id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18437 ChimeraX bug report submission herrera.alfa@… "{{{ The following bug report has been submitted: Platform: macOS-14.7.5-arm64-arm-64bit ChimeraX Version: 1.8.dev202403210048 (2024-03-21 00:48:29 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Bus error Thread 0x000000031e9db000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 579 in _handle_results File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031d9cf000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 531 in _handle_tasks File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031c9c3000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py"", line 415 in select File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py"", line 930 in wait File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 502 in _wait_for_updates File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 522 in _handle_workers File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031b9b7000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031a9ab000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031999f000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x0000000318993000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x0000000317987000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031697b000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x000000031596f000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Thread 0x0000000314963000 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py"", line 114 in worker File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 975 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 1038 in _bootstrap_inner File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py"", line 995 in _bootstrap Current thread 0x00000001fcc9cf80 (most recent call first): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molobject.py"", line 44 in python_instances_of_class File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/structure.py"", line 176 in _copy_custom_attrs File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/structure.py"", line 149 in combine File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/build_structure/mod.py"", line 522 in bind File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/build_structure/mod.py"", line 376 in cn_peptide_bond File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/build_structure/cmd.py"", line 205 in cmd_join_peptide File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py"", line 2904 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/run.py"", line 49 in run File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/build_structure/tool.py"", line 774 in _jm_apply_cb File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/build_structure/tool.py"", line 1193 in File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 280 in event_loop File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 918 in init File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1069 in File """", line 88 in _run_code File """", line 198 in _run_module_as_main Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.surface._surface, chimerax.pdb_lib._load_libs, chimerax.map._map, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, 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6789173248, ""size"" : 562996, ""uuid"" : ""7287d9c7-4f9f-3bb7-afd8-5238e8b90031"", ""path"" : ""\/usr\/lib\/dyld"", ""name"" : ""dyld"" }, { ""size"" : 0, ""source"" : ""A"", ""base"" : 0, ""uuid"" : ""00000000-0000-0000-0000-000000000000"" }, { ""source"" : ""P"", ""arch"" : ""arm64e"", ""base"" : 6791954432, ""size"" : 577528, ""uuid"" : ""c4e10d69-6f13-32b1-831d-82da32d7db88"", ""path"" : ""\/usr\/lib\/libc++.1.dylib"", ""name"" : ""libc++.1.dylib"" } ], ""sharedCache"" : { ""base"" : 6788415488, ""size"" : 