 1-352.pdb, chain B (#254), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #255 --- Chain | Description B | No description available > matchmaker #255 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.51) with AF3 E2 353-438.pdb, chain B (#255), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.51/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #256 --- Chain | Description A | No description available > matchmaker #256 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.51) with AF3 CA.pdb, chain A (#256), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > matchmaker #256 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.51) with AF3 CA.pdb, chain A (#256), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #252 dodgerblue > color #253 dodgerblue > color #254 #00b305ff > color #255 #00b305ff > color #256 #f15839ff > select #1.52/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #257 --- Chain | Description A | No description available > matchmaker #257 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.52) with AF3 E1 1-421.pdb, chain A (#257), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #258 --- Chain | Description A | No description available > matchmaker #258 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.52) with AF3 E1 422-461.pdb, chain A (#258), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.52/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #259 --- Chain | Description B | No description available > matchmaker #259 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.52) with AF3 E2 1-352.pdb, chain B (#259), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #260 --- Chain | Description B | No description available > matchmaker #260 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.52) with AF3 E2 353-438.pdb, chain B (#260), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.52/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #261 --- Chain | Description A | No description available > matchmaker #261 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.52) with AF3 CA.pdb, chain A (#261), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons [Repeated 1 time(s)] > color #257 dodgerblue > color #258 dodgerblue > color #259 #00b305ff > color #260 #00b305ff > color #261 #f15839ff The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select 2325488 atoms, 2385760 bonds, 301652 residues, 321 models selected > hide sel cartoons > select up 2325488 atoms, 2385760 bonds, 301652 residues, 321 models selected > show #176 target m > show sel cartoons > hide #!1 models > select subtract #1 417248 atoms, 427076 bonds, 55172 residues, 260 models selected > select clear > hide #2 models > hide #3 models > hide #4 models > hide #5 models > hide #6 models > hide #7 models > hide #8 models > hide #9 models > hide #10 models > hide #11 models > hide #12 models > hide #13 models > hide #14 models > hide #15 models > hide #16 models > hide #17 models > show #16 models > show #17 models > hide #18 models > hide #19 models > hide #20 models > hide #21 models > hide #22 models > hide #23 models > hide #24 models > hide #25 models > hide #16 models > hide #17 models > hide #26 models > hide #27 models > hide #28 models > hide #29 models > hide #30 models > hide #31 models > hide #32 models > hide #33 models > hide #34 models > show #34 models > hide #35 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > hide #37 target m > hide #34 models > hide #36 models > hide #38 models > hide #39 models > hide #40 models > hide #41 models > hide #42 models > hide #43 models > hide #44 models > hide #45 models > hide #46 models > hide #47 models > hide #48 models > hide #49 models > hide #50 models > hide #51 models > hide #52 models > hide #53 models > hide #54 models > hide #55 models > hide #56 models > hide #57 models > hide #58 models > hide #59 models > hide #60 models > hide #61 models > hide #62 models > hide #63 models > hide #64 models > hide #65 models > hide #66 models > hide #67 models > hide #68 models > hide #69 models > hide #70 models > hide #71 models > hide #72 models > hide #73 models > hide #74 models > hide #75 models > hide #76 models > hide #77 models > hide #78 models > hide #79 models > hide #80 models > hide #81 models > hide #82 models > hide #83 models > hide #84 models > hide #85 models > hide #86 models > hide #87 models > hide #88 models > hide #89 models > hide #90 models > hide #91 models > hide #92 models > hide #93 models > hide #94 models > hide #95 models > hide #96 models > hide #97 models > hide #98 models > hide #99 models > hide #100 models > hide #101 models > hide #102 models > hide #103 models > hide #104 models > hide #105 models > hide #106 models > hide #107 models > hide #108 models > hide #109 models > hide #110 models > hide #111 models > hide #112 models > hide #113 models > hide #114 models > hide #115 models > hide #116 models > hide #117 models > hide #118 models > hide #119 models > hide #120 models > hide #121 models > hide #122 models > hide #123 models > hide #124 models > hide #125 models > hide #126 models > hide #127 models > hide #128 models > hide #129 models > hide #130 models > hide #131 models > hide #132 models > hide #133 models > hide #134 models > hide #135 models > hide #136 models > hide #137 models > hide #138 models > hide #139 models > hide #140 models > hide #141 models > hide #142 models > hide #143 models > hide #144 models > hide #145 models > hide #146 models > hide #147 models > hide #148 models > hide #149 models > hide #150 models > hide #151 models > hide #152 models > hide #153 models > hide #154 models > hide #155 models > hide #156 models > hide #157 models > hide #158 models > hide #159 models > hide #160 models > hide #161 models > hide #162 models > hide #163 models > hide #164 models > hide #165 models > hide #166 models > hide #167 models > hide #168 models > hide #169 models > hide #170 models > hide #171 models > hide #172 models > hide #173 models > hide #174 models > hide #175 models > hide #176 models > hide #177 models > hide #178 models > hide #179 models > hide #180 models > hide #181 models > hide #182 models > hide #183 models > hide #184 models > hide #185 models > hide #186 models > hide #187 models > hide #188 models > hide #189 models > hide #190 models > hide #191 models > hide #192 models > hide #193 models > hide #194 models > hide #195 models > hide #196 models > hide #197 models > hide #198 models > hide #199 models > hide #200 models > hide #201 models > hide #202 models > hide #203 models > hide #204 models > hide #205 models > hide #206 models > hide #207 models > hide #208 models > hide #209 models > hide #210 models > hide #211 models > hide #212 models > hide #213 models > hide #214 models > hide #215 models > hide #216 models > hide #217 models > hide #218 models > hide #219 models > hide #220 models > hide #221 models > hide #222 models > hide #223 models > hide #224 models > hide #225 models > hide #226 models > hide #227 models > hide #228 models > hide #229 models > hide #230 models > hide #231 models > hide #232 models > hide #233 models > hide #234 models > hide #235 models > hide #236 models > hide #237 models > hide #238 models > hide #239 models > hide #240 models > hide #241 models > hide #242 models > hide #243 models > hide #244 models > hide #245 models > hide #246 models > hide #247 models > hide #248 models > hide #249 models > hide #250 models > hide #251 models > hide #252 models > hide #253 models > hide #254 models > hide #255 models > hide #256 models > hide #257 models > hide #258 models > hide #259 models > hide #260 models > hide #261 models > select #1.53/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > select #1.52/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > view sel No displayed objects specified. > show #!1 models > select ~sel & ##selected 28434 atoms, 29183 bonds, 3666 residues, 1 model selected > hide sel cartoons > select > #1.1/A#1.2/A#1.3/A#1.4/A#1.5/A#1.6/A#1.7/A#1.8/A#1.9/A#1.10/A#1.11/A#1.12/A#1.13/A#1.14/A#1.15/A#1.16/A#1.17/A#1.18/A#1.19/A#1.20/A#1.21/A#1.22/A#1.23/A#1.24/A#1.25/A#1.26/A#1.27/A#1.28/A#1.29/A#1.30/A#1.31/A#1.32/A#1.33/A#1.34/A#1.35/A#1.36/A#1.37/A#1.38/A#1.39/A#1.40/A#1.41/A#1.42/A#1.43/A#1.44/A#1.45/A#1.46/A#1.47/A#1.48/A#1.49/A#1.50/A#1.51/A#1.52/A#1.53/A#1.54/A#1.55/A#1.56/A#1.57/A#1.58/A#1.59/A#1.60/A#2/A#3/A#6/A#7/A#8/A#11/A#12/A#13/A#16/A#17/A#18/A#21/A#22/A#23/A#26/A#27/A#28/A#31/A#32/A#33/A#36/A#37/A#38/A#41/A#42/A#43/A#46/A#47/A#48/A#51/A#52/A#53/A#56/A#57/A#58/A#61/A#62/A#63/A#66/A#67/A#68/A#71/A#72/A#73/A#76/A#77/A#78/A#81/A#82/A#83/A#86/A#87/A#88/A#91/A#92/A#93/A#96/A#97/A#98/A#101/A#102/A#103/A#106/A#107/A#108/A#111/A#112/A#113/A#116/A#117/A#118/A#121/A#122/A#123/A#126/A#127/A#128/A#131/A#132/A#133/A#136/A#137/A#138/A#141/A#142/A#143/A#146/A#147/A#148/A#151/A#152/A#153/A#156/A#157/A#158/A#161/A#162/A#163/A#166/A#167/A#168/A#171/A#172/A#173/A#176/A#177/A#178/A#181/A#182/A#183/A#186/A#187/A#188/A#191/A#192/A#193/A#196/A#197/A#198/A#201/A#202/A#203/A#206/A#207/A#208/A#211/A#212/A#213/A#216/A#217/A#218/A#221/A#222/A#223/A#226/A#227/A#228/A#231/A#232/A#233/A#236/A#237/A#238/A#241/A#242/A#243/A#246/A#247/A#248/A#251/A#252/A#253/A#256/A#257/A#258/A#261/A 447224 atoms, 458514 bonds, 58916 residues, 216 models selected > select 2325488 atoms, 2385760 bonds, 301652 residues, 321 models selected > hide sel & #1.1-60 cartoons > select #1.53/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #262 --- Chain | Description A | No description available > matchmaker #262 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.53) with AF3 E1 1-421.pdb, chain A (#262), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #263 --- Chain | Description A | No description available > matchmaker #263 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.53) with AF3 E1 422-461.pdb, chain A (#263), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.53/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #264 --- Chain | Description B | No description available > matchmaker #264 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.53) with AF3 E2 1-352.pdb, chain B (#264), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #265 --- Chain | Description B | No description available > matchmaker #265 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.53) with AF3 E2 353-438.pdb, chain B (#265), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.53/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #266 --- Chain | Description A | No description available > matchmaker #266 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.53) with AF3 CA.pdb, chain A (#266), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.54/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #267 --- Chain | Description A | No description available > matchmaker #267 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.54) with AF3 E1 1-421.pdb, chain A (#267), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #268 --- Chain | Description A | No description available > matchmaker #268 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.54) with AF3 E1 422-461.pdb, chain A (#268), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > matchmaker #268 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.54) with AF3 E1 422-461.pdb, chain A (#268), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.54/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #269 --- Chain | Description B | No description available > matchmaker #269 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.54) with AF3 E2 1-352.pdb, chain B (#269), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #270 --- Chain | Description B | No description available > matchmaker #270 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.54) with AF3 E2 353-438.pdb, chain B (#270), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.54/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #271 --- Chain | Description A | No description available > matchmaker #271 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.54) with AF3 CA.pdb, chain A (#271), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #262 dodgerblue > color #263 dodgerblue > color #264 #00b305ff > color #265 #00b305ff > color #266 #f15839ff > color #267 dodgerblue > color #268 dodgerblue > color #269 #00b305ff > color #270 #00b305ff > color #271 #f15839ff > select #1.55/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #272 --- Chain | Description A | No description available > matchmaker #272 to #1.54 & sel No 'to' model specified > matchmaker #272 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.55) with AF3 E1 1-421.pdb, chain A (#272), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #273 --- Chain | Description A | No description available > matchmaker #273 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.55) with AF3 E1 422-461.pdb, chain A (#273), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #274 --- Chain | Description B | No description available > select #1.55/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > matchmaker #274 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.55) with AF3 E2 1-352.pdb, chain B (#274), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #275 --- Chain | Description B | No description available > matchmaker #275 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.55) with AF3 E2 353-438.pdb, chain B (#275), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.55/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #276 --- Chain | Description A | No description available > matchmaker #276 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.55) with AF3 CA.pdb, chain A (#276), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #272 dodgerblue > color #273 dodgerblue > color #274 #00b305ff > color #275 #00b305ff > color #276 #f15839ff > select #1.56/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #277 --- Chain | Description A | No description available > matchmaker #277 to #1.55 & sel No 'to' model specified > matchmaker #277 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.56) with AF3 E1 1-421.pdb, chain A (#277), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #278 --- Chain | Description A | No description available > matchmaker #278 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.56) with AF3 E1 422-461.pdb, chain A (#278), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.572 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.56/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #279 --- Chain | Description B | No description available > matchmaker #279 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.56) with AF3 E2 1-352.pdb, chain B (#279), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #280 --- Chain | Description B | No description available > matchmaker #280 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.56) with AF3 E2 353-438.pdb, chain B (#280), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.56/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #281 --- Chain | Description A | No description available > matchmaker #281 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.56) with AF3 CA.pdb, chain A (#281), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #277 dodgerblue > color #278 dodgerblue > color #279 #00b305ff > color #280 #00b305ff > color #281 #f15839ff > select #1.57/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #282 --- Chain | Description A | No description available > matchmaker #282 to #1.56 & sel No 'to' model specified > matchmaker #282 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.57) with AF3 E1 1-421.pdb, chain A (#282), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #283 --- Chain | Description A | No description available > matchmaker #283 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.57) with AF3 E1 422-461.pdb, chain A (#283), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.57/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #284 --- Chain | Description B | No description available > matchmaker #284 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.57) with AF3 E2 1-352.pdb, chain B (#284), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #285 --- Chain | Description B | No description available > matchmaker #285 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.57) with AF3 E2 353-438.pdb, chain B (#285), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons [Repeated 1 time(s)] > select #1.57/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #286 --- Chain | Description A | No description available > matchmaker #286 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.57) with AF3 CA.pdb, chain A (#286), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #282 dodgerblue > color #283 dodgerblue > color #284 #00b305ff > color #285 #00b305ff > color #286 #f15839ff > select #1.58/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #287 --- Chain | Description A | No description available > matchmaker #287 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.58) with AF3 E1 1-421.pdb, chain A (#287), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #288 --- Chain | Description A | No description available > matchmaker #288 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.58) with AF3 E1 422-461.pdb, chain A (#288), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.775) > hide sel cartoons > select #1.58/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #289 --- Chain | Description B | No description available > matchmaker #289 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.58) with AF3 E2 1-352.pdb, chain B (#289), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #290 --- Chain | Description B | No description available > matchmaker #290 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.58) with AF3 E2 353-438.pdb, chain B (#290), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.58/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #291 --- Chain | Description A | No description available > matchmaker #291 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.58) with AF3 CA.pdb, chain A (#291), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #287 dodgerblue > color #288 dodgerblue > color #289 #00b305ff > color #290 #00b305ff > color #291 #f15839ff > select #1.59/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #292 --- Chain | Description A | No description available > matchmaker #291 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.59) with AF3 CA.pdb, chain A (#291), sequence alignment score = 32.6 RMSD between 11 pruned atom pairs is 1.204 angstroms; (across all 110 pairs: 22.675) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #293 --- Chain | Description A | No description available > matchmaker #291 to #1.58 & sel No 'to' model specified > select #1.58/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #291 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.58) with AF3 CA.pdb, chain A (#291), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > select #1.59/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > matchmaker #292 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.59) with AF3 E1 1-421.pdb, chain A (#292), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #293 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.59) with AF3 E1 422-461.pdb, chain A (#293), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > select #1.39/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > select #1.59/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.59/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #294 --- Chain | Description B | No description available > matchmaker #294 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.59) with AF3 E2 1-352.pdb, chain B (#294), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #295 --- Chain | Description B | No description available > matchmaker #295 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.59) with AF3 E2 353-438.pdb, chain B (#295), sequence alignment score = 322.6 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.59/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #296 --- Chain | Description A | No description available > matchmaker #296 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.59) with AF3 CA.pdb, chain A (#296), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #292 dodgerblue > color #293 dodgerblue > color #294 #00b305ff > color #295 #00b305ff > color #296 #f15839ff > select #1.60/A 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #297 --- Chain | Description A | No description available > matchmaker #297 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.60) with AF3 E1 1-421.pdb, chain A (#297), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #298 --- Chain | Description A | No description available > matchmaker #298 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.60) with AF3 E1 422-461.pdb, chain A (#298), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.571 angstroms; (across all 38 pairs: 2.776) > hide sel cartoons > select #1.60/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #299 --- Chain | Description B | No description available > matchmaker #299 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.60) with AF3 E2 1-352.pdb, chain B (#299), sequence alignment score = 583.7 RMSD between 103 pruned atom pairs is 1.056 angstroms; (across all 333 pairs: 5.933) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #300 --- Chain | Description B | No description available > matchmaker #300 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain B (#1.60) with AF3 E2 353-438.pdb, chain B (#300), sequence alignment score = 333.4 RMSD between 37 pruned atom pairs is 0.844 angstroms; (across all 84 pairs: 8.411) > hide sel cartoons > select #1.60/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #301 --- Chain | Description A | No description available > matchmaker #301 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.60) with AF3 CA.pdb, chain A (#301), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > color #297 dodgerblue > color #298 dodgerblue > color #299 #00b305ff > color #300 #00b305ff > color #301 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Mon Jul 15 16:48:15 2024 ——— opened ChimeraX session > show #2 models > show #3 models > show #4 models > show #5 models > show #6 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. [Repeated 1 time(s)] > hide #2-6,262-301#1.2-60 target m > show #1.2 target m > hide #1.1 target m > hide #!1 models > show #2 models > show #3 models > show #4 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > show #5 models > show #6 models > show #7 models > show #8 models > show #9 models > show #10 models > show #11 models > show #12 models > show #13 models > show #14 models > show #15 models > show #16 models > show #17 models > show #18 models > show #19 models > show #20 models > show #21 models > show #22 models > show #23 models > show #24 models > show #25 models > show #26 models > show #27 models > show #28 models > show #29 models > show #30 models > show #31 models > show #32 models > show #33 models > show #34 models > show #35 models > show #36 models > show #37 models > show #38 models > show #39 models > show #40 models > show #41 models > show #42 models > show #43 models > show #44 models > show #45 models > show #46 models > show #47 models > show #48 models > show #49 models > show #50 models > show #51 models > show #52 models > show #53 models > show #54 models > show #55 models > show #56 models > show #57 models > show #58 models > show #59 models > show #60 models > show #61 models > show #62 models > show #63 models > show #64 models > show #65 models > show #66 models > show #67 models > show #68 models > show #69 models > show #70 models > show #71 models > show #72 models > show #73 models > show #74 models > show #75 models > show #76 models > show #77 models > show #78 models > show #79 models > show #80 models > show #81 models > show #82 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > show #82-301 models > hide #2-301 models > show #2-301 models > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Mon Jul 15 16:59:09 2024 ——— opened ChimeraX session The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show #2-301 cartoons > view sel No displayed objects specified. > select add #1 1908240 atoms, 1958684 bonds, 246480 residues, 61 models selected > hide #1.2 models > show #1.1 models > hide #1.1 models > show #1.1 models > show sel & #1.1 cartoons > hide #1.1 models > hide #!1 models > show #1.1 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select subtract #1 Nothing selected > hide #!1 models > hide #1.1 models > show #1.1 models > show #1.2 models > show #1.3 models > show #1.4 models > select 2389680 atoms, 2451464 bonds, 310140 residues, 361 models selected > show sel & #2-301#1.1-4 cartoons > hide #!1 models > show #!1 models > show #1.5 models > show #1.6 models > show #1.7 models > hide #1.7 models > show #1.7 models > show #1.8 models > ui tool show ""Selection Inspector"" The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. [Repeated 1 time(s)] > setattr sel struct display true Assigning display attribute to 360 items > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > select ~sel & ##selected 28434 atoms, 29221 bonds, 3666 residues, 1 model selected > hide sel cartoons > select 2389680 atoms, 2451464 bonds, 310140 residues, 361 models selected > hide sel cartoons > select #1.1/A 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #302 --- Chain | Description A | No description available > matchmaker #301 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.1) with AF3 CA.pdb, chain A (#301), sequence alignment score = 32.6 RMSD between 11 pruned atom pairs is 1.228 angstroms; (across all 110 pairs: 22.710) > select #1.60/C 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide #301 models > show #301 models > select add #301 2536 atoms, 2591 bonds, 324 residues, 2 models selected > hide #301 models > show #301 models > color #301 #f15839ff > show sel cartoons > select subtract #301 1277 atoms, 1305 bonds, 162 residues, 1 model selected > matchmaker #301 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain C (#1.60) with AF3 CA.pdb, chain A (#301), sequence alignment score = 328.1 RMSD between 113 pruned atom pairs is 1.224 angstroms; (across all 161 pairs: 2.714) > hide sel cartoons > hide #301 models > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > matchmaker #302 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.1) with AF3 E1 1-421.pdb, chain A (#302), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #303 --- Chain | Description A | No description available > matchmaker #303 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.1) with AF3 E1 422-461.pdb, chain A (#303), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > select #1.1/E 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #304 --- Chain | Description B | No description available > matchmaker #304 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.1) with AF3 E2 1-352.pdb, chain B (#304), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #305 --- Chain | Description B | No description available > matchmaker #305 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.1) with AF3 E2 353-438.pdb, chain B (#305), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > select #1.1/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #306 --- Chain | Description A | No description available > matchmaker #306 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.1) with AF3 CA.pdb, chain A (#306), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > select #1.1/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.1/E 3304 atoms, 3400 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.1/D 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide sel cartoons > color #302 dodgerblue > color #303 dodgerblue > color #304 #00b305ff > color #305 #00b305ff > color #306 #f15839ff > select #1.2/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #307 --- Chain | Description A | No description available > matchmaker #307 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.2) with AF3 E1 1-421.pdb, chain A (#307), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #308 --- Chain | Description A | No description available > matchmaker #308 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.2) with AF3 E1 422-461.pdb, chain A (#308), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons [Repeated 1 time(s)] > select #1.2/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #309 --- Chain | Description B | No description available > matchmaker #309 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.2) with AF3 E2 1-352.pdb, chain B (#309), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #310 --- Chain | Description B | No description available > matchmaker #310 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.2) with AF3 E2 353-438.pdb, chain B (#310), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.2/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #311 --- Chain | Description A | No description available > matchmaker #311 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.2) with AF3 CA.pdb, chain A (#311), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #307 dodgerblue > color #308 dodgerblue > color #309 #00b305ff > color #310 #00b305ff > color #311 #f15839ff > select #1.3/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #312 --- Chain | Description A | No description available > matchmaker #312 to #1.2 & sel No 'to' model specified > matchmaker #312 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.3) with AF3 E1 1-421.pdb, chain A (#312), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #313 --- Chain | Description A | No description available > matchmaker #313 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.3) with AF3 E1 422-461.pdb, chain A (#313), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.3/B 3304 atoms, 3395 bonds, 423 residues, 1 model selected > select #1.3/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #314 --- Chain | Description B | No description available > matchmaker #314 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.3) with AF3 E2 1-352.pdb, chain B (#314), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #315 --- Chain | Description B | No description available > matchmaker #315 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.3) with AF3 E2 353-438.pdb, chain B (#315), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.3/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #316 --- Chain | Description A | No description available > matchmaker #316 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.3) with AF3 CA.pdb, chain A (#316), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #312 dodgerblue > color #313 dodgerblue > color #314 #00b305ff > color #315 #00b305ff > color #316 #f15839ff > select #1.4/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #317 --- Chain | Description A | No description available > matchmaker #317 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.4) with AF3 E1 1-421.pdb, chain A (#317), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #318 --- Chain | Description A | No description available > matchmaker #318 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.4) with AF3 E1 422-461.pdb, chain A (#318), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.4/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #319 --- Chain | Description B | No description available > matchmaker #319 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.4) with AF3 E2 1-352.pdb, chain B (#319), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #320 --- Chain | Description B | No description available > matchmaker #320 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.4) with AF3 E2 353-438.pdb, chain B (#320), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.4/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #321 --- Chain | Description A | No description available > matchmaker #321 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.4) with AF3 CA.pdb, chain A (#321), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #317 dodgerblue > color #318 dodgerblue > color #319 #00b305ff > color #320 #00b305ff > color #321 #f15839ff > select #1.5/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #322 --- Chain | Description A | No description available > matchmaker #322 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.5) with AF3 E1 1-421.pdb, chain A (#322), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #323 --- Chain | Description A | No description available > matchmaker #323 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.5) with AF3 E1 422-461.pdb, chain A (#323), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.915) > hide sel cartoons > select #1.5/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #324 --- Chain | Description B | No description available > matchmaker #324 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.5) with AF3 E2 1-352.pdb, chain B (#324), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #325 --- Chain | Description B | No description available > matchmaker #325 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.5) with AF3 E2 353-438.pdb, chain B (#325), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.5/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #326 --- Chain | Description A | No description available > matchmaker #326 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.5) with AF3 CA.pdb, chain A (#326), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #322 dodgerblue > color #323 dodgerblue > color #324 #00b305ff > color #325 #00b305ff > color #326 #f15839ff > select #1.6/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #327 --- Chain | Description A | No description available > matchmaker #327 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.6) with AF3 E1 1-421.pdb, chain A (#327), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #328 --- Chain | Description A | No description available > matchmaker #328 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.6) with AF3 E1 422-461.pdb, chain A (#328), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.6/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #329 --- Chain | Description B | No description available > matchmaker #329 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.6) with AF3 E2 1-352.pdb, chain B (#329), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #330 --- Chain | Description B | No description available > matchmaker #330 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.6) with AF3 E2 353-438.pdb, chain B (#330), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.6/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #331 --- Chain | Description A | No description available > matchmaker #331 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.6) with AF3 CA.pdb, chain A (#331), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #327 dodgerblue > color #328 dodgerblue > color #329 #00b305ff > color #330 #00b305ff > color #331 #f15839ff > select #1.7/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #332 --- Chain | Description A | No description available > matchmaker #332 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.7) with AF3 E1 1-421.pdb, chain A (#332), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #333 --- Chain | Description A | No description available > matchmaker #333 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.7) with AF3 E1 422-461.pdb, chain A (#333), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.7/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #334 --- Chain | Description B | No description available > matchmaker #334 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.7) with AF3 E2 1-352.pdb, chain B (#334), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #335 --- Chain | Description B | No description available > matchmaker #335 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.7) with AF3 E2 353-438.pdb, chain B (#335), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.7/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #336 --- Chain | Description A | No description available > matchmaker #336 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.7) with AF3 CA.pdb, chain A (#336), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #332 dodgerblue > color #333 dodgerblue > color #334 #00b305ff > color #335 #00b305ff > color #336 #f15839ff > select #1.8/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #337 --- Chain | Description A | No description available > matchmaker #337 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.8) with AF3 E1 1-421.pdb, chain A (#337), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #338 --- Chain | Description A | No description available > matchmaker #338 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.8) with AF3 E1 422-461.pdb, chain A (#338), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.8/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #339 --- Chain | Description B | No description available > matchmaker #339 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.8) with AF3 E2 1-352.pdb, chain B (#339), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #340 --- Chain | Description B | No description available > matchmaker #340 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.8) with AF3 E2 353-438.pdb, chain B (#340), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.8/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #341 --- Chain | Description A | No description available > matchmaker #341 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.8) with AF3 CA.pdb, chain A (#341), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #337 dodgerblue > color #338 dodgerblue > color #339 #00b305ff > color #340 #00b305ff > color #341 #f15839ff > select #1.9/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #342 --- Chain | Description A | No description available > matchmaker #342 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.9) with AF3 E1 1-421.pdb, chain A (#342), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #343 --- Chain | Description A | No description available > matchmaker #343 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.9) with AF3 E1 422-461.pdb, chain A (#343), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.9/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #344 --- Chain | Description B | No description available > matchmaker #344 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.9) with AF3 E2 1-352.pdb, chain B (#344), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #345 --- Chain | Description B | No description available > matchmaker #345 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.9) with AF3 E2 353-438.pdb, chain B (#345), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.9/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #346 --- Chain | Description A | No description available > matchmaker #346 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.9) with AF3 CA.pdb, chain A (#346), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #342 dodgerblue > color #343 dodgerblue > color #344 #00b305ff > color #345 #00b305ff > color #346 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #302-346 models > select #1.10/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #347 --- Chain | Description A | No description available > matchmaker #347 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.10) with AF3 E1 1-421.pdb, chain A (#347), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #348 --- Chain | Description A | No description available > matchmaker #348 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.10) with AF3 E1 422-461.pdb, chain A (#348), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.10/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #349 --- Chain | Description B | No description available > matchmaker #349 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.10) with AF3 E2 1-352.pdb, chain B (#349), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #350 --- Chain | Description B | No description available > matchmaker #350 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.10) with AF3 E2 353-438.pdb, chain B (#350), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.10/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #351 --- Chain | Description A | No description available > matchmaker #351 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.10) with AF3 CA.pdb, chain A (#351), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #347 dodgerblue > color #348 dodgerblue > color #349 #00b305ff > color #350 #00b305ff > color #351 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select #1.11/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #352 --- Chain | Description A | No description available > matchmaker #352 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.11) with AF3 E1 1-421.pdb, chain A (#352), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > view sel > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #353 --- Chain | Description A | No description available > matchmaker #353 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.11) with AF3 E1 422-461.pdb, chain A (#353), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.11/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #354 --- Chain | Description B | No description available > matchmaker #354 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.11) with AF3 E2 1-352.pdb, chain B (#354), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #355 --- Chain | Description B | No description available > matchmaker #355 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.11) with AF3 E2 353-438.pdb, chain B (#355), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.11/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #356 --- Chain | Description A | No description available > matchmaker #356 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.11) with AF3 CA.pdb, chain A (#356), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #352 dodgerblue > color #353 dodgerblue > color #354 #00b305ff > color #355 #00b305ff > color #356 #f15839ff > select #1.12/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #357 --- Chain | Description A | No description available > matchmaker #357 to #1.11 & sel No 'to' model specified > matchmaker #357 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.12) with AF3 E1 1-421.pdb, chain A (#357), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #358 --- Chain | Description A | No description available > matchmaker #358 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.12) with AF3 E1 422-461.pdb, chain A (#358), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.12/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #359 --- Chain | Description B | No description available > matchmaker #359 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.12) with AF3 E2 1-352.pdb, chain B (#359), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #360 --- Chain | Description B | No description available > matchmaker #360 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.12) with AF3 E2 353-438.pdb, chain B (#360), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.12/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #361 --- Chain | Description A | No description available > matchmaker #361 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.12) with AF3 CA.pdb, chain A (#361), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #357 dodgerblue > color #358 dodgerblue > color #359 #00b305ff > color #360 #00b305ff > color #361 #f15839ff > select #1.13/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > lighting soft > lighting full > lighting simple > lighting soft [Repeated 1 time(s)] > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #362 --- Chain | Description A | No description available > matchmaker #362 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.13) with AF3 E1 1-421.pdb, chain A (#362), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #363 --- Chain | Description A | No description available > matchmaker #363 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.13) with AF3 E1 422-461.pdb, chain A (#363), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > lighting simple > select #1.13/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #364 --- Chain | Description B | No description available > matchmaker #364 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.13) with AF3 E2 1-352.pdb, chain B (#364), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #365 --- Chain | Description B | No description available > matchmaker #365 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.13) with AF3 E2 353-438.pdb, chain B (#365), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.13/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #366 --- Chain | Description A | No description available > matchmaker #366 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.13) with AF3 CA.pdb, chain A (#366), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #362 dodgerblue > color #363 dodgerblue > color #364 #00b305ff > color #365 #00b305ff > color #366 #f15839ff > select #1.14/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #367 --- Chain | Description A | No description available > matchmaker #367 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.14) with AF3 E1 1-421.pdb, chain A (#367), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #368 --- Chain | Description A | No description available > matchmaker #368 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.14) with AF3 E1 422-461.pdb, chain A (#368), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.14/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #369 --- Chain | Description B | No description available > matchmaker #369 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.14) with AF3 E2 1-352.pdb, chain B (#369), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #370 --- Chain | Description B | No description available > matchmaker #370 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.14) with AF3 E2 353-438.pdb, chain B (#370), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.14/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #371 --- Chain | Description A | No description available > matchmaker #371 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.14) with AF3 CA.pdb, chain A (#371), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #367 dodgerblue > color #368 dodgerblue > color #369 #00b305ff > color #370 #00b305ff > color #371 #f15839ff > select #1.16/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #372 --- Chain | Description A | No description available > hide sel cartoons > select #1.15/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #372 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.15) with AF3 E1 1-421.pdb, chain A (#372), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #373 --- Chain | Description A | No description available > matchmaker #373 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.15) with AF3 E1 422-461.pdb, chain A (#373), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.15/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #374 --- Chain | Description B | No description available > matchmaker #374 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.15) with AF3 E2 1-352.pdb, chain B (#374), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #375 --- Chain | Description B | No description available > matchmaker #375 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.15) with AF3 E2 353-438.pdb, chain B (#375), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.15/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #376 --- Chain | Description A | No description available > matchmaker #376 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.15) with AF3 CA.pdb, chain A (#376), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #372 dodgerblue > color #373 dodgerblue > color #374 #00b305ff > color #375 #00b305ff > color #376 #f15839ff > select #1.16/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #377 --- Chain | Description A | No description available > matchmaker #377 to #1.15 & sel No 'to' model specified > matchmaker #377 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.16) with AF3 E1 1-421.pdb, chain A (#377), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #378 --- Chain | Description A | No description available > matchmaker #378 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.16) with AF3 E1 422-461.pdb, chain A (#378), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.16/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #379 --- Chain | Description B | No description available > matchmaker #379 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.16) with AF3 E2 1-352.pdb, chain B (#379), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #380 --- Chain | Description B | No description available > matchmaker #380 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.16) with AF3 E2 353-438.pdb, chain B (#380), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.16/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #381 --- Chain | Description A | No description available > matchmaker #381 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.16) with AF3 CA.pdb, chain A (#381), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #377 dodgerblue > color #378 dodgerblue > color #379 #00b305ff > color #380 #00b305ff > color #381 #f15839ff > select #1.17/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #382 --- Chain | Description A | No description available > matchmaker #382 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.17) with AF3 E1 1-421.pdb, chain A (#382), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #383 --- Chain | Description A | No description available > matchmaker #383 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.17) with AF3 E1 422-461.pdb, chain A (#383), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.915) > hide sel cartoons > select #1.17/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #384 --- Chain | Description B | No description available > matchmaker #384 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.17) with AF3 E2 1-352.pdb, chain B (#384), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #385 --- Chain | Description B | No description available > matchmaker #385 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.17) with AF3 E2 353-438.pdb, chain B (#385), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.17/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #386 --- Chain | Description A | No description available > matchmaker #386 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.17) with AF3 CA.pdb, chain A (#386), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #382 dodgerblue > color #383 dodgerblue > color #384 #00b305ff > color #385 #00b305ff > color #386 #f15839ff > select #1.18/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #387 --- Chain | Description A | No description available > matchmaker #387 to #1.17 & sel No 'to' model specified > matchmaker #387 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.18) with AF3 E1 1-421.pdb, chain A (#387), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #388 --- Chain | Description A | No description available > matchmaker #388 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.18) with AF3 E1 422-461.pdb, chain A (#388), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.18/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #389 --- Chain | Description B | No description available > matchmaker #389 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.18) with AF3 E2 1-352.pdb, chain B (#389), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #390 --- Chain | Description B | No description available > matchmaker #390 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.18) with AF3 E2 353-438.pdb, chain B (#390), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.18/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #391 --- Chain | Description A | No description available > matchmaker #391 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.18) with AF3 CA.pdb, chain A (#391), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #387 dodgerblue > color #388 dodgerblue > color #389 #00b305ff > color #390 #00b305ff > color #391 #f15839ff > select #1.19/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #392 --- Chain | Description A | No description available > matchmaker #391 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.19) with AF3 CA.pdb, chain A (#391), sequence alignment score = 32.6 RMSD between 11 pruned atom pairs is 1.228 angstroms; (across all 110 pairs: 22.710) > select #1.18/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #391 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.18) with AF3 CA.pdb, chain A (#391), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > select #1.19/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #393 --- Chain | Description A | No description available The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > close #393 > matchmaker #392 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.19) with AF3 E1 1-421.pdb, chain A (#392), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #393 --- Chain | Description A | No description available > matchmaker #393 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.19) with AF3 E1 422-461.pdb, chain A (#393), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.19/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #394 --- Chain | Description B | No description available > matchmaker #394 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.19) with AF3 E2 1-352.pdb, chain B (#394), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #395 --- Chain | Description B | No description available > matchmaker #395 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.19) with AF3 E2 353-438.pdb, chain B (#395), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.19/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #396 --- Chain | Description A | No description available > matchmaker #396 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.19) with AF3 CA.pdb, chain A (#396), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #392 dodgerblue > color #393 dodgerblue > color #394 #00b305ff > color #395 #00b305ff > color #396 #f15839ff > select #1.20/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #397 --- Chain | Description A | No description available > matchmaker #397 