4214636544, ""uuid"" : ""6761f272-344d-3ea8-9a7d-5695a1146f27"" }, ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.5G resident=0K(0%) swapped_out_or_unallocated=1.5G(100%)\nWritable regions: Total=21.8G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=21.8G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 896K 7 \nActivity Tracing 256K 1 \nCG image 2848K 86 \nColorSync 720K 35 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""2ae026c9601eecde5864e4c78e47b84a5129f0df"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""5ffde50ce2aacd000d47a95f"", ""factorPackIds"" : { }, ""deploymentId"" : 240000489 }, { ""rolloutId"" : ""648a2601f74c42732876cb5b"", ""factorPackIds"" : { ""SIRI_TEXT_TO_SPEECH"" : ""6733fcb357a33f0bf26912cf"" }, ""deploymentId"" : 240000272 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== You can double click a model's Name or ID in the model panel to edit those fields UCSF ChimeraX version: 1.8.dev202403210048 (2024-03-21) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/MCF:Homolog.paper/workingon.closed0716.cxs"" format session opened ChimeraX session > close session > open ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/MCF:Homolog.paper/aDmX.sequence"" format fasta No such database '/users/aho2840/desktop/satchell lab/mcfhomologs/mcf' > open ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/MCF:Homolog.paper/aDmX.sequence"" format fasta No such database '/users/aho2840/desktop/satchell lab/mcfhomologs/mcf' > open ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/workingon.07.02.25.cxs"" format session opened ChimeraX session > hide #!1 models > hide #!3 models > show #9 models > log metadata #9 The model has no metadata > log chains #9 Chain information for cDmX.best_model.pdb #9 --- Chain | Description A | No description available > sequence chain #9/A Alignment identifier is 9/A > save /Users/aho2840/Desktop/dmxinchimera format fasta alignment 9/A > close session > open ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/workingon.07.02.25.cxs"" format session opened ChimeraX session > close session > open ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/MCF:Homolog.paper/workingon.closed0716.cxs"" format session opened ChimeraX session > hide #!9 models > hide #90 models > show #109 models > log metadata #109 The model has no metadata > log chains #109 Chain information for C7BKP9.ranked_0.pdb #109 --- Chain | Description A | No description available > sequence chain #109/A Alignment identifier is 109/A > select > #109/A:1731-1734,1737-1740,1848-1851,1946-1952,1955-1963,1969-1975,1979-1983,2008-2012,2055-2057,2071-2075,2078-2085,2090-2093,2106-2110,2116-2118,2159-2161,2165-2169,2195-2200,2223-2227,2272-2274,2289-2290,2294-2296,2315-2317,2529-2536,2545-2554,2557-2562,2580-2583,2599-2605,2631-2634,2762-2770,2782-2790,2798-2803,2808-2814,2852-2855,2879-2882,2918-2925,2929-2935 3318 atoms, 3331 bonds, 196 residues, 1 model selected > select > #109/A:93-114,123-132,143-161,166-196,200-227,237-256,258-260,264-318,324-327,330-349,358-360,362-368,376-405,428-437,444-447,451-463,472-517,527-566,568-582,590-657,667-688,700-712,714-716,726-740,750-756,760-782,794-818,828-849,852-864,876-882,887-931,1006-1009,1018-1036,1047-1063,1069-1085,1089-1107,1119-1137,1139-1152,1163-1173,1219-1225,1229-1235,1334-1337,1341-1343,1379-1385,1391-1404,1521-1526,1568-1579,1585-1592,1596-1602,1612-1626,1634-1648,1652-1665,1669-1681,1693-1705,1718-1720,1722-1724,1746-1758,1767-1781,1786-1791,1796-1804,1810-1819,1821-1842,1854-1857,1865-1877,1881-1893,1903-1913,1915-1918,1933-1935,1937-1940,1986-1999,2027-2031,2130-2154,2178-2190,2207-2218,2228-2230,2234-2239,2241-2251,2255-2270,2291-2293,2303-2305,2322-2337,2342-2344,2348-2358,2360-2362,2364-2382,2392-2394,2399-2409,2412-2415,2485-2494,2496-2503,2510-2522,2565-2571,2584-2594,2608-2616,2625-2627,2637-2646,2727-2742,2744-2748,2755-2761,2824-2826,2832-2843,2847-2849,2861-2870,2888-2895,2898-2909 22522 atoms, 22610 bonds, 1369 residues, 1 model selected > show #!9 models > show #1 models > show #26 models > hide #26 models > show #38 models > hide #38 models > hide #!9 models > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > matchmaker #109 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with C7BKP9.ranked_0.pdb, chain A (#109), sequence alignment score = 175.4 RMSD between 67 pruned atom pairs is 1.137 angstroms; (across all 172 pairs: 7.039) > show #!87 models > matchmaker #87 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with 6ii6, chain A (#87), sequence alignment score = 1498.3 RMSD between 212 pruned atom pairs is 0.553 angstroms; (across all 223 pairs: 1.561) > hide #1 models > hide #109 models > hide #!87 models > show #!9 models > show #109 models > matchmaker #9 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with 6ii6, chain A (#9), sequence alignment score = 1498.3 RMSD between 212 pruned atom pairs is 0.553 angstroms; (across all 223 pairs: 1.561) > hide #109 models > show #109 models > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-1750 78 atoms, 78 bonds, 5 residues, 1 model selected > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-1758 208 atoms, 208 bonds, 13 residues, 1 model selected > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-1800 863 atoms, 871 bonds, 55 residues, 1 model selected > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-1825 1244 atoms, 1254 bonds, 80 residues, 1 model selected > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-1895 2333 atoms, 2353 bonds, 150 residues, 1 model selected > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > select #109/A:2031 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:1746-2031 4485 atoms, 4530 bonds, 286 residues, 1 model selected > color sel purple > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > select #109/A:2382 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2078-2382 4892 atoms, 4947 bonds, 305 residues, 1 model selected > select #109/A:2382 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2378-2382 92 atoms, 91 bonds, 5 residues, 1 model selected > select #109/A:2382 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2078-2382 4892 atoms, 4947 bonds, 305 residues, 1 model selected > color sel medium blue > select > #109/A:93-114,123-132,143-161,166-196,200-227,237-256,258-260,264-318,324-327,330-349,358-360,362-368,376-405,428-437,444-447,451-463,472-517,527-566,568-582,590-657,667-688,700-712,714-716,726-740,750-756,760-782,794-818,828-849,852-864,876-882,887-931,1006-1009,1018-1036,1047-1063,1069-1085,1089-1107,1119-1137,1139-1152,1163-1173,1219-1225,1229-1235,1334-1337,1341-1343,1379-1385,1391-1404,1521-1526,1568-1579,1585-1592,1596-1602,1612-1626,1634-1648,1652-1665,1669-1681,1693-1705,1718-1720,1722-1724,1746-1758,1767-1781,1786-1791,1796-1804,1810-1819,1821-1842,1854-1857,1865-1877,1881-1893,1903-1913,1915-1918,1933-1935,1937-1940,1986-1999,2027-2031,2130-2154,2178-2190,2207-2218,2228-2230,2234-2239,2241-2251,2255-2270,2291-2293,2303-2305,2322-2337,2342-2344,2348-2358,2360-2362,2364-2382,2392-2394,2399-2409,2412-2415,2485-2494,2496-2503,2510-2522,2565-2571,2584-2594,2608-2616,2625-2627,2637-2646,2727-2742,2744-2748,2755-2761,2824-2826,2832-2843,2847-2849,2861-2870,2888-2895,2898-2909 22522 atoms, 22610 bonds, 1369 residues, 1 model selected > select #109/A:2405-2406 33 atoms, 32 bonds, 2 residues, 1 model selected > select #109/A:2405-2409 92 atoms, 93 bonds, 5 residues, 1 model selected > select #109/A:2441 11 atoms, 10 bonds, 1 residue, 1 model selected > select #109/A:2405-2441 545 atoms, 551 bonds, 37 residues, 1 model selected > select #109/A:2383 7 atoms, 6 bonds, 1 residue, 1 model selected > select #109/A:2383-2441 890 atoms, 899 bonds, 59 residues, 1 model selected > select #109/A:2382 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2377-2382 102 atoms, 101 bonds, 6 residues, 1 model selected > select #109/A:2469 14 atoms, 14 bonds, 1 residue, 1 model selected > select #109/A:2469-2474 103 atoms, 103 bonds, 6 residues, 1 model selected > select #109/A:2649 17 atoms, 17 bonds, 1 residue, 1 model selected > select #109/A:2469-2649 2900 atoms, 2935 bonds, 181 residues, 1 model selected > select #109/A:2521 24 atoms, 23 bonds, 1 residue, 1 model selected > select #109/A:2521-2572 840 atoms, 851 bonds, 52 residues, 1 model selected > select #109/A:2485-2486 24 atoms, 23 bonds, 2 residues, 1 model selected > select #109/A:2485-2646 2596 atoms, 2628 bonds, 162 residues, 1 model selected > color sel forest green > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > select > #109/A:93-114,123-132,143-161,166-196,200-227,237-256,258-260,264-318,324-327,330-349,358-360,362-368,376-405,428-437,444-447,451-463,472-517,527-566,568-582,590-657,667-688,700-712,714-716,726-740,750-756,760-782,794-818,828-849,852-864,876-882,887-931,1006-1009,1018-1036,1047-1063,1069-1085,1089-1107,1119-1137,1139-1152,1163-1173,1219-1225,1229-1235,1334-1337,1341-1343,1379-1385,1391-1404,1521-1526,1568-1579,1585-1592,1596-1602,1612-1626,1634-1648,1652-1665,1669-1681,1693-1705,1718-1720,1722-1724,1746-1758,1767-1781,1786-1791,1796-1804,1810-1819,1821-1842,1854-1857,1865-1877,1881-1893,1903-1913,1915-1918,1933-1935,1937-1940,1986-1999,2027-2031,2130-2154,2178-2190,2207-2218,2228-2230,2234-2239,2241-2251,2255-2270,2291-2293,2303-2305,2322-2337,2342-2344,2348-2358,2360-2362,2364-2382,2392-2394,2399-2409,2412-2415,2485-2494,2496-2503,2510-2522,2565-2571,2584-2594,2608-2616,2625-2627,2637-2646,2727-2742,2744-2748,2755-2761,2824-2826,2832-2843,2847-2849,2861-2870,2888-2895,2898-2909 22522 atoms, 22610 bonds, 1369 residues, 1 model selected > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-2031 4485 atoms, 4530 bonds, 286 residues, 1 model selected > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > hide #109 models > show #90 models > show #84 models > hide #90 models > log metadata #84 The model has no metadata > log chains #84 Chain information for AF-C4ULG3-F1-model_v4.pdb #84 --- Chain | Description | UniProt A | toxin AFP18 | AFP18_YERRA 1-2123 > sequence chain #84/A Alignment identifier is 84/A > select #84/A:1430 9 atoms, 8 bonds, 1 residue, 1 model selected > select #84/A:1430-1437 68 atoms, 67 bonds, 8 residues, 1 model selected > select #84/A:1430 9 atoms, 8 bonds, 1 residue, 1 model selected > select #84/A:1430-1713 2242 atoms, 2281 bonds, 284 residues, 1 model selected > select #84/A:256 11 atoms, 10 bonds, 1 residue, 1 model selected > select #84/A:256-778 4091 atoms, 4142 bonds, 523 residues, 1 model selected > hide #!9 models > select #84/A:664-665 16 atoms, 15 bonds, 2 residues, 1 model selected > select #84/A:664-715 389 atoms, 393 bonds, 52 residues, 1 model selected > select #84/A:727-778 389 atoms, 394 bonds, 52 residues, 1 model selected > select #84/A:256-778 4091 atoms, 4142 bonds, 523 residues, 1 model selected > color sel medium blue > select add #84 16760 atoms, 17065 bonds, 2123 residues, 1 model selected > select subtract #84 Nothing selected > select #84/A:1151 7 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1151 7 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1404 4 atoms, 3 bonds, 1 residue, 1 model selected > select #84/A:1151-1404 1937 atoms, 1969 bonds, 254 residues, 1 model selected > select > #84/A:55-76,78-86,98-106,112-154,162-193,202-217,230-232,256-288,294-323,346-386,397-433,435-452,458-488,491-493,495-511,516-587,596-618,623-641,643-645,652-670,679-684,689-709,723-748,757-778,781-798,800-811,818-839,927-929,938-940,943-962,969-979,1027-1029,1032-1037,1040-1043,1063-1071,1077-1080,1091-1109,1116-1127,1151-1159,1161-1177,1181-1201,1206-1208,1210-1230,1236-1246,1280-1292,1296-1305,1310-1323,1330-1333,1336-1344,1391-1404,1409-1411,1430-1442,1451-1465,1470-1475,1480-1488,1494-1503,1505-1526,1538-1541,1549-1561,1565-1577,1581-1583,1585-1594,1598-1602,1614-1617,1619-1621,1667-1680,1708-1713,1718-1720,1807-1836,1859-1871,1889-1898,1909-1911,1915-1920,1924-1932,1936-1951,1972-1974,2003-2017,2023-2025,2029-2039,2041-2043,2045-2062,2080-2093 