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.20) with AF3 E1 1-421.pdb, chain A (#397), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #398 --- Chain | Description A | No description available > matchmaker #398 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.20) with AF3 E1 422-461.pdb, chain A (#398), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.20/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #399 --- Chain | Description B | No description available > matchmaker #399 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.20) with AF3 E2 1-352.pdb, chain B (#399), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #400 --- Chain | Description B | No description available > matchmaker #400 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.20) with AF3 E2 353-438.pdb, chain B (#400), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.20/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #401 --- Chain | Description A | No description available > matchmaker #401 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.20) with AF3 CA.pdb, chain A (#401), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #397 dodgerblue > color #398 dodgerblue > color #399 #00b305ff > color #400 #00b305ff > color #401 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > select add #347 4419 atoms, 4528 bonds, 583 residues, 2 models selected > select subtract #347 1277 atoms, 1305 bonds, 162 residues, 1 model selected > select add #347 4419 atoms, 4528 bonds, 583 residues, 2 models selected > select subtract #347 1277 atoms, 1305 bonds, 162 residues, 1 model selected > hide #347-396 models > select #1.21/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #402 --- Chain | Description A | No description available > matchmaker #402 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.21) with AF3 E1 1-421.pdb, chain A (#402), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #403 --- Chain | Description A | No description available > matchmaker #403 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.21) with AF3 E1 422-461.pdb, chain A (#403), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.21/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #404 --- Chain | Description B | No description available > matchmaker #404 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.21) with AF3 E2 1-352.pdb, chain B (#404), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #405 --- Chain | Description B | No description available > matchmaker #405 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.21) with AF3 E2 353-438.pdb, chain B (#405), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.21/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #406 --- Chain | Description A | No description available > matchmaker #406 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.21) with AF3 CA.pdb, chain A (#406), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #402 dodgerblue > color #403 dodgerblue > color #404 #00b305ff > color #405 #00b305ff > color #406 #f15839ff > select #1.22/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #407 --- Chain | Description A | No description available > matchmaker #407 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.22) with AF3 E1 1-421.pdb, chain A (#407), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #408 --- Chain | Description A | No description available > matchmaker #408 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.22) with AF3 E1 422-461.pdb, chain A (#408), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.22/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #409 --- Chain | Description B | No description available > matchmaker #409 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.22) with AF3 E2 1-352.pdb, chain B (#409), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #410 --- Chain | Description B | No description available > matchmaker #410 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.22) with AF3 E2 353-438.pdb, chain B (#410), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > select #1.22/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #411 --- Chain | Description A | No description available > matchmaker #411 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.22) with AF3 CA.pdb, chain A (#411), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #407 dodgerblue > color #408 dodgerblue > color #409 #00b305ff > color #410 #00b305ff > color #411 #f15839ff > select #1.22/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.23/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #412 --- Chain | Description A | No description available > matchmaker #412 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.23) with AF3 E1 1-421.pdb, chain A (#412), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #413 --- Chain | Description A | No description available > matchmaker #413 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.23) with AF3 E1 422-461.pdb, chain A (#413), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.23/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.23/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #414 --- Chain | Description B | No description available > matchmaker #414 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.23) with AF3 E2 1-352.pdb, chain B (#414), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #415 --- Chain | Description B | No description available > matchmaker #415 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.23) with AF3 E2 353-438.pdb, chain B (#415), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.23/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #416 --- Chain | Description A | No description available > matchmaker #416 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.23) with AF3 CA.pdb, chain A (#416), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #412 dodgerblue > color #413 dodgerblue > color #414 #00b305ff > color #415 #00b305ff > color #416 #f15839ff > select #1.24/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #417 --- Chain | Description A | No description available > matchmaker #417 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.24) with AF3 E1 1-421.pdb, chain A (#417), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #418 --- Chain | Description A | No description available > matchmaker #418 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.24) with AF3 E1 422-461.pdb, chain A (#418), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.24/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #419 --- Chain | Description B | No description available > matchmaker #419 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.24) with AF3 E2 1-352.pdb, chain B (#419), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #420 --- Chain | Description B | No description available > matchmaker #420 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.24) with AF3 E2 353-438.pdb, chain B (#420), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.24/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #421 --- Chain | Description A | No description available > matchmaker #421 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.24) with AF3 CA.pdb, chain A (#421), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #417 dodgerblue > color #418 dodgerblue > color #419 #00b305ff > color #420 #00b305ff > color #421 #f15839ff > select #1.25/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #422 --- Chain | Description A | No description available > matchmaker #422 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.25) with AF3 E1 1-421.pdb, chain A (#422), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #423 --- Chain | Description A | No description available > matchmaker #423 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.25) with AF3 E1 422-461.pdb, chain A (#423), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.25/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #424 --- Chain | Description B | No description available > matchmaker #424 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.25) with AF3 E2 1-352.pdb, chain B (#424), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #425 --- Chain | Description B | No description available > matchmaker #425 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.25) with AF3 E2 353-438.pdb, chain B (#425), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.25/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #426 --- Chain | Description A | No description available > matchmaker #426 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.25) with AF3 CA.pdb, chain A (#426), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #422 dodgerblue > color #423 dodgerblue > color #424 #00b305ff > color #425 #00b305ff > color #426 #f15839ff > select #1.26/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #427 --- Chain | Description A | No description available > matchmaker #427 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.26) with AF3 E1 1-421.pdb, chain A (#427), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #428 --- Chain | Description A | No description available > matchmaker #428 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.26) with AF3 E1 422-461.pdb, chain A (#428), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.26/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #429 --- Chain | Description B | No description available > matchmaker #429 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.26) with AF3 E2 1-352.pdb, chain B (#429), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #430 --- Chain | Description B | No description available > matchmaker #430 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.26) with AF3 E2 353-438.pdb, chain B (#430), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.26/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #431 --- Chain | Description A | No description available > matchmaker #431 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.26) with AF3 CA.pdb, chain A (#431), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #427 dodgerblue > color #428 dodgerblue > color #429 #00b305ff > color #430 #00b305ff > color #431 #f15839ff > select #1.27/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #432 --- Chain | Description A | No description available > matchmaker #432 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.27) with AF3 E1 1-421.pdb, chain A (#432), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #433 --- Chain | Description A | No description available > matchmaker #433 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.27) with AF3 E1 422-461.pdb, chain A (#433), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.27/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #434 --- Chain | Description B | No description available > matchmaker #434 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.27) with AF3 E2 1-352.pdb, chain B (#434), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #435 --- Chain | Description B | No description available > matchmaker #435 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.27) with AF3 E2 353-438.pdb, chain B (#435), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.27/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #436 --- Chain | Description A | No description available > matchmaker #436 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.27) with AF3 CA.pdb, chain A (#436), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #432 dodgerblue > color #433 dodgerblue > color #434 #00b305ff > color #435 #00b305ff > color #436 #f15839ff > select #1.28/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #437 --- Chain | Description A | No description available > matchmaker #437 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.28) with AF3 E1 1-421.pdb, chain A (#437), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #438 --- Chain | Description A | No description available > matchmaker #438 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.28) with AF3 E1 422-461.pdb, chain A (#438), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.28/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #439 --- Chain | Description B | No description available > matchmaker #439 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.28) with AF3 E2 1-352.pdb, chain B (#439), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #440 --- Chain | Description B | No description available > matchmaker #440 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.28) with AF3 E2 353-438.pdb, chain B (#440), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.28/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #441 --- Chain | Description A | No description available > matchmaker #441 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.28) with AF3 CA.pdb, chain A (#441), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #437 dodgerblue > color #438 dodgerblue > color #439 #00b305ff > color #440 #00b305ff > color #441 #f15839ff > select #1.29/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #442 --- Chain | Description A | No description available > matchmaker #442 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.29) with AF3 E1 1-421.pdb, chain A (#442), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #443 --- Chain | Description A | No description available > matchmaker #443 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.29) with AF3 E1 422-461.pdb, chain A (#443), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.29/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #444 --- Chain | Description B | No description available > matchmaker #444 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.29) with AF3 E2 1-352.pdb, chain B (#444), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #445 --- Chain | Description B | No description available > matchmaker #445 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.29) with AF3 E2 353-438.pdb, chain B (#445), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.29/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #446 --- Chain | Description A | No description available > matchmaker #446 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.29) with AF3 CA.pdb, chain A (#446), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #442 dodgerblue > color #443 dodgerblue > color #444 #00b305ff > color #445 #00b305ff > color #446 #f15839ff > select #1.30/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #447 --- Chain | Description A | No description available > matchmaker #447 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.30) with AF3 E1 1-421.pdb, chain A (#447), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #448 --- Chain | Description A | No description available > matchmaker #448 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.30) with AF3 E1 422-461.pdb, chain A (#448), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.30/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #449 --- Chain | Description B | No description available > matchmaker #449 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.30) with AF3 E2 1-352.pdb, chain B (#449), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #450 --- Chain | Description B | No description available > matchmaker #450 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.30) with AF3 E2 353-438.pdb, chain B (#450), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.30/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #451 --- Chain | Description A | No description available > matchmaker #451 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.30) with AF3 CA.pdb, chain A (#451), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #447 dodgerblue > color #448 dodgerblue > color #449 #00b305ff > color #450 #00b305ff > color #451 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #397-451 models > select #1.31/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #452 --- Chain | Description A | No description available > matchmaker #452 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.31) with AF3 E1 1-421.pdb, chain A (#452), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > view sel > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #453 --- Chain | Description A | No description available > matchmaker #453 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.31) with AF3 E1 422-461.pdb, chain A (#453), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > view > hide sel cartoons > select #1.31/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #454 --- Chain | Description B | No description available > matchmaker #454 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.31) with AF3 E2 1-352.pdb, chain B (#454), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #455 --- Chain | Description B | No description available > matchmaker #455 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.31) with AF3 E2 353-438.pdb, chain B (#455), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.31/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #456 --- Chain | Description A | No description available > matchmaker #456 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.31) with AF3 CA.pdb, chain A (#456), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #452 dodgerblue > color #453 dodgerblue > color #454 #00b305ff > color #455 #00b305ff > color #456 #f15839ff > select #1.32/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #457 --- Chain | Description A | No description available > matchmaker #457 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.32) with AF3 E1 1-421.pdb, chain A (#457), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #458 --- Chain | Description A | No description available > matchmaker #458 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.32) with AF3 E1 422-461.pdb, chain A (#458), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.31/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.32/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #459 --- Chain | Description B | No description available > matchmaker #459 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.32) with AF3 E2 1-352.pdb, chain B (#459), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #460 --- Chain | Description B | No description available > matchmaker #460 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.32) with AF3 E2 353-438.pdb, chain B (#460), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.32/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #461 --- Chain | Description A | No description available > matchmaker #461 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.32) with AF3 CA.pdb, chain A (#461), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #457 dodgerblue > color #458 dodgerblue > color #459 #00b305ff > color #460 #00b305ff > color #461 #f15839ff > select #1.33/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #462 --- Chain | Description A | No description available > matchmaker #462 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.33) with AF3 E1 1-421.pdb, chain A (#462), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #463 --- Chain | Description A | No description available > matchmaker #463 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.33) with AF3 E1 422-461.pdb, chain A (#463), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.33/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #464 --- Chain | Description B | No description available > matchmaker #464 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.33) with AF3 E2 1-352.pdb, chain B (#464), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #465 --- Chain | Description B | No description available > matchmaker #465 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.33) with AF3 E2 353-438.pdb, chain B (#465), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.33/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #466 --- Chain | Description A | No description available > matchmaker #466 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.33) with AF3 CA.pdb, chain A (#466), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #462 dodgerblue > color #463 dodgerblue > color #464 #00b305ff > color #465 #00b305ff > color #466 #f15839ff > select #1.34/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #467 --- Chain | Description A | No description available > view > matchmaker #467 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.34) with AF3 E1 1-421.pdb, chain A (#467), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #468 --- Chain | Description A | No description available > matchmaker #468 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.34) with AF3 E1 422-461.pdb, chain A (#468), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.34/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #469 --- Chain | Description B | No description available > matchmaker #469 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.34) with AF3 E2 1-352.pdb, chain B (#469), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #470 --- Chain | Description B | No description available > matchmaker #470 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.34) with AF3 E2 353-438.pdb, chain B (#470), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.34/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #471 --- Chain | Description A | No description available > matchmaker #471 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.34) with AF3 CA.pdb, chain A (#471), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #467 dodgerblue > color #468 dodgerblue > color #469 #00b305ff > color #470 #00b305ff > color #471 #f15839ff > select #1.35/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #472 --- Chain | Description A | No description available > matchmaker #472 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.35) with AF3 E1 1-421.pdb, chain A (#472), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #473 --- Chain | Description A | No description available > matchmaker #473 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.35) with AF3 E1 422-461.pdb, chain A (#473), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.35/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #474 --- Chain | Description B | No description available > matchmaker #474 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.35) with AF3 E2 1-352.pdb, chain B (#474), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #475 --- Chain | Description B | No description available > matchmaker #475 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.35) with AF3 E2 353-438.pdb, chain B (#475), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.35/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #476 --- Chain | Description A | No description available > matchmaker #476 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.35) with AF3 CA.pdb, chain A (#476), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #472 dodgerblue > color #473 dodgerblue > color #474 #00b305ff > color #475 #00b305ff > color #476 #f15839ff > select #1.36/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #477 --- Chain | Description A | No description available > matchmaker #477 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.36) with AF3 E1 1-421.pdb, chain A (#477), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #478 --- Chain | Description A | No description available > matchmaker #478 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.36) with AF3 E1 422-461.pdb, chain A (#478), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.36/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #479 --- Chain | Description B | No description available > matchmaker #479 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.36) with AF3 E2 1-352.pdb, chain B (#479), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #480 --- Chain | Description B | No description available > matchmaker #480 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.36) with AF3 E2 353-438.pdb, chain B (#480), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.36/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #481 --- Chain | Description A | No description available > matchmaker #481 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.36) with AF3 CA.pdb, chain A (#481), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #477 dodgerblue > color #478 dodgerblue > color #479 #00b305ff > color #480 #00b305ff > color #481 #f15839ff > select #1.37/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #482 --- Chain | Description A | No description available > matchmaker #482 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.37) with AF3 E1 1-421.pdb, chain A (#482), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #483 --- Chain | Description A | No description available > matchmaker #483 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.37) with AF3 E1 422-461.pdb, chain A (#483), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.37/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #484 --- Chain | Description B | No description available > matchmaker #484 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.37) with AF3 E2 1-352.pdb, chain B (#484), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #485 --- Chain | Description B | No description available > matchmaker #485 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.37) with AF3 E2 353-438.pdb, chain B (#485), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons [Repeated 1 time(s)] > select #1.37/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #486 --- Chain | Description A | No description available > matchmaker #486 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.37) with AF3 CA.pdb, chain A (#486), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons [Repeated 1 time(s)] > color #482 dodgerblue > color #483 dodgerblue > color #484 #00b305ff > color #485 #00b305ff > color #486 #f15839ff > select #1.38/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #487 --- Chain | Description A | No description available > matchmaker #487 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.38) with AF3 E1 1-421.pdb, chain A (#487), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #488 --- Chain | Description A | No description available > matchmaker #488 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.38) with AF3 E1 422-461.pdb, chain A (#488), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.38/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #489 --- Chain | Description B | No description available > matchmaker #489 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.38) with AF3 E2 1-352.pdb, chain B (#489), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #490 --- Chain | Description B | No description available > matchmaker #490 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.38) with AF3 E2 353-438.pdb, chain B (#490), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.38/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #491 --- Chain | Description A | No description available > matchmaker #491 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.38) with AF3 CA.pdb, chain A (#491), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons [Repeated 1 time(s)] > color #487 dodgerblue > color #488 dodgerblue > color #489 #00b305ff > color #490 #00b305ff > color #491 #f15839ff > select #1.39/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #492 --- Chain | Description A | No description available > matchmaker #492 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.39) with AF3 E1 1-421.pdb, chain A (#492), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #493 --- Chain | Description A | No description available > matchmaker #493 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.39) with AF3 E1 422-461.pdb, chain A (#493), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.39/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #494 --- Chain | Description B | No description available > matchmaker #494 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.39) with AF3 E2 1-352.pdb, chain B (#494), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #495 --- Chain | Description B | No description available > matchmaker #495 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.39) with AF3 E2 353-438.pdb, chain B (#495), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.39/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #496 --- Chain | Description A | No description available > matchmaker #496 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.39) with AF3 CA.pdb, chain A (#496), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #492 dodgerblue > color #493 dodgerblue > color #494 #00b305ff > color #495 #00b305ff > color #496 #f15839ff > select #1.40/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #497 --- Chain | Description A | No description available > matchmaker #497 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.40) with AF3 E1 1-421.pdb, chain A (#497), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #498 --- Chain | Description A | No description available > matchmaker #498 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.40) with AF3 E1 422-461.pdb, chain A (#498), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.40/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #499 --- Chain | Description B | No description available > matchmaker #499 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.40) with AF3 E2 1-352.pdb, chain B (#499), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #500 --- Chain | Description B | No description available > matchmaker #500 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.40) with AF3 E2 353-438.pdb, chain B (#500), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > select #1.40/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #501 --- Chain | Description A | No description available > matchmaker #501 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.40) with AF3 CA.pdb, chain A (#501), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > select #1.40/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > color #497 dodgerblue > color #498 dodgerblue > color #499 #00b305ff > color #500 #00b305ff > color #501 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #452-501 models > select #1.41/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #502 --- Chain | Description A | No description available > matchmaker #502 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.41) with AF3 E1 1-421.pdb, chain A (#502), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #503 --- Chain | Description A | No description available > matchmaker #503 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.41) with AF3 E1 422-461.pdb, chain A (#503), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.41/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #504 --- Chain | Description B | No description available > matchmaker #504 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.41) with AF3 E2 1-352.pdb, chain B (#504), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #505 --- Chain | Description B | No description available > matchmaker #505 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.41) with AF3 E2 353-438.pdb, chain B (#505), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.41/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #506 --- Chain | Description A | No description available > matchmaker #506 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.41) with AF3 CA.pdb, chain A (#506), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons [Repeated 1 time(s)] > color #502 dodgerblue > color #503 dodgerblue > color #504 #00b305ff > color #505 #00b305ff > color #506 #f15839ff > select #1.42/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #507 --- Chain | Description A | No description available > matchmaker #507 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.42) with AF3 E1 1-421.pdb, chain A (#507), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #508 --- Chain | Description A | No description available > matchmaker #508 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.42) with AF3 E1 422-461.pdb, chain A (#508), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.42/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #509 --- Chain | Description B | No description available > matchmaker #509 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.42) with AF3 E2 1-352.pdb, chain B (#509), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #510 --- Chain | Description B | No description available > matchmaker #510 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.42) with AF3 E2 353-438.pdb, chain B (#510), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.42/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #511 --- Chain | Description A | No description available > matchmaker #511 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.42) with AF3 CA.pdb, chain A (#511), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #507 dodgerblue > color #508 dodgerblue > color #509 #00b305ff > color #510 #00b305ff > color #511 #f15839ff > select #1.43/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #512 --- Chain | Description A | No description available > matchmaker #512 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.43) with AF3 E1 1-421.pdb, chain A (#512), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #513 --- Chain | Description A | No description available > matchmaker #513 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.43) with AF3 E1 422-461.pdb, chain A (#513), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.43/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #514 --- Chain | Description B | No description available > matchmaker #514 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.43) with AF3 E2 1-352.pdb, chain B (#514), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #515 --- Chain | Description B | No description available > matchmaker #515 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.43) with AF3 E2 353-438.pdb, chain B (#515), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.43/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #516 --- Chain | Description A | No description available > matchmaker #516 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.43) with AF3 CA.pdb, chain A (#516), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #512 dodgerblue > color #513 dodgerblue > color #515 #00b305ff > color #516 #f15839ff > select #1.44/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #517 --- Chain | Description A | No description available > matchmaker #517 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.44) with AF3 E1 1-421.pdb, chain A (#517), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #518 --- Chain | Description A | No description available > matchmaker #518 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.44) with AF3 E1 422-461.pdb, chain A (#518), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.44/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #519 --- Chain | Description B | No description available > matchmaker #519 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.44) with AF3 E2 1-352.pdb, chain B (#519), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #520 --- Chain | Description B | No description available > matchmaker #520 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.44) with AF3 E2 353-438.pdb, chain B (#520), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.44/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #521 --- Chain | Description A | No description available > matchmaker #521 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.44) with AF3 CA.pdb, chain A (#521), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #517 dodgerblue > color #518 dodgerblue > color #519 #00b305ff > color #520 #00b305ff > color #521 #f15839ff > select #1.45/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #522 --- Chain | Description A | No description available > matchmaker #522 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.45) with AF3 E1 1-421.pdb, chain A (#522), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #523 --- Chain | Description A | No description available > matchmaker #523 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.45) with AF3 E1 422-461.pdb, chain A (#523), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.45/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #524 --- Chain | Description B | No description available > matchmaker #524 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.45) with AF3 E2 1-352.pdb, chain B (#524), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #525 --- Chain | Description B | No description available > matchmaker #525 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.45) with AF3 E2 353-438.pdb, chain B (#525), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.45/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #526 --- Chain | Description A | No description available > matchmaker #526 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.45) with AF3 CA.pdb, chain A (#526), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #522 dodgerblue > color #523 dodgerblue > color #524 #00b305ff > color #525 #00b305ff > color #526 #f15839ff > select #1.46/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #527 --- Chain | Description A | No description available > matchmaker #527 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.46) with AF3 E1 1-421.pdb, chain A (#527), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #528 --- Chain | Description A | No description available > matchmaker #528 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.46) with AF3 E1 422-461.pdb, chain A (#528), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.46/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #529 --- Chain | Description B | No description available > matchmaker #529 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.46) with AF3 E2 1-352.pdb, chain B (#529), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #530 --- Chain | Description B | No description available > matchmaker #530 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.46) with AF3 E2 353-438.pdb, chain B (#530), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.46/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #531 --- Chain | Description A | No description available > matchmaker #531 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.46) with AF3 CA.pdb, chain A (#531), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #527 dodgerblue > color #528 dodgerblue > color #529 #00b305ff > color #530 #00b305ff > color #531 #f15839ff > select #1.47/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #532 --- Chain | Description A | No description available > matchmaker #532 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.47) with AF3 E1 1-421.pdb, chain A (#532), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #533 --- Chain | Description A | No description available > matchmaker #533 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.47) with AF3 E1 422-461.pdb, chain A (#533), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.47/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #534 --- Chain | Description B | No description available > matchmaker #534 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.47) with AF3 E2 1-352.pdb, chain B (#534), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #535 --- Chain | Description B | No description available > matchmaker #535 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.47) with AF3 E2 353-438.pdb, chain B (#535), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.47/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #536 --- Chain | Description A | No description available > matchmaker #536 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.47) with AF3 CA.pdb, chain A (#536), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #532 dodgerblue > color #533 dodgerblue > color #534 #00b305ff > color #535 #00b305ff > color #536 #f15839ff > select #1.48/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #537 --- Chain | Description A | No description available > matchmaker #537 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.48) with AF3 E1 1-421.pdb, chain A (#537), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #538 --- Chain | Description A | No description available > matchmaker #538 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.48) with AF3 E1 422-461.pdb, chain A (#538), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.48/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #539 --- Chain | Description B | No description available > matchmaker #539 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.48) with AF3 E2 1-352.pdb, chain B (#539), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #540 --- Chain | Description B | No description available > matchmaker #540 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.48) with AF3 E2 353-438.pdb, chain B (#540), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.48/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #541 --- Chain | Description A | No description available > matchmaker #541 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.48) with AF3 CA.pdb, chain A (#541), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #537 dodgerblue > color #538 dodgerblue > color #539 #00b305ff > color #540 #00b305ff > color #541 #f15839ff > select #1.49/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #542 --- Chain | Description A | No description available > matchmaker #542 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.49) with AF3 E1 1-421.pdb, chain A (#542), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #543 --- Chain | Description A | No description available > matchmaker #543 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.49) with AF3 E1 422-461.pdb, chain A (#543), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.49/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #544 --- Chain | Description B | No description available > matchmaker #544 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.49) with AF3 E2 1-352.pdb, chain B (#544), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #545 --- Chain | Description B | No description available > matchmaker #545 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.49) with AF3 E2 353-438.pdb, chain B (#545), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.49/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #546 --- Chain | Description A | No description available > matchmaker #546 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.49) with AF3 CA.pdb, chain A (#546), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #542 dodgerblue > color #543 dodgerblue > color #544 #00b305ff > color #545 #00b305ff > color #546 #f15839ff > select #1.50/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #547 --- Chain | Description A | No description available > matchmaker #547 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.50) with AF3 E1 1-421.pdb, chain A (#547), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #548 --- Chain | Description A | No description available > matchmaker #548 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.50) with AF3 E1 422-461.pdb, chain A (#548), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.50/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #549 --- Chain | Description B | No description available > matchmaker #549 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.50) with AF3 E2 1-352.pdb, chain B (#549), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #550 --- Chain | Description B | No description available > matchmaker #550 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.50) with AF3 E2 353-438.pdb, chain B (#550), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.50/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #551 --- Chain | Description A | No description available > matchmaker #551 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.50) with AF3 CA.pdb, chain A (#551), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #547 dodgerblue > color #548 dodgerblue > color #549 #00b305ff > color #550 #00b305ff > color #551 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #502-551 models > show #547 models > show #548 models > select #1.50/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons [Repeated 1 time(s)] > hide #547 models > hide #548 models > select #1.51/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #552 --- Chain | Description A | No description available > matchmaker #552 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.51) with AF3 E1 1-421.pdb, chain A (#552), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #553 --- Chain | Description A | No description available > matchmaker #553 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.51) with AF3 E1 422-461.pdb, chain A (#553), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.51/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #554 --- Chain | Description B | No description available > matchmaker #554 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.51) with AF3 E2 1-352.pdb, chain B (#554), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #555 --- Chain | Description B | No description available > matchmaker #555 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.51) with AF3 E2 353-438.pdb, chain B (#555), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.51/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #556 --- Chain | Description A | No description available > matchmaker #556 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.51) with AF3 CA.pdb, chain A (#556), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #552 dodgerblue > color #553 dodgerblue > color #554 #00b305ff > color #555 #00b305ff > color #556 #f15839ff > select #1.52/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #557 --- Chain | Description A | No description available > matchmaker #557 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.52) with AF3 E1 1-421.pdb, chain A (#557), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #558 --- Chain | Description A | No description available > matchmaker #558 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.52) with AF3 E1 422-461.pdb, chain A (#558), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.52/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #559 --- Chain | Description B | No description available > matchmaker #559 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.52) with AF3 E2 1-352.pdb, chain B (#559), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #560 --- Chain | Description B | No description available > matchmaker #560 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.52) with AF3 E2 353-438.pdb, chain B (#560), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.52/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #561 --- Chain | Description A | No description available > matchmaker #561 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.52) with AF3 CA.pdb, chain A (#561), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #557 dodgerblue > color #558 dodgerblue > color #559 #00b305ff > color #560 #00b305ff > color #561 #f15839ff > select #1.53/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > select #1.53/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #562 --- Chain | Description A | No description available > matchmaker #562 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.53) with AF3 E1 1-421.pdb, chain A (#562), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #563 --- Chain | Description A | No description available > matchmaker #563 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.53) with AF3 E1 422-461.pdb, chain A (#563), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #564 --- Chain | Description B | No description available > select #1.53/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > matchmaker #564 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.53) with AF3 E2 1-352.pdb, chain B (#564), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #565 --- Chain | Description B | No description available > matchmaker #565 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.53) with AF3 E2 353-438.pdb, chain B (#565), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.53/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #566 --- Chain | Description A | No description available > matchmaker #566 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.53) with AF3 CA.pdb, chain A (#566), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #562 dodgerblue > color #563 dodgerblue > color #564 #00b305ff > color #565 #00b305ff > color #566 #f15839ff > select #1.54/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #567 --- Chain | Description A | No description available > matchmaker #567 to #1.53 & sel No 'to' model specified > matchmaker #567 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.54) with AF3 E1 1-421.pdb, chain A (#567), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #568 --- Chain | Description A | No description available > matchmaker #568 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.54) with AF3 E1 422-461.pdb, chain A (#568), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.54/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #569 --- Chain | Description B | No description available > matchmaker #569 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.54) with AF3 E2 1-352.pdb, chain B (#569), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #570 --- Chain | Description B | No description available > matchmaker #570 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.54) with AF3 E2 353-438.pdb, chain B (#570), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.54/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #571 --- Chain | Description A | No description available > matchmaker #571 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.54) with AF3 CA.pdb, chain A (#571), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #567 dodgerblue > color #568 dodgerblue > color #569 #00b305ff > color #570 #00b305ff > color #571 #f15839ff > select #1.55/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #572 --- Chain | Description A | No description available > matchmaker #572 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.55) with AF3 E1 1-421.pdb, chain A (#572), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #573 --- Chain | Description A | No description available > matchmaker #573 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.55) with AF3 E1 422-461.pdb, chain A (#573), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.55/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #574 --- Chain | Description B | No description available > matchmaker #574 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.55) with AF3 E2 1-352.pdb, chain B (#574), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #575 --- Chain | Description B | No description available > matchmaker #575 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.55) with AF3 E2 353-438.pdb, chain B (#575), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select #1.55/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #576 --- Chain | Description A | No description available > matchmaker #576 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.55) with AF3 CA.pdb, chain A (#576), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #572 dodgerblue > color #573 dodgerblue > color #574 #00b305ff > color #575 #00b305ff > color #576 #f15839ff > select #1.56/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #577 --- Chain | Description A | No description available > matchmaker #577 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.56) with AF3 E1 1-421.pdb, chain A (#577), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #578 --- Chain | Description A | No description available > matchmaker #578 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.56) with AF3 E1 422-461.pdb, chain A (#578), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.56/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #579 --- Chain | Description B | No description available > matchmaker #579 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.56) with AF3 E2 1-352.pdb, chain B (#579), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #580 --- Chain | Description B | No description available > matchmaker #580 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.56) with AF3 E2 353-438.pdb, chain B (#580), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.56/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #581 --- Chain | Description A | No description available > matchmaker #581 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.56) with AF3 CA.pdb, chain A (#581), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #577 dodgerblue > color #578 dodgerblue > color #579 #00b305ff > color #580 #00b305ff > color #581 #f15839ff > select #1.57/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #582 --- Chain | Description A | No description available > matchmaker #582 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.57) with AF3 E1 1-421.pdb, chain A (#582), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #583 --- Chain | Description A | No description available > matchmaker #583 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.57) with AF3 E1 422-461.pdb, chain A (#583), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.57/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #584 --- Chain | Description B | No description available > matchmaker #584 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.57) with AF3 E2 1-352.pdb, chain B (#584), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #585 --- Chain | Description B | No description available > matchmaker #585 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.57) with AF3 E2 353-438.pdb, chain B (#585), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.819 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.57/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #586 --- Chain | Description A | No description available > matchmaker #586 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.57) with AF3 CA.pdb, chain A (#586), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #582 dodgerblue > color #583 dodgerblue > color #584 #00b305ff > color #585 #00b305ff > color #586 #f15839ff > select #1.58/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #587 --- Chain | Description A | No description available > matchmaker #587 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.58) with AF3 E1 1-421.pdb, chain A (#587), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #588 --- Chain | Description A | No description available > matchmaker #588 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.58) with AF3 E1 422-461.pdb, chain A (#588), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel atoms > hide sel cartoons > select #1.58/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #589 --- Chain | Description B | No description available > matchmaker #589 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.58) with AF3 E2 1-352.pdb, chain B (#589), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #590 --- Chain | Description B | No description available > matchmaker #590 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.58) with AF3 E2 353-438.pdb, chain B (#590), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.58/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #591 --- Chain | Description A | No description available > matchmaker #591 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.58) with AF3 CA.pdb, chain A (#591), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #587 dodgerblue > color #588 dodgerblue > color #589 #00b305ff > color #590 #00b305ff > color #591 #f15839ff > select #1.59/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #592 --- Chain | Description A | No description available > matchmaker #592 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.59) with AF3 E1 1-421.pdb, chain A (#592), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #593 --- Chain | Description A | No description available > matchmaker #593 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.59) with AF3 E1 422-461.pdb, chain A (#593), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.59/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #594 --- Chain | Description B | No description available > matchmaker #594 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.59) with AF3 E2 1-352.pdb, chain B (#594), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #595 --- Chain | Description B | No description available > matchmaker #595 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.59) with AF3 E2 353-438.pdb, chain B (#595), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.59/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #596 --- Chain | Description A | No description available > matchmaker #596 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.59) with AF3 CA.pdb, chain A (#596), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel atoms > hide sel cartoons > color #592 dodgerblue > color #593 dodgerblue > color #594 #00b305ff > color #595 #00b305ff > color #596 #f15839ff > select #1.60/D 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #597 --- Chain | Description A | No description available > matchmaker #597 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.60) with AF3 E1 1-421.pdb, chain A (#597), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.180 angstroms; (across all 403 pairs: 3.032) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #598 --- Chain | Description A | No description available > matchmaker #598 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain D (#1.60) with AF3 E1 422-461.pdb, chain A (#598), sequence alignment score = 626.9 RMSD between 28 pruned atom pairs is 0.543 angstroms; (across all 38 pairs: 2.916) > hide sel cartoons > select #1.60/E 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #599 --- Chain | Description B | No description available > matchmaker #599 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.60) with AF3 E2 1-352.pdb, chain B (#599), sequence alignment score = 594.5 RMSD between 109 pruned atom pairs is 0.994 angstroms; (across all 333 pairs: 6.147) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #600 --- Chain | Description B | No description available > matchmaker #600 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain E (#1.60) with AF3 E2 353-438.pdb, chain B (#600), sequence alignment score = 340.2 RMSD between 38 pruned atom pairs is 0.818 angstroms; (across all 84 pairs: 8.673) > hide sel cartoons > select #1.60/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #601 --- Chain | Description A | No description available > matchmaker #601 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain F (#1.60) with AF3 CA.pdb, chain A (#601), sequence alignment score = 335.3 RMSD between 117 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.550) > hide sel cartoons > color #597 dodgerblue > color #598 dodgerblue > color #599 #00b305ff > color #600 #00b305ff > color #601 #f15839ff > view sel No displayed objects specified. > view > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > show #2-601 models > view > hide sel cartoons > save /Users/Jean/Desktop/image1.png supersample 3 > hide #300 models > show #300 models > hide #299 models > show #299 models > hide #299 models > show #299 models > select 2871120 atoms, 2944244 bonds, 373800 residues, 661 models selected > show sel cartoons > hide #!1 models > select subtract #1 962880 atoms, 985560 bonds, 127320 residues, 600 models selected > select clear > view > hide #2-601 cartoons > show #2-601 atoms > style #2-601 sphere Changed 962880 atom styles > save /Users/Jean/Desktop/image1.png supersample 3 > view > color #514 #00b305ff > view > hide #2-601 atoms > show #2-601 cartoons > save /Users/Jean/Desktop/image2.png supersample 3 > hide #2-601 cartoons > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show #2-601 cartoons > select clear > hide #2-601 cartoons > select clear > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show #2-601 cartoons > hide #2-601 models > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > view sel No displayed objects specified. > show #!1 models > select ~sel & ##selected 28434 atoms, 29221 bonds, 3666 residues, 1 model selected > select ~sel 2842686 atoms, 2915023 bonds, 370134 residues, 661 models selected > hide sel & #1.1-60 cartoons > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > ui mousemode right select > select clear > select #1.1/B:287 8 atoms, 7 bonds, 1 residue, 1 model selected > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide #1.1 models > show #1.1 models > hide #1.1 models > show #1.1 models > select add #1.1 31804 atoms, 32688 bonds, 4108 residues, 1 model selected > select subtract #1.1 Nothing selected > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > select ~sel & ##selected 28434 atoms, 29221 bonds, 3666 residues, 1 model selected > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #602 --- Chain | Description A | No description available > view sel No displayed objects specified. > view > matchmaker #602 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 1-421.pdb, chain A (#602), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > matchmaker #602 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E1 1-421.pdb, chain A (#602), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #603 --- Chain | Description A | No description available > matchmaker #603 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E1 422-461.pdb, chain A (#603), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #604 --- Chain | Description B | No description available > matchmaker #603 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.1) with AF3 E1 422-461.pdb, chain A (#603), sequence alignment score = 9.2 RMSD between 6 pruned atom pairs is 0.871 angstroms; (across all 11 pairs: 3.614) > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #603 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E1 422-461.pdb, chain A (#603), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > matchmaker #604 to #1.2 & sel No 'to' model specified > matchmaker #604 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.1) with AF3 E2 1-352.pdb, chain B (#604), sequence alignment score = 71.8 RMSD between 4 pruned atom pairs is 1.398 angstroms; (across all 265 pairs: 48.114) > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > matchmaker #604 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.1) with AF3 E2 1-352.pdb, chain B (#604), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #605 --- Chain | Description B | No description available > matchmaker #605 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.1) with AF3 E2 353-438.pdb, chain B (#605), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > show sel atoms > hide sel cartoons > hide sel atoms > select #1.1/G 3370 atoms, 3467 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.1/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #606 --- Chain | Description A | No description available > matchmaker #606 to #1.1 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.1) with AF3 CA.pdb, chain A (#606), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #602 dodgerblue > color #603 dodgerblue > color #604 #00b305ff > color #605 #00b305ff > color #606 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Tue Jul 16 18:02:55 2024 ——— opened ChimeraX session > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > select #1.2/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #607 --- Chain | Description A | No description available > matchmaker #607 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.2) with AF3 E1 1-421.pdb, chain A (#607), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #608 --- Chain | Description A | No description available > matchmaker #608 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.2) with AF3 E1 422-461.pdb, chain A (#608), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > select #1.2/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #609 --- Chain | Description B | No description available > matchmaker #609 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.2) with AF3 E2 1-352.pdb, chain B (#609), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #610 --- Chain | Description B | No description available > matchmaker #610 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.2) with AF3 E2 353-438.pdb, chain B (#610), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.2/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #611 --- Chain | Description A | No description available > matchmaker #611 to #1.2 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.2) with AF3 CA.pdb, chain A (#611), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #607 dodgerblue > color #608 dodgerblue > color #609 #00b305ff > color #610 #00b305ff > color #611 #f15839ff > select #1.2/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.3/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #612 --- Chain | Description A | No description available > matchmaker #612 to #1.2 & sel No 'to' model specified > matchmaker #612 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.3) with AF3 E1 1-421.pdb, chain A (#612), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > matchmaker #612 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.3) with AF3 E1 1-421.pdb, chain A (#612), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #613 --- Chain | Description A | No description available > matchmaker #613 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.3) with AF3 E1 422-461.pdb, chain A (#613), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.3/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #614 --- Chain | Description B | No description available > matchmaker #614 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.3) with AF3 E2 1-352.pdb, chain B (#614), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #615 --- Chain | Description B | No description available > matchmaker #615 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.3) with AF3 E2 353-438.pdb, chain B (#615), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.3/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #616 --- Chain | Description A | No description available > matchmaker #616 to #1.3 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.3) with AF3 CA.pdb, chain A (#616), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #612 dodgerblue > color #613 dodgerblue > color #614 #00b305ff > color #615 #00b305ff > color #616 #f15839ff > select #1.4/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.3/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.4/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #617 --- Chain | Description A | No description available > matchmaker #617 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.4) with AF3 E1 1-421.pdb, chain A (#617), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > hide sel cartoons > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #618 --- Chain | Description A | No description available > matchmaker #618 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.4) with AF3 E1 422-461.pdb, chain A (#618), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.4/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #619 --- Chain | Description B | No description available > matchmaker #619 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.4) with AF3 E2 1-352.pdb, chain B (#619), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #620 --- Chain | Description B | No description available > matchmaker #620 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.4) with AF3 E2 353-438.pdb, chain B (#620), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.4/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #621 --- Chain | Description A | No description available > matchmaker #621 to #1.4 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.4) with AF3 CA.pdb, chain A (#621), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #617 dodgerblue > color #618 dodgerblue > color #619 #00b305ff > color #620 #00b305ff > color #621 #f15839ff > select #1.5/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #622 --- Chain | Description A | No description available > matchmaker #622 to #1.4 & sel No 'to' model specified > matchmaker #622 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.5) with AF3 E1 1-421.pdb, chain A (#622), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #623 --- Chain | Description A | No description available > matchmaker #623 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.5) with AF3 E1 422-461.pdb, chain A (#623), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.5/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #624 --- Chain | Description B | No description available > matchmaker #624 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.5) with AF3 E2 1-352.pdb, chain B (#624), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #625 --- Chain | Description B | No description available > hide sel cartoons > show sel cartoons > matchmaker #625 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.5) with AF3 E2 353-438.pdb, chain B (#625), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > select #1.5/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #626 --- Chain | Description A | No description available > matchmaker #626 to #1.5 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.5) with AF3 CA.pdb, chain A (#626), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #622 dodgerblue > color #623 dodgerblue > color #624 #00b305ff > color #625 #00b305ff > color #626 #f15839ff > select #1.5/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.6/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #627 --- Chain | Description A | No description available > matchmaker #627 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.6) with AF3 E1 1-421.pdb, chain A (#627), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #628 --- Chain | Description A | No description available > matchmaker #628 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.6) with AF3 E1 422-461.pdb, chain A (#628), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.6/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #629 --- Chain | Description B | No description available > matchmaker #629 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.6) with AF3 E2 1-352.pdb, chain B (#629), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #630 --- Chain | Description B | No description available > matchmaker #630 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.6) with AF3 E2 353-438.pdb, chain B (#630), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.6/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #631 --- Chain | Description A | No description available > matchmaker #631 to #1.6 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.6) with AF3 CA.pdb, chain A (#631), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #627 dodgerblue > color #628 dodgerblue > color #629 #00b305ff > color #630 #00b305ff > color #631 #f15839ff > select #1.7/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #632 --- Chain | Description A | No description available > matchmaker #632 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.7) with AF3 E1 1-421.pdb, chain A (#632), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #633 --- Chain | Description A | No description available > matchmaker #633 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.7) with AF3 E1 422-461.pdb, chain A (#633), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.7/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #634 --- Chain | Description B | No description available > matchmaker #634 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.7) with AF3 E2 1-352.pdb, chain B (#634), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #635 --- Chain | Description B | No description available > matchmaker #635 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.7) with AF3 E2 353-438.pdb, chain B (#635), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.7/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #636 --- Chain | Description A | No description available > matchmaker #636 to #1.7 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.7) with AF3 CA.pdb, chain A (#636), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #632 dodgerblue > color #633 dodgerblue > color #634 #00b305ff > color #635 #00b305ff > color #636 #f15839ff > select #1.8/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #637 --- Chain | Description A | No description available > matchmaker #637 to #1.7 & sel No 'to' model specified > matchmaker #637 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.8) with AF3 E1 1-421.pdb, chain A (#637), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #638 --- Chain | Description A | No description available > matchmaker #638 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.8) with AF3 E1 422-461.pdb, chain A (#638), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.8/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #639 --- Chain | Description B | No description available > matchmaker #639 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.8) with AF3 E2 1-352.pdb, chain B (#639), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #640 --- Chain | Description B | No description available > matchmaker #640 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.8) with AF3 E2 353-438.pdb, chain B (#640), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.8/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #641 --- Chain | Description A | No description available > matchmaker #641 to #1.8 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.8) with AF3 CA.pdb, chain A (#641), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #637 dodgerblue > color #638 dodgerblue > color #639 #00b305ff > color #640 #00b305ff > color #641 #f15839ff > select #1.9/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #642 --- Chain | Description A | No description available > matchmaker #642 to #1.8 & sel No 'to' model specified > matchmaker #642 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.9) with AF3 E1 1-421.pdb, chain A (#642), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #643 --- Chain | Description A | No description available > matchmaker #643 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.9) with AF3 E1 422-461.pdb, chain A (#643), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.9/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #644 --- Chain | Description B | No description available > matchmaker #644 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.9) with AF3 E2 1-352.pdb, chain B (#644), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #645 --- Chain | Description B | No description available > matchmaker #645 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.9) with AF3 E2 353-438.pdb, chain B (#645), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.9/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #646 --- Chain | Description A | No description available > matchmaker #646 to #1.9 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.9) with AF3 CA.pdb, chain A (#646), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #642 dodgerblue > color #643 dodgerblue > color #644 #00b305ff > color #645 #00b305ff > color #646 #f15839ff > select #1.10/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #647 --- Chain | Description A | No description available > matchmaker #647 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.10) with AF3 E1 1-421.pdb, chain A (#647), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #648 --- Chain | Description A | No description available > matchmaker #648 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.10) with AF3 E1 422-461.pdb, chain A (#648), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.10/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #649 --- Chain | Description B | No description available > matchmaker #649 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.10) with AF3 E2 1-352.pdb, chain B (#649), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #650 --- Chain | Description B | No description available > matchmaker #650 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.10) with AF3 E2 353-438.pdb, chain B (#650), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.10/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #651 --- Chain | Description A | No description available > matchmaker #651 to #1.10 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.10) with AF3 CA.pdb, chain A (#651), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #647 dodgerblue > color #648 dodgerblue > color #649 #00b305ff > color #650 #00b305ff > color #651 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #602 models > hide #603 models > hide #604 models > hide #605 models > hide #606 models > hide #607 models > hide #608 models > hide #609 models > hide #610 models > hide #611 models > hide #612 models > hide #613 models > hide #614 models > hide #615 models > hide #616 models > hide #617 models > hide #618 models > hide #619 models > hide #620 models > hide #621 models > hide #622 models > hide #623 models > hide #624 models > hide #625 models > hide #626 models > hide #627 models > hide #628 models > hide #629 models > hide #630 models > hide #631 models > hide #632 models > hide #633 models > hide #634 models > hide #635 models > hide #636 models > hide #637 models > hide #638 models > hide #639 models > hide #640 models > hide #641 models > hide #642 models > hide #643 models > hide #644 models > hide #645 models > hide #646 models > hide #647 models > hide #648 models > hide #649 models > hide #650 models > hide #651 models > select #1.11/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #652 --- Chain | Description A | No description available > matchmaker #652 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.11) with AF3 E1 1-421.pdb, chain A (#652), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > view > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #653 --- Chain | Description A | No description available > matchmaker #653 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.11) with AF3 E1 422-461.pdb, chain A (#653), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.11/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #654 --- Chain | Description B | No description available > matchmaker #654 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.11) with AF3 E2 1-352.pdb, chain B (#654), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #655 --- Chain | Description B | No description available > matchmaker #655 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.11) with AF3 E2 353-438.pdb, chain B (#655), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.11/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #656 --- Chain | Description A | No description available > matchmaker #656 to #1.11 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.11) with AF3 CA.pdb, chain A (#656), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #652 dodgerblue > color #653 dodgerblue > color #654 #00b305ff > color #655 #00b305ff > color #656 #f15839ff > select #1.12/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #657 --- Chain | Description A | No description available > matchmaker #657 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.12) with AF3 E1 1-421.pdb, chain A (#657), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #658 --- Chain | Description A | No description available > matchmaker #658 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.12) with AF3 E1 422-461.pdb, chain A (#658), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.12/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #659 --- Chain | Description B | No description available > matchmaker #659 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.12) with AF3 E2 1-352.pdb, chain B (#659), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #660 --- Chain | Description B | No description available > matchmaker #660 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.12) with AF3 E2 353-438.pdb, chain B (#660), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.12/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #661 --- Chain | Description A | No description available > matchmaker #661 to #1.12 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.12) with AF3 CA.pdb, chain A (#661), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #657 dodgerblue > color #658 dodgerblue > color #659 #00b305ff > color #660 #00b305ff > color #661 #f15839ff > select #1.13/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #662 --- Chain | Description A | No description available > matchmaker #662 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.13) with AF3 E1 1-421.pdb, chain A (#662), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #663 --- Chain | Description A | No description available > matchmaker #663 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.13) with AF3 E1 422-461.pdb, chain A (#663), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.13/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #664 --- Chain | Description A | No description available > matchmaker #664 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.13) with AF3 CA.pdb, chain A (#664), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #665 --- Chain | Description B | No description available > matchmaker #665 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 1-352.pdb, chain B (#665), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #666 --- Chain | Description B | No description available > matchmaker #666 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 353-438.pdb, chain B (#666), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > close #664 > select #1.13/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #664 --- Chain | Description A | No description available > close #666 > close #665 > close #664 > hide sel cartoons > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #664 --- Chain | Description B | No description available > matchmaker #664 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 1-352.pdb, chain B (#664), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #665 --- Chain | Description B | No description available > matchmaker #665 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.13) with AF3 E2 353-438.pdb, chain B (#665), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.13/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #666 --- Chain | Description A | No description available > matchmaker #666 to #1.13 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.13) with AF3 CA.pdb, chain A (#666), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #662 dodgerblue > color #663 dodgerblue > color #664 #00b305ff > color #665 #00b305ff > color #666 #f15839ff > select #1.14/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #667 --- Chain | Description A | No description available > matchmaker #667 to #1.13 & sel No 'to' model specified > matchmaker #667 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.14) with AF3 E1 1-421.pdb, chain A (#667), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #668 --- Chain | Description A | No description available > matchmaker #668 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.14) with AF3 E1 422-461.pdb, chain A (#668), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > select #1.14/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #669 --- Chain | Description B | No description available > matchmaker #669 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.14) with AF3 E2 1-352.pdb, chain B (#669), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #670 --- Chain | Description B | No description available > matchmaker #670 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.14) with AF3 E2 353-438.pdb, chain B (#670), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.14/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #671 --- Chain | Description A | No description available > matchmaker #671 to #1.14 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.14) with AF3 CA.pdb, chain A (#671), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #667 dodgerblue > color #668 dodgerblue > color #669 #00b305ff > color #670 #00b305ff > color #671 #f15839ff > select #1.13/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > select #1.14/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.15/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #672 --- Chain | Description A | No description available > matchmaker #672 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.15) with AF3 E1 1-421.pdb, chain A (#672), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #673 --- Chain | Description A | No description available > matchmaker #673 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.15) with AF3 E1 422-461.pdb, chain A (#673), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.15/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #674 --- Chain | Description B | No description available > matchmaker #674 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.15) with AF3 E2 1-352.pdb, chain B (#674), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #675 --- Chain | Description B | No description available > matchmaker #675 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.15) with AF3 E2 353-438.pdb, chain B (#675), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.15/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #676 --- Chain | Description A | No description available > matchmaker #676 to #1.15 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.15) with AF3 CA.pdb, chain A (#676), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #672 dodgerblue > color #673 dodgerblue > color #674 #00b305ff > color #675 #00b305ff > color #676 #f15839ff > select #1.16/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #677 --- Chain | Description A | No description available > matchmaker #677 to #1.15 & sel No 'to' model specified > matchmaker #677 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.16) with AF3 E1 1-421.pdb, chain A (#677), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #678 --- Chain | Description A | No description available > matchmaker #678 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.16) with AF3 E1 422-461.pdb, chain A (#678), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.16/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #679 --- Chain | Description B | No description available > matchmaker #679 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.16) with AF3 E2 1-352.pdb, chain B (#679), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #680 --- Chain | Description B | No description available > matchmaker #680 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.16) with AF3 E2 353-438.pdb, chain B (#680), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.16/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #681 --- Chain | Description A | No description available > matchmaker #681 to #1.16 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.16) with AF3 CA.pdb, chain A (#681), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #677 dodgerblue > color #678 dodgerblue > color #679 #00b305ff > color #680 dodgerblue > color #680 #00b305ff > color #681 #f15839ff > select #1.17/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #682 --- Chain | Description A | No description available > matchmaker #682 to #1.16 & sel No 'to' model specified > matchmaker #682 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.17) with AF3 E1 1-421.pdb, chain A (#682), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #683 --- Chain | Description A | No description available > matchmaker #683 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.17) with AF3 E1 422-461.pdb, chain A (#683), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.17/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #684 --- Chain | Description B | No description available > matchmaker #684 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.17) with AF3 E2 1-352.pdb, chain B (#684), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #685 --- Chain | Description B | No description available > matchmaker #685 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.17) with AF3 E2 353-438.pdb, chain B (#685), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > select #1.17/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #686 --- Chain | Description A | No description available > matchmaker #686 to #1.17 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.17) with AF3 CA.pdb, chain A (#686), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #682 dodgerblue > color #683 dodgerblue > color #684 #00b305ff > color #685 #00b305ff > color #686 #f15839ff > select #1.18/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #687 --- Chain | Description A | No description available > matchmaker #687 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.18) with AF3 E1 1-421.pdb, chain A (#687), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #688 --- Chain | Description A | No description available > matchmaker #688 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.18) with AF3 E1 422-461.pdb, chain A (#688), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.18/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #689 --- Chain | Description B | No description available > matchmaker #689 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.18) with AF3 E2 1-352.pdb, chain B (#689), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #690 --- Chain | Description B | No description available > matchmaker #690 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.18) with AF3 E2 353-438.pdb, chain B (#690), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.18/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #691 --- Chain | Description A | No description available > matchmaker #691 to #1.18 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.18) with AF3 CA.pdb, chain A (#691), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #687 dodgerblue > color #688 dodgerblue > color #689 #00b305ff > color #690 #00b305ff > color #691 #f15839ff > select #1.19/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #692 --- Chain | Description A | No description available > matchmaker #692 to #1.18 & sel No 'to' model specified > matchmaker #692 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.19) with AF3 E1 1-421.pdb, chain A (#692), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #693 --- Chain | Description A | No description available > matchmaker #693 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.19) with AF3 E1 422-461.pdb, chain A (#693), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.19/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #694 --- Chain | Description B | No description available > matchmaker #694 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.19) with AF3 E2 1-352.pdb, chain B (#694), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #695 --- Chain | Description B | No description available > matchmaker #695 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.19) with AF3 E2 353-438.pdb, chain B (#695), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.19/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #696 --- Chain | Description A | No description available > matchmaker #696 to #1.19 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.19) with AF3 CA.pdb, chain A (#696), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #692 dodgerblue > color #693 dodgerblue > color #694 #00b305ff > color #695 #00b305ff > color #696 #f15839ff > select #1.20/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #697 --- Chain | Description A | No description available > matchmaker #697 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.20) with AF3 E1 1-421.pdb, chain A (#697), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #698 --- Chain | Description A | No description available > matchmaker #698 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.20) with AF3 E1 422-461.pdb, chain A (#698), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.20/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #699 --- Chain | Description B | No description available > matchmaker #699 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.20) with AF3 E2 1-352.pdb, chain B (#699), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #700 --- Chain | Description B | No description available > matchmaker #700 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.20) with AF3 E2 353-438.pdb, chain B (#700), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.20/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #701 --- Chain | Description A | No description available > matchmaker #701 to #1.20 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.20) with AF3 CA.pdb, chain A (#701), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #697 dodgerblue > color #698 dodgerblue > color #699 #00b305ff > color #700 #00b305ff > color #701 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #652 models > hide #653 models > hide #654 models > hide #655 models > hide #656 models > hide #657 models > hide #658 models > hide #660 models > hide #661 models > hide #659 models > hide #662 models > hide #663 models > hide #664 models > hide #665 models > hide #666 models > hide #667 models > hide #668 models > hide #669 models > hide #670 models > hide #671 models > hide #672 models > hide #673 models > hide #674 models > hide #675 models > hide #676 models > hide #677 models > hide #678 models > hide #679 models > hide #680 models > hide #681 models > hide #682 models > hide #683 models > hide #684 models > hide #685 models > hide #686 models > hide #687 models > hide #688 models > hide #689 models > hide #690 models > hide #691 models > hide #692 models > hide #693 models > hide #694 models > hide #695 models > hide #696 models > hide #697 models > hide #698 models > hide #699 models > hide #700 models > hide #701 models > select #1.21/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #702 --- Chain | Description A | No description available > matchmaker #702 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.21) with AF3 E1 1-421.pdb, chain A (#702), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #703 --- Chain | Description A | No description available > matchmaker #703 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.21) with AF3 E1 422-461.pdb, chain A (#703), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > select #1.21/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #704 --- Chain | Description B | No description available > matchmaker #704 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.21) with AF3 E2 1-352.pdb, chain B (#704), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #705 --- Chain | Description B | No description available > matchmaker #705 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.21) with AF3 E2 353-438.pdb, chain B (#705), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.21/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.21/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #706 --- Chain | Description A | No description available > matchmaker #706 to #1.21 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.21) with AF3 CA.pdb, chain A (#706), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #702 dodgerblue > color #703 dodgerblue > color #704 #00b305ff > color #705 #00b305ff > color #706 #f15839ff > select #1.22/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #707 --- Chain | Description A | No description available > matchmaker #707 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.22) with AF3 E1 1-421.pdb, chain A (#707), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #708 --- Chain | Description A | No description available > matchmaker #708 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.22) with AF3 E1 422-461.pdb, chain A (#708), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.21/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.22/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #709 --- Chain | Description B | No description available > matchmaker #709 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.22) with AF3 E2 1-352.pdb, chain B (#709), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #710 --- Chain | Description B | No description available > matchmaker #710 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.22) with AF3 E2 353-438.pdb, chain B (#710), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.22/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #711 --- Chain | Description A | No description available > matchmaker #711 to #1.22 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.22) with AF3 CA.pdb, chain A (#711), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #707 dodgerblue > color #708 dodgerblue > color #709 #00b305ff > color #710 #00b305ff > color #711 #f15839ff > select #1.23/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #712 --- Chain | Description A | No description available > matchmaker #712 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.23) with AF3 E1 1-421.pdb, chain A (#712), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #713 --- Chain | Description A | No description available > matchmaker #713 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.23) with AF3 E1 422-461.pdb, chain A (#713), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.23/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #714 --- Chain | Description B | No description available > matchmaker #714 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.23) with AF3 E2 1-352.pdb, chain B (#714), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #715 --- Chain | Description B | No description available > matchmaker #715 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.23) with AF3 E2 353-438.pdb, chain B (#715), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.23/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #716 --- Chain | Description A | No description available > matchmaker #716 to #1.23 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.23) with AF3 CA.pdb, chain A (#716), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #712 dodgerblue > color #713 dodgerblue > color #714 #00b305ff > color #715 #00b305ff > color #716 #f15839ff > select #1.24/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #717 --- Chain | Description A | No description available > matchmaker #717 to #1.23 & sel No 'to' model specified > matchmaker #717 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.24) with AF3 E1 1-421.pdb, chain A (#717), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #718 --- Chain | Description A | No description available > matchmaker #718 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.24) with AF3 E1 422-461.pdb, chain A (#718), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.24/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #719 --- Chain | Description B | No description available > matchmaker #719 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.24) with AF3 E2 1-352.pdb, chain B (#719), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #720 --- Chain | Description B | No description available > matchmaker #720 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.24) with AF3 E2 353-438.pdb, chain B (#720), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.24/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #721 --- Chain | Description A | No description available > matchmaker #721 to #1.24 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.24) with AF3 CA.pdb, chain A (#721), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #717 dodgerblue > color #718 dodgerblue > color #719 #00b305ff > color #720 #00b305ff > color #721 #f15839ff > select #1.25/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #722 --- Chain | Description A | No description available > matchmaker #722 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.25) with AF3 E1 1-421.pdb, chain A (#722), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #723 --- Chain | Description A | No description available > matchmaker #723 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.25) with AF3 E1 422-461.pdb, chain A (#723), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.25/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #724 --- Chain | Description B | No description available > matchmaker #724 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.25) with AF3 E2 1-352.pdb, chain B (#724), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #725 --- Chain | Description B | No description available > matchmaker #725 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.25) with AF3 E2 353-438.pdb, chain B (#725), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.25/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #726 --- Chain | Description A | No description available > matchmaker #726 to #1.25 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.25) with AF3 CA.pdb, chain A (#726), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #722 dodgerblue > color #723 dodgerblue > color #724 #00b305ff > color #725 #00b305ff > color #726 #f15839ff > select #1.26/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #727 --- Chain | Description A | No description available > matchmaker #727 to #1.25 & sel No 'to' model specified > matchmaker #727 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.26) with AF3 E1 1-421.pdb, chain A (#727), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #728 --- Chain | Description A | No description available > matchmaker #728 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.26) with AF3 E1 422-461.pdb, chain A (#728), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.26/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #729 --- Chain | Description B | No description available > matchmaker #729 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.26) with AF3 E2 1-352.pdb, chain B (#729), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #730 --- Chain | Description B | No description available > matchmaker #730 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.26) with AF3 E2 353-438.pdb, chain B (#730), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.27/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.26/F 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.25/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.25/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > select #1.26/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #731 --- Chain | Description A | No description available > matchmaker #731 to #1.26 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.26) with AF3 CA.pdb, chain A (#731), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #727 dodgerblue > color #728 dodgerblue > color #729 #00b305ff > color #730 #00b305ff > color #731 #f15839ff > select #1.27/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #732 --- Chain | Description A | No description available > matchmaker #732 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.27) with AF3 E1 1-421.pdb, chain A (#732), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #733 --- Chain | Description A | No description available > matchmaker #733 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.27) with AF3 E1 422-461.pdb, chain A (#733), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.27/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #734 --- Chain | Description B | No description available > matchmaker #734 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.27) with AF3 E2 1-352.pdb, chain B (#734), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #735 --- Chain | Description B | No description available > matchmaker #735 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.27) with AF3 E2 353-438.pdb, chain B (#735), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.27/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #736 --- Chain | Description A | No description available > matchmaker #736 to #1.27 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.27) with AF3 CA.pdb, chain A (#736), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #732 dodgerblue > color #733 dodgerblue > color #734 #00b305ff > color #735 #00b305ff > color #736 #f15839ff > select #1.28/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #737 --- Chain | Description A | No description available > matchmaker #737 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.28) with AF3 E1 1-421.pdb, chain A (#737), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #738 --- Chain | Description A | No description available > matchmaker #738 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.28) with AF3 E1 422-461.pdb, chain A (#738), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.28/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #739 --- Chain | Description B | No description available > matchmaker #739 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.28) with AF3 E2 1-352.pdb, chain B (#739), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #740 --- Chain | Description B | No description available > matchmaker #740 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.28) with AF3 E2 353-438.pdb, chain B (#740), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.28/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #741 --- Chain | Description A | No description available > matchmaker #741 to #1.28 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.28) with AF3 CA.pdb, chain A (#741), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #737 dodgerblue > color #738 dodgerblue > color #739 #00b305ff > color #740 #00b305ff > color #741 #f15839ff > select #1.29/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #742 --- Chain | Description A | No description available > matchmaker #742 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.29) with AF3 E1 1-421.pdb, chain A (#742), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #743 --- Chain | Description A | No description available > matchmaker #743 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.29) with AF3 E1 422-461.pdb, chain A (#743), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.29/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #744 --- Chain | Description B | No description available > matchmaker #744 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.29) with AF3 E2 1-352.pdb, chain B (#744), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #745 --- Chain | Description B | No description available > matchmaker #745 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.29) with AF3 E2 353-438.pdb, chain B (#745), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.29/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #746 --- Chain | Description A | No description available > matchmaker #746 to #1.29 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.29) with AF3 CA.pdb, chain A (#746), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #742 dodgerblue > color #743 dodgerblue > color #744 #00b305ff > color #745 #00b305ff > color #746 #f15839ff > select #1.30/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #747 --- Chain | Description A | No description available > matchmaker #747 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.30) with AF3 E1 1-421.pdb, chain A (#747), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #748 --- Chain | Description A | No description available > matchmaker #748 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.30) with AF3 E1 422-461.pdb, chain A (#748), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.30/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #749 --- Chain | Description B | No description available > matchmaker #749 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.30) with AF3 E2 1-352.pdb, chain B (#749), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #750 --- Chain | Description B | No description available > matchmaker #750 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.30) with AF3 E2 353-438.pdb, chain B (#750), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.30/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.30/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #751 --- Chain | Description A | No description available > matchmaker #751 to #1.30 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.30) with AF3 CA.pdb, chain A (#751), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #747 dodgerblue > color #748 dodgerblue > color #749 #00b305ff > color #750 #00b305ff > color #751 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Wed Jul 17 13:58:06 2024 ——— opened ChimeraX session > ui tool show Matchmaker The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > hide #702 models > hide #703 models > hide #704 models > hide #705 models > hide #706 models > hide #707 models > hide #708 models > hide #709 models > hide #710 models > hide #711 models > hide #712 models > hide #713 models > hide #714 models > hide #715 models > hide #716 models > hide #717 models > hide #718 models > hide #719 models > hide #720 models > hide #721 models > hide #722 models > hide #723 models > hide #724 models > hide #725 models > hide #726 models > hide #727 models > hide #728 models > hide #729 models > hide #730 models > hide #731 models > hide #732 models > hide #733 models > hide #734 models > hide #735 models > hide #736 models > hide #737 models > hide #738 models > hide #739 models > hide #740 models > hide #741 models > hide #742 models > hide #743 models > hide #744 models > hide #745 models > hide #746 models > hide #747 models > hide #748 models > hide #749 models > hide #750 models > hide #751 models > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #752 --- Chain | Description A | No description available > matchmaker #752 to #1.1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain A (#1.1) with AF3 E1 1-421.pdb, chain A (#752), sequence alignment score = 1060.7 RMSD between 248 pruned atom pairs is 1.169 angstroms; (across all 403 pairs: 3.020) > matchmaker #752 to #1.1 & sel No 'to' model specified > matchmaker #752 to #1.1 & sel No 'to' model specified > close #752 > hide sel cartoons > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #752 --- Chain | Description A | No description available > matchmaker #752 to #1.1 & sel No 'to' model specified > matchmaker #752 & sel to #1.1 & sel No 'to' model specified > select #1.1/H 3304 atoms, 3400 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #752 to #1.1 & sel No 'to' model specified > show #751 models > show #750 models > show #749 models > show #748 models > show #747 models > select #1.30/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > hide sel cartoons > show sel cartoons > hide sel cartoons > select #1.30/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > matchmaker #752 to #1.31 & sel No 'to' model specified > select #1.31/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #752 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.31) with AF3 E1 1-421.pdb, chain A (#752), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > view > hide sel cartoons > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #753 --- Chain | Description A | No description available > matchmaker #753 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.31) with AF3 E1 422-461.pdb, chain A (#753), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.31/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #754 --- Chain | Description B | No description available > matchmaker #754 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.31) with AF3 E2 1-352.pdb, chain B (#754), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #755 --- Chain | Description B | No description available > matchmaker #755 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.31) with AF3 E2 353-438.pdb, chain B (#755), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.31/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #756 --- Chain | Description A | No description available > matchmaker #756 to #1.31 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.31) with AF3 CA.pdb, chain A (#756), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > hide #747 models > hide #748 models > hide #749 models > hide #750 models > hide #751 models > color #752 dodgerblue > color #753 dodgerblue > color #754 #00b305ff > color #755 #00b305ff > color #756 #f15839ff > select #1.32/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #757 --- Chain | Description A | No description available > matchmaker #757 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.32) with AF3 E1 1-421.pdb, chain A (#757), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #758 --- Chain | Description A | No description available > matchmaker #758 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.32) with AF3 E1 422-461.pdb, chain A (#758), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.32/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #759 --- Chain | Description B | No description available > matchmaker #759 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.32) with AF3 E2 1-352.pdb, chain B (#759), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #760 --- Chain | Description B | No description available > matchmaker #760 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.32) with AF3 E2 353-438.pdb, chain B (#760), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.32/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #761 --- Chain | Description A | No description available > matchmaker #761 to #1.32 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.32) with AF3 CA.pdb, chain A (#761), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #757 dodgerblue > color #758 dodgerblue > color #759 #00b305ff > color #760 #00b305ff > color #761 #f15839ff > select #1.33/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #762 --- Chain | Description A | No description available > matchmaker #762 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.33) with AF3 E1 1-421.pdb, chain A (#762), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #763 --- Chain | Description A | No description available > matchmaker #763 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.33) with AF3 E1 422-461.pdb, chain A (#763), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > select #1.32/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.33/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #764 --- Chain | Description B | No description available > matchmaker #764 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.33) with AF3 E2 1-352.pdb, chain B (#764), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #765 --- Chain | Description B | No description available > matchmaker #765 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.33) with AF3 E2 353-438.pdb, chain B (#765), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.33/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #766 --- Chain | Description A | No description available > matchmaker #766 to #1.33 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.33) with AF3 CA.pdb, chain A (#766), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #762 dodgerblue > color #763 dodgerblue > color #764 #00b305ff > color #765 #00b305ff > color #766 #f15839ff > select #1.33/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > hide sel cartoons > select #1.34/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #767 --- Chain | Description A | No description available > matchmaker #767 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.34) with AF3 E1 1-421.pdb, chain A (#767), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #768 --- Chain | Description A | No description available > matchmaker #768 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.34) with AF3 E1 422-461.pdb, chain A (#768), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.34/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #769 --- Chain | Description B | No description available > matchmaker #769 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.34) with AF3 E2 1-352.pdb, chain B (#769), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #770 --- Chain | Description B | No description available > matchmaker #770 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.34) with AF3 E2 353-438.pdb, chain B (#770), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.34/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #771 --- Chain | Description A | No description available > matchmaker #771 to #1.34 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.34) with AF3 CA.pdb, chain A (#771), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #767 dodgerblue > color #768 dodgerblue > color #769 #00b305ff > color #770 #00b305ff > color #771 #f15839ff > select #1.35/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #772 --- Chain | Description A | No description available > matchmaker #772 to #1.34 & sel No 'to' model specified > matchmaker #772 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.35) with AF3 E1 1-421.pdb, chain A (#772), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #773 --- Chain | Description A | No description available > matchmaker #773 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.35) with AF3 E1 422-461.pdb, chain A (#773), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.35/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #774 --- Chain | Description B | No description available > matchmaker #774 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.35) with AF3 E2 1-352.pdb, chain B (#774), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #775 --- Chain | Description B | No description available > matchmaker #775 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.35) with AF3 E2 353-438.pdb, chain B (#775), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.35/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #776 --- Chain | Description A | No description available > matchmaker #776 to #1.35 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.35) with AF3 CA.pdb, chain A (#776), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #772 dodgerblue > color #773 dodgerblue > color #774 #00b305ff > color #775 #00b305ff > color #776 #f15839ff > select #1.36/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #777 --- Chain | Description A | No description available > matchmaker #777 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.36) with AF3 E1 1-421.pdb, chain A (#777), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #778 --- Chain | Description A | No description available > matchmaker #778 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.36) with AF3 E1 422-461.pdb, chain A (#778), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.36/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #779 --- Chain | Description B | No description available > matchmaker #779 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.36) with AF3 E2 1-352.pdb, chain B (#779), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #780 --- Chain | Description B | No description available > matchmaker #780 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.36) with AF3 E2 353-438.pdb, chain B (#780), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.36/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #781 --- Chain | Description A | No description available > matchmaker #781 to #1.36 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.36) with AF3 CA.pdb, chain A (#781), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #777 dodgerblue > color #778 dodgerblue > color #779 #00b305ff > color #780 #00b305ff > color #781 #f15839ff > select #1.38/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #782 --- Chain | Description A | No description available > matchmaker #782 to #1.36 & sel No 'to' model specified > matchmaker #782 to #1.37 & sel No 'to' model specified > matchmaker #782 to #1.37 & sel No 'to' model specified > hide sel cartoons > select #1.38/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > matchmaker #782 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.38) with AF3 E1 1-421.pdb, chain A (#782), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #783 --- Chain | Description A | No description available > matchmaker #783 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.38) with AF3 E1 422-461.pdb, chain A (#783), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.38/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #784 --- Chain | Description B | No description available > matchmaker #784 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.38) with AF3 E2 1-352.pdb, chain B (#784), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #785 --- Chain | Description B | No description available > matchmaker #785 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.38) with AF3 E2 353-438.pdb, chain B (#785), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.38/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #786 --- Chain | Description A | No description available > matchmaker #786 to #1.38 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.38) with AF3 CA.pdb, chain A (#786), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #782 dodgerblue > color #783 dodgerblue > color #784 #00b305ff > color #785 #00b305ff > color #786 #f15839ff > select #1.39/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #787 --- Chain | Description A | No description available > matchmaker #787 to #1.38 & sel No 'to' model specified > matchmaker #787 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.39) with AF3 E1 1-421.pdb, chain A (#787), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #788 --- Chain | Description A | No description available > matchmaker #788 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.39) with AF3 E1 422-461.pdb, chain A (#788), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.39/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #789 --- Chain | Description B | No description available > matchmaker #789 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.39) with AF3 E2 1-352.pdb, chain B (#789), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #790 --- Chain | Description B | No description available > matchmaker #790 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.39) with AF3 E2 353-438.pdb, chain B (#790), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.39/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #791 --- Chain | Description A | No description available > matchmaker #791 to #1.39 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.39) with AF3 CA.pdb, chain A (#791), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #787 dodgerblue > color #788 dodgerblue > color #789 #00b305ff > color #790 #00b305ff > color #791 #f15839ff > select #1.40/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #792 --- Chain | Description A | No description available > matchmaker #792 to #1.39 & sel No 'to' model specified > matchmaker #792 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.40) with AF3 E1 1-421.pdb, chain A (#792), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #793 --- Chain | Description A | No description available > matchmaker #793 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.40) with AF3 E1 422-461.pdb, chain A (#793), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.40/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #794 --- Chain | Description B | No description available > matchmaker #794 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.40) with AF3 E2 1-352.pdb, chain B (#794), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #795 --- Chain | Description B | No description available > matchmaker #795 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.40) with AF3 E2 353-438.pdb, chain B (#795), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.40/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #796 --- Chain | Description A | No description available > matchmaker #796 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.40) with AF3 CA.pdb, chain A (#796), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > color #792 dodgerblue > color #793 dodgerblue > color #794 #00b305ff > color #795 #00b305ff > color #796 #f15839ff > show #751 models > show #750 models > show #749 models > show #748 models > show #747 models > hide #747 models > hide #748 models > hide #749 models > hide #750 models > hide #751 models > select #1.37/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #797 --- Chain | Description A | No description available > matchmaker #796 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.37) with AF3 CA.pdb, chain A (#796), sequence alignment score = 32.6 RMSD between 10 pruned atom pairs is 1.151 angstroms; (across all 110 pairs: 22.900) > matchmaker #796 to #1.40 & sel No 'to' model specified > select #1.40/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #796 to #1.40 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.40) with AF3 CA.pdb, chain A (#796), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > select #1.37/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > matchmaker #797 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.37) with AF3 E1 1-421.pdb, chain A (#797), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #798 --- Chain | Description A | No description available > matchmaker #798 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.37) with AF3 E1 422-461.pdb, chain A (#798), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.37/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #799 --- Chain | Description B | No description available > matchmaker #799 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.37) with AF3 E2 1-352.pdb, chain B (#799), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #800 --- Chain | Description B | No description available > matchmaker #800 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.37) with AF3 E2 353-438.pdb, chain B (#800), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.37/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #801 --- Chain | Description A | No description available > matchmaker #801 to #1.37 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.37) with AF3 CA.pdb, chain A (#801), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #797 dodgerblue > color #798 dodgerblue > color #799 #00b305ff > color #800 #00b305ff > color #801 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #752 models > hide #753 models > hide #754 models > hide #755 models > hide #756 models > hide #757 models > hide #758 models > hide #759 models > hide #760 models > hide #761 models > hide #762 models > hide #763 models > hide #764 models > hide #765 models > hide #766 models > hide #767 models > hide #768 models > hide #769 models > hide #770 models > hide #771 models > hide #772 models > hide #773 models > hide #774 models > hide #776 models > hide #775 models > hide #777 models > hide #778 models > hide #779 models > hide #780 models > hide #781 models > hide #782 models > hide #783 models > hide #784 models > hide #785 models > hide #786 models > hide #787 models > hide #788 models > hide #789 models > hide #790 models > hide #791 models > hide #792 models > hide #793 models > hide #794 models > hide #795 models > hide #796 models > hide #797 models > hide #798 models > hide #799 models > hide #800 models > hide #801 models > select #1.38/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.41/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #802 --- Chain | Description A | No description available > matchmaker #802 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.41) with AF3 E1 1-421.pdb, chain A (#802), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #803 --- Chain | Description A | No description available > matchmaker #803 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.41) with AF3 E1 422-461.pdb, chain A (#803), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.41/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #804 --- Chain | Description B | No description available > matchmaker #804 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.41) with AF3 E2 1-352.pdb, chain B (#804), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #805 --- Chain | Description B | No description available > matchmaker #805 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.41) with AF3 E2 353-438.pdb, chain B (#805), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.41/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #806 --- Chain | Description A | No description available > matchmaker #806 to #1.41 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.41) with AF3 CA.pdb, chain A (#806), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #802 dodgerblue > color #803 dodgerblue > color #804 #00b305ff > color #805 #00b305ff > color #806 #f15839ff > select #1.42/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #807 --- Chain | Description A | No description available > matchmaker #807 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.42) with AF3 E1 1-421.pdb, chain A (#807), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #808 --- Chain | Description A | No description available > matchmaker #808 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.42) with AF3 E1 422-461.pdb, chain A (#808), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.42/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #809 --- Chain | Description B | No description available > matchmaker #809 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.42) with AF3 E2 1-352.pdb, chain B (#809), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #810 --- Chain | Description B | No description available > matchmaker #810 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.42) with AF3 E2 353-438.pdb, chain B (#810), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.42/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #811 --- Chain | Description A | No description available > matchmaker #811 to #1.42 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.42) with AF3 CA.pdb, chain A (#811), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #807 dodgerblue > color #808 dodgerblue > color #809 #00b305ff > color #810 #00b305ff > color #811 #f15839ff > select #1.43/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #812 --- Chain | Description A | No description available > matchmaker #812 to #1.42 & sel No 'to' model specified > matchmaker #812 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.43) with AF3 E1 1-421.pdb, chain A (#812), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #813 --- Chain | Description A | No description available > matchmaker #813 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.43) with AF3 E1 422-461.pdb, chain A (#813), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.43/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #814 --- Chain | Description B | No description available > matchmaker #814 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.43) with AF3 E2 1-352.pdb, chain B (#814), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #815 --- Chain | Description B | No description available > matchmaker #815 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.43) with AF3 E2 353-438.pdb, chain B (#815), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.43/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #816 --- Chain | Description A | No description available > matchmaker #816 to #1.43 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.43) with AF3 CA.pdb, chain A (#816), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #812 dodgerblue > color #813 dodgerblue > color #814 #00b305ff > color #815 #00b305ff > color #816 #f15839ff > select #1.43/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > hide sel cartoons > select #1.44/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #817 --- Chain | Description A | No description available > matchmaker #817 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.44) with AF3 E1 1-421.pdb, chain A (#817), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #818 --- Chain | Description A | No description available > matchmaker #818 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.44) with AF3 E1 422-461.pdb, chain A (#818), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.44/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #819 --- Chain | Description B | No description available > matchmaker #819 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.44) with AF3 E2 1-352.pdb, chain B (#819), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #820 --- Chain | Description B | No description available > matchmaker #820 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.44) with AF3 E2 353-438.pdb, chain B (#820), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > show sel cartoons > hide sel cartoons > select #1.44/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #821 --- Chain | Description A | No description available > matchmaker #821 to #1.44 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.44) with AF3 CA.pdb, chain A (#821), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #817 dodgerblue > color #818 dodgerblue > color #819 #00b305ff > color #820 #00b305ff > color #821 #f15839ff > select #1.45/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #822 --- Chain | Description A | No description available > matchmaker #822 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.45) with AF3 E1 1-421.pdb, chain A (#822), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #823 --- Chain | Description A | No description available > matchmaker #823 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.45) with AF3 E1 422-461.pdb, chain A (#823), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.45/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #824 --- Chain | Description B | No description available > matchmaker #824 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.45) with AF3 E2 1-352.pdb, chain B (#824), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #825 --- Chain | Description B | No description available > matchmaker #825 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.45) with AF3 E2 353-438.pdb, chain B (#825), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.45/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #826 --- Chain | Description A | No description available > matchmaker #826 to #1.45 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.45) with AF3 CA.pdb, chain A (#826), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #822 dodgerblue > color #823 dodgerblue > color #824 #00b305ff > color #825 #00b305ff > color #826 #f15839ff > select #1.46/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #827 --- Chain | Description A | No description available > matchmaker #827 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.46) with AF3 E1 1-421.pdb, chain A (#827), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #828 --- Chain | Description A | No description available > matchmaker #828 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.46) with AF3 E1 422-461.pdb, chain A (#828), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.46/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #829 --- Chain | Description B | No description available > matchmaker #829 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.46) with AF3 E2 1-352.pdb, chain B (#829), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #830 --- Chain | Description B | No description available > matchmaker #830 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.46) with AF3 E2 353-438.pdb, chain B (#830), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.937 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.46/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #831 --- Chain | Description A | No description available > matchmaker #831 to #1.46 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.46) with AF3 CA.pdb, chain A (#831), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #827 dodgerblue > color #828 dodgerblue > color #829 #00b305ff > color #830 #00b305ff > color #831 #f15839ff > select #1.47/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #832 --- Chain | Description A | No description available > matchmaker #832 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.47) with AF3 E1 1-421.pdb, chain A (#832), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #833 --- Chain | Description A | No description available > matchmaker #833 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.47) with AF3 E1 422-461.pdb, chain A (#833), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.47/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #834 --- Chain | Description B | No description available > matchmaker #834 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.47) with AF3 E2 1-352.pdb, chain B (#834), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #835 --- Chain | Description B | No description available > matchmaker #835 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.47) with AF3 E2 353-438.pdb, chain B (#835), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.47/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #836 --- Chain | Description A | No description available > matchmaker #836 to #1.47 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.47) with AF3 CA.pdb, chain A (#836), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #832 dodgerblue > color #833 dodgerblue > color #834 #00b305ff > color #835 #00b305ff > color #836 #f15839ff > select #1.48/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #837 --- Chain | Description A | No description available > matchmaker #837 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.48) with AF3 E1 1-421.pdb, chain A (#837), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #838 --- Chain | Description A | No description available > matchmaker #838 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.48) with AF3 E1 422-461.pdb, chain A (#838), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.48/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #839 --- Chain | Description B | No description available > matchmaker #839 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.48) with AF3 E2 1-352.pdb, chain B (#839), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #840 --- Chain | Description B | No description available > matchmaker #840 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.48) with AF3 E2 353-438.pdb, chain B (#840), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.48/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #841 --- Chain | Description A | No description available > matchmaker #841 to #1.48 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.48) with AF3 CA.pdb, chain A (#841), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #837 dodgerblue > color #838 dodgerblue > color #839 #00b305ff > color #840 #00b305ff > color #841 #f15839ff > select #1.49/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #842 --- Chain | Description A | No description available > matchmaker #842 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.49) with AF3 E1 1-421.pdb, chain A (#842), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #843 --- Chain | Description A | No description available > matchmaker #843 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.49) with AF3 E1 422-461.pdb, chain A (#843), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.49/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #844 --- Chain | Description B | No description available > matchmaker #844 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.49) with AF3 E2 1-352.pdb, chain B (#844), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #845 --- Chain | Description B | No description available > matchmaker #845 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.49) with AF3 E2 353-438.pdb, chain B (#845), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.39/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > select #1.49/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #846 --- Chain | Description A | No description available > matchmaker #846 to #1.49 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.49) with AF3 CA.pdb, chain A (#846), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #842 dodgerblue > color #843 dodgerblue > color #844 #00b305ff > color #845 #00b305ff > color #846 #f15839ff > select #1.50/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #847 --- Chain | Description A | No description available > matchmaker #847 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.50) with AF3 E1 1-421.pdb, chain A (#847), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #848 --- Chain | Description A | No description available > matchmaker #848 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.50) with AF3 E1 422-461.pdb, chain A (#848), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons [Repeated 1 time(s)] > select #1.50/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #849 --- Chain | Description B | No description available > matchmaker #849 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.50) with AF3 E2 1-352.pdb, chain B (#849), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #850 --- Chain | Description B | No description available > matchmaker #850 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.50) with AF3 E2 353-438.pdb, chain B (#850), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #851 --- Chain | Description A | No description available > hide sel cartoons > select #1.50/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #851 to #1.50 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.50) with AF3 CA.pdb, chain A (#851), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.149 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #847 dodgerblue > color #848 dodgerblue > color #849 #00b305ff > color #850 #00b305ff > color #851 #f15839ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true > hide #802 models > hide #803 models > hide #804 models > hide #805 models > hide #806 models > hide #807 models > hide #808 models > hide #809 models > hide #810 models > hide #811 models > hide #812 models > hide #813 models > hide #814 models > hide #815 models > hide #816 models > hide #817 models > hide #818 models > hide #819 models > hide #820 models > hide #821 models > hide #822 models > hide #823 models > hide #824 models > hide #825 models > hide #826 models > hide #827 models > hide #828 models > hide #829 models > hide #830 models > hide #831 models > hide #832 models > hide #833 models > hide #834 models > hide #835 models > hide #836 models > hide #837 models > hide #838 models > hide #839 models > hide #840 models > hide #841 models > hide #842 models > hide #844 models > hide #843 models > hide #845 models > hide #846 models > hide #847 models > hide #848 models > hide #849 models > hide #850 models > hide #851 models > select #1.51/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons [Repeated 1 time(s)] > view > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #852 --- Chain | Description A | No description available > matchmaker #852 to #1.50 & sel No 'to' model specified > matchmaker #852 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.51) with AF3 E1 1-421.pdb, chain A (#852), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #853 --- Chain | Description A | No description available > matchmaker #853 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.51) with AF3 E1 422-461.pdb, chain A (#853), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.51/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #854 --- Chain | Description B | No description available > matchmaker #854 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.51) with AF3 E2 1-352.pdb, chain B (#854), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #855 --- Chain | Description B | No description available > matchmaker #855 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.51) with AF3 E2 353-438.pdb, chain B (#855), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.51/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #856 --- Chain | Description A | No description available > matchmaker #856 to #1.51 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.51) with AF3 CA.pdb, chain A (#856), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #852 dodgerblue > color #853 dodgerblue > color #854 #00b305ff > color #855 #00b305ff > color #856 #f15839ff > select #1.52/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #857 --- Chain | Description A | No description available > matchmaker #857 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.52) with AF3 E1 1-421.pdb, chain A (#857), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #858 --- Chain | Description A | No description available > matchmaker #858 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.52) with AF3 E1 422-461.pdb, chain A (#858), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.52/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #859 --- Chain | Description B | No description available > matchmaker #859 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.52) with AF3 E2 1-352.pdb, chain B (#859), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #860 --- Chain | Description B | No description available > matchmaker #860 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.52) with AF3 E2 353-438.pdb, chain B (#860), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.52/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #861 --- Chain | Description A | No description available > matchmaker #861 to #1.52 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.52) with AF3 CA.pdb, chain A (#861), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #857 dodgerblue > color #858 dodgerblue > color #859 #00b305ff > color #860 #00b305ff > color #861 #f15839ff > select #1.53/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #862 --- Chain | Description A | No description available > matchmaker #862 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.53) with AF3 E1 1-421.pdb, chain A (#862), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #863 --- Chain | Description A | No description available > matchmaker #863 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.53) with AF3 E1 422-461.pdb, chain A (#863), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.53/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #864 --- Chain | Description B | No description available > matchmaker #864 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.53) with AF3 E2 1-352.pdb, chain B (#864), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #865 --- Chain | Description B | No description available > matchmaker #865 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.53) with AF3 E2 353-438.pdb, chain B (#865), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.53/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #866 --- Chain | Description A | No description available > matchmaker #866 to #1.53 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.53) with AF3 CA.pdb, chain A (#866), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #862 dodgerblue > color #863 dodgerblue > color #864 #00b305ff > color #865 #00b305ff > color #866 #f15839ff > select #1.54/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #867 --- Chain | Description A | No description available > matchmaker #867 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.54) with AF3 E1 1-421.pdb, chain A (#867), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #868 --- Chain | Description A | No description available > matchmaker #868 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.54) with AF3 E1 422-461.pdb, chain A (#868), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.54/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #869 --- Chain | Description B | No description available > matchmaker #869 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.54) with AF3 E2 1-352.pdb, chain B (#869), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #870 --- Chain | Description B | No description available > matchmaker #870 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.54) with AF3 E2 353-438.pdb, chain B (#870), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.54/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #871 --- Chain | Description A | No description available > matchmaker #871 to #1.54 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.54) with AF3 CA.pdb, chain A (#871), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #867 dodgerblue > color #868 dodgerblue > color #869 #00b305ff > color #870 #00b305ff > color #871 #f15839ff > select #1.55/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #872 --- Chain | Description A | No description available > matchmaker #872 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.55) with AF3 E1 1-421.pdb, chain A (#872), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #873 --- Chain | Description A | No description available > matchmaker #873 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.55) with AF3 E1 422-461.pdb, chain A (#873), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons [Repeated 1 time(s)] > select #1.55/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #874 --- Chain | Description B | No description available > matchmaker #874 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.55) with AF3 E2 1-352.pdb, chain B (#874), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #875 --- Chain | Description B | No description available > matchmaker #875 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.55) with AF3 E2 353-438.pdb, chain B (#875), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.55/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #876 --- Chain | Description A | No description available > matchmaker #876 to #1.55 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.55) with AF3 CA.pdb, chain A (#876), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #872 dodgerblue > color #873 dodgerblue > color #874 #00b305ff > color #875 #00b305ff > color #876 #f15839ff > select #1.56/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #877 --- Chain | Description A | No description available > matchmaker #877 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.56) with AF3 E1 1-421.pdb, chain A (#877), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #878 --- Chain | Description A | No description available > matchmaker #878 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.56) with AF3 E1 422-461.pdb, chain A (#878), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons [Repeated 1 time(s)] > select #1.56/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #879 --- Chain | Description B | No description available > matchmaker #879 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.56) with AF3 E2 1-352.pdb, chain B (#879), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #880 --- Chain | Description B | No description available > matchmaker #880 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.56) with AF3 E2 353-438.pdb, chain B (#880), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.56/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #881 --- Chain | Description A | No description available > matchmaker #881 to #1.56 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.56) with AF3 CA.pdb, chain A (#881), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #877 dodgerblue > color #878 dodgerblue > color #879 #00b305ff > color #880 #00b305ff > color #881 #f15839ff > select #1.57/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #882 --- Chain | Description A | No description available > matchmaker #882 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.57) with AF3 E1 1-421.pdb, chain A (#882), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #883 --- Chain | Description A | No description available > matchmaker #883 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.57) with AF3 E1 422-461.pdb, chain A (#883), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.57/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #884 --- Chain | Description B | No description available > matchmaker #884 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.57) with AF3 E2 1-352.pdb, chain B (#884), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #885 --- Chain | Description B | No description available > matchmaker #885 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.57) with AF3 E2 353-438.pdb, chain B (#885), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.57/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #886 --- Chain | Description A | No description available > matchmaker #886 to #1.57 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.57) with AF3 CA.pdb, chain A (#886), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #882 dodgerblue > color #883 dodgerblue > color #884 #00b305ff > color #885 #00b305ff > color #886 #f15839ff > select #1.58/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #887 --- Chain | Description A | No description available > matchmaker #887 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.58) with AF3 E1 1-421.pdb, chain A (#887), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #888 --- Chain | Description A | No description available > matchmaker #888 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.58) with AF3 E1 422-461.pdb, chain A (#888), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.58/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #889 --- Chain | Description B | No description available > matchmaker #889 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.58) with AF3 E2 1-352.pdb, chain B (#889), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #890 --- Chain | Description B | No description available > matchmaker #890 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.58) with AF3 E2 353-438.pdb, chain B (#890), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > select #1.58/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #891 --- Chain | Description A | No description available > matchmaker #891 to #1.58 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.58) with AF3 CA.pdb, chain A (#891), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #887 dodgerblue > color #888 dodgerblue > color #889 #00b305ff > color #890 #00b305ff > color #891 #f15839ff > select #1.59/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #892 --- Chain | Description A | No description available > matchmaker #892 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.59) with AF3 E1 1-421.pdb, chain A (#892), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #893 --- Chain | Description A | No description available > matchmaker #893 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.59) with AF3 E1 422-461.pdb, chain A (#893), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.996) > hide sel cartoons > select #1.59/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #894 --- Chain | Description B | No description available > matchmaker #894 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.59) with AF3 E2 1-352.pdb, chain B (#894), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #895 --- Chain | Description B | No description available > matchmaker #895 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.59) with AF3 E2 353-438.pdb, chain B (#895), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.151) > hide sel cartoons > select #1.59/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #896 --- Chain | Description A | No description available > matchmaker #896 to #1.59 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.59) with AF3 CA.pdb, chain A (#896), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #892 dodgerblue > color #893 dodgerblue > color #894 #00b305ff > color #895 #00b305ff > color #896 #f15839ff > select #1.60/G 3370 atoms, 3461 bonds, 442 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E1 1-421.pdb"" Chain information for AF3 E1 1-421.pdb #897 --- Chain | Description A | No description available > matchmaker #897 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.60) with AF3 E1 1-421.pdb, chain A (#897), sequence alignment score = 1060.7 RMSD between 273 pruned atom pairs is 1.168 angstroms; (across all 403 pairs: 2.985) > open ""/Users/Jean/Desktop/AF3 E1 422-461.pdb"" Chain information for AF3 E1 422-461.pdb #898 --- Chain | Description A | No description available > matchmaker #898 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain G (#1.60) with AF3 E1 422-461.pdb, chain A (#898), sequence alignment score = 626.9 RMSD between 27 pruned atom pairs is 0.513 angstroms; (across all 38 pairs: 2.997) > hide sel cartoons > select #1.60/H 3304 atoms, 3395 bonds, 423 residues, 1 model selected > show sel cartoons > open ""/Users/Jean/Desktop/AF3 E2 1-352.pdb"" Chain information for AF3 E2 1-352.pdb #899 --- Chain | Description B | No description available > matchmaker #899 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.60) with AF3 E2 1-352.pdb, chain B (#899), sequence alignment score = 590.9 RMSD between 103 pruned atom pairs is 1.024 angstroms; (across all 333 pairs: 6.107) > open ""/Users/Jean/Desktop/AF3 E2 353-438.pdb"" Chain information for AF3 E2 353-438.pdb #900 --- Chain | Description B | No description available > matchmaker #900 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain H (#1.60) with AF3 E2 353-438.pdb, chain B (#900), sequence alignment score = 329.4 RMSD between 40 pruned atom pairs is 0.938 angstroms; (across all 84 pairs: 8.150) > hide sel cartoons > open ""/Users/Jean/Desktop/AF3 CA.pdb"" Chain information for AF3 CA.pdb #901 --- Chain | Description A | No description available > select #1.60/I 1277 atoms, 1305 bonds, 162 residues, 1 model selected > show sel cartoons > matchmaker #901 to #1.60 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 3j0c.pdb1, chain I (#1.60) with AF3 CA.pdb, chain A (#901), sequence alignment score = 306.5 RMSD between 119 pruned atom pairs is 1.150 angstroms; (across all 161 pairs: 2.689) > hide sel cartoons > color #897 dodgerblue > color #898 dodgerblue > color #899 #00b305ff > color #901 #f15839ff > color #900 #00b305ff > save ""/Users/Jean/Desktop/SAV2 virion 2 VEEV 3j0c.cxs"" includeMaps true ——— End of log from Wed Jul 17 16:12:00 2024 ——— opened ChimeraX session OpenGL version: 4.1 ATI-5.5.17 OpenGL renderer: AMD Radeon Pro 560X OpenGL Engine OpenGL vendor: ATI Technologies Inc. Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro15,1 Processor Name: 6-Core Intel Core i9 Processor Speed: 2.9 GHz Number of Processors: 1 Total Number of Cores: 6 L2 Cache (per Core): 256 KB L3 Cache: 12 MB Hyper-Threading Technology: Enabled Memory: 32 GB System Firmware Version: 2022.100.22.0.0 (iBridge: 21.16.5077.0.0,0) OS Loader Version: 580~2215 Software: System Software Overview: System Version: macOS 14.5 (23F79) Kernel Version: Darwin 23.5.0 Time since boot: 1 hour, 32 minutes Graphics/Displays: Intel UHD Graphics 630: Chipset Model: Intel UHD Graphics 630 Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x3e9b Revision ID: 0x0000 Automatic Graphics Switching: Supported gMux Version: 5.0.0 Metal Support: Metal 3 Radeon Pro 560X: Chipset Model: Radeon Pro 560X Type: GPU Bus: PCIe PCIe Lane Width: x8 VRAM (Total): 4 GB Vendor: AMD (0x1002) Device ID: 0x67ef Revision ID: 0x00c2 ROM Revision: 113-C980AL-075 VBIOS Version: 113-C97501U-005 EFI Driver Version: 01.A1.075 Automatic Graphics Switching: Supported gMux Version: 5.0.0 Metal Support: Metal 2 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2880 x 1800 Retina Framebuffer Depth: 30-Bit Color (ARGB2101010) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No Connection Type: Internal DELL P2418D: Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition) UI Looks like: 2560 x 1440 @ 60.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: MY3ND77M013T Mirror: Off Online: Yes Rotation: Supported Connection Type: DVI or HDMI Adapter Firmware Version: c.55 Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.15.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.17 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.7 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.57.1 ChimeraX-AtomicLibrary: 14.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.6 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.7 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.4 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.6 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.8 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.4 ChimeraX-DiffPlot: 1.0 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.3 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ESMFold: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.3 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.10 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0.1 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.2 ChimeraX-MatchMaker: 2.1.3 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.1 ChimeraX-MedicalToolbar: 1.0.3 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.17 ChimeraX-ModelPanel: 1.5 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0.3 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.5 ChimeraX-PDB: 2.7.5 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.4 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.4.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 4.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.2 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.0.15 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.16.5 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.2.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.5 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.39.1 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.3 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-vrml: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.4 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.2.1 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.4 fonttools: 4.53.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 grako: 3.16.5 h5py: 3.11.0 html2text: 2024.2.26 idna: 3.7 ihm: 1.0 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.3 jedi: 0.19.1 jinja2: 3.1.4 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.11 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.2.1 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.4 matplotlib-inline: 0.1.7 msgpack: 1.0.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.0 numpy: 1.26.4 openvr: 1.26.701 packaging: 23.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pillow: 10.3.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.2 prompt-toolkit: 3.0.47 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.1.2 pyproject-hooks: 1.1.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.3 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.3 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 26.0.3 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.13.0 setuptools: 69.5.1 setuptools-scm: 8.0.4 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 7.2.6 sphinx-autodoc-typehints: 2.0.1 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4.1 traitlets: 5.14.2 typing-extensions: 4.12.2 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.11 }}} " defect new normal Unassigned