9231 atoms, 9299 bonds, 1157 residues, 1 model selected > select #84/A:256 11 atoms, 10 bonds, 1 residue, 1 model selected > select #84/A:256-778 4091 atoms, 4142 bonds, 523 residues, 1 model selected > color sel #040e52ff > select add #84 16760 atoms, 17065 bonds, 2123 residues, 1 model selected > select subtract #84 Nothing selected > select > #84/A:55-76,78-86,98-106,112-154,162-193,202-217,230-232,256-288,294-323,346-386,397-433,435-452,458-488,491-493,495-511,516-587,596-618,623-641,643-645,652-670,679-684,689-709,723-748,757-778,781-798,800-811,818-839,927-929,938-940,943-962,969-979,1027-1029,1032-1037,1040-1043,1063-1071,1077-1080,1091-1109,1116-1127,1151-1159,1161-1177,1181-1201,1206-1208,1210-1230,1236-1246,1280-1292,1296-1305,1310-1323,1330-1333,1336-1344,1391-1404,1409-1411,1430-1442,1451-1465,1470-1475,1480-1488,1494-1503,1505-1526,1538-1541,1549-1561,1565-1577,1581-1583,1585-1594,1598-1602,1614-1617,1619-1621,1667-1680,1708-1713,1718-1720,1807-1836,1859-1871,1889-1898,1909-1911,1915-1920,1924-1932,1936-1951,1972-1974,2003-2017,2023-2025,2029-2039,2041-2043,2045-2062,2080-2093 9231 atoms, 9299 bonds, 1157 residues, 1 model selected > select #84/A:1428-1430 29 atoms, 29 bonds, 3 residues, 1 model selected > select #84/A:1430-1771 2729 atoms, 2779 bonds, 342 residues, 1 model selected > select #84/A:1431 9 atoms, 8 bonds, 1 residue, 1 model selected > select #84/A:1431-1720 2289 atoms, 2330 bonds, 290 residues, 1 model selected > select #84/A:1429-1430 17 atoms, 16 bonds, 2 residues, 1 model selected > select #84/A:1430-1763 2659 atoms, 2707 bonds, 334 residues, 1 model selected > select #84/A:1430 9 atoms, 8 bonds, 1 residue, 1 model selected > select #84/A:1430-1713 2242 atoms, 2281 bonds, 284 residues, 1 model selected > select #84/A:1714 4 atoms, 3 bonds, 1 residue, 1 model selected > select #84/A:1714-2123 3310 atoms, 3382 bonds, 410 residues, 1 model selected > color sel #040e52ff > select add #84 16760 atoms, 17065 bonds, 2123 residues, 1 model selected > select subtract #84 Nothing selected > select #84/A:1181 8 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1181-1372 1455 atoms, 1478 bonds, 192 residues, 1 model selected > color sel red > select #84/A:1756 8 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1756-2062 2499 atoms, 2556 bonds, 307 residues, 1 model selected > color sel blue > select add #84 16760 atoms, 17065 bonds, 2123 residues, 1 model selected > select subtract #84 Nothing selected > select #84/A:1718 9 atoms, 8 bonds, 1 residue, 1 model selected > select #84/A:1718-1755 314 atoms, 318 bonds, 38 residues, 1 model selected > color sel blue > select #84/A:2093 8 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1718-2093 3065 atoms, 3131 bonds, 376 residues, 1 model selected > color sel blue > undo > color sel blue > select #84/A:1181 8 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1181-1372 1455 atoms, 1478 bonds, 192 residues, 1 model selected > select #84/A:1372-1373 19 atoms, 19 bonds, 2 residues, 1 model selected > select #84/A:1372-1379 63 atoms, 63 bonds, 8 residues, 1 model selected > select #84/A:1181 8 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1181-1379 1508 atoms, 1531 bonds, 199 residues, 1 model selected > select #84/A:1181 8 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1181-1379 1508 atoms, 1531 bonds, 199 residues, 1 model selected > select #84/A:1151 7 atoms, 7 bonds, 1 residue, 1 model selected > select #84/A:1151-1404 1937 atoms, 1969 bonds, 254 residues, 1 model selected > color sel red > select add #84 16760 atoms, 17065 bonds, 2123 residues, 1 model selected > select subtract #84 Nothing selected > hide #84 models > show #!78 models > log metadata #78 No models had metadata > log chains #78 Chain information for 8adb #78 --- Chain | Description | UniProt A | Wc-VDT1 | D6YWY5_WADCW 279-493 > log metadata #78 No models had metadata > log chains #78 Chain information for 8adb #78 --- Chain | Description | UniProt A | Wc-VDT1 | D6YWY5_WADCW 279-493 > sequence chain #78/A Alignment identifier is 78/A > select #78/A:293 24 atoms, 23 bonds, 1 residue, 1 model selected > select #78/A:293-493 3033 atoms, 3061 bonds, 1 pseudobond, 196 residues, 2 models selected > show #89 models > matchmaker #89 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with AF-D6YWY5-F1-model_v4.pdb, chain A (#89), sequence alignment score = 118.2 RMSD between 35 pruned atom pairs is 1.066 angstroms; (across all 182 pairs: 16.490) > matchmaker #78 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with 8adb, chain A (#78), sequence alignment score = 101 RMSD between 32 pruned atom pairs is 1.292 angstroms; (across all 162 pairs: 12.300) > select add #78 3385 atoms, 3275 bonds, 1 pseudobond, 350 residues, 2 models selected > select subtract #78 Nothing selected > hide #!78 models > hide #89 models > show #89 models > show #1 models > hide #1 models > show #1 models > show #8 models > hide #8 models > show #!9 models > hide #1 models > hide #89 models > show #!78 models > hide #!78 models > show #89 models > log metadata #89 The model has no metadata > log chains #89 Chain information for AF-D6YWY5-F1-model_v4.pdb #89 --- Chain | Description | UniProt A | uncharacterized protein | D6YWY5_WADCW 1-494 > sequence chain #89/A Alignment identifier is 89/A > select #89/A:271 8 atoms, 7 bonds, 1 residue, 1 model selected > select #89/A:271-275 41 atoms, 42 bonds, 5 residues, 1 model selected > select #89/A:275 11 atoms, 11 bonds, 1 residue, 1 model selected > select #89/A:88-275 1508 atoms, 1543 bonds, 188 residues, 1 model selected > select #89/A:308-310 18 atoms, 17 bonds, 3 residues, 1 model selected > select #89/A:308-484 1367 atoms, 1393 bonds, 177 residues, 1 model selected > select #89/A:494 7 atoms, 6 bonds, 1 residue, 1 model selected > select #89/A:485-494 84 atoms, 85 bonds, 10 residues, 1 model selected > select #89/A:308 5 atoms, 4 bonds, 1 residue, 1 model selected > select #89/A:308-494 1451 atoms, 1479 bonds, 187 residues, 1 model selected > select #89/A:88 9 atoms, 8 bonds, 1 residue, 1 model selected > select #89/A:88-275 1508 atoms, 1543 bonds, 188 residues, 1 model selected > color sel purple > select add #89 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #89 Nothing selected > hide #89 models > show #90 models > log metadata #90 The model has no metadata > log chains #90 Chain information for AF-Q9TZA7-F1-model_v4.pdb #90 --- Chain | Description | UniProt A | BTB domain-containing protein | Q9TZA7_CAEEL 1-213 > sequence chain #89/A Alignment identifier is 89/A > log metadata #90 The model has no metadata > log chains #90 Chain information for AF-Q9TZA7-F1-model_v4.pdb #90 --- Chain | Description | UniProt A | BTB domain-containing protein | Q9TZA7_CAEEL 1-213 > sequence chain #90/A Alignment identifier is 90/A > matchmaker #90 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with AF-Q9TZA7-F1-model_v4.pdb, chain A (#90), sequence alignment score = 80.1 RMSD between 6 pruned atom pairs is 1.018 angstroms; (across all 131 pairs: 19.039) > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #90 models > show #101 models > matchmaker #101 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with WP_231937687.1.ranked_0.pdb, chain A (#101), sequence alignment score = 170.8 RMSD between 65 pruned atom pairs is 0.876 angstroms; (across all 187 pairs: 7.094) > log metadata #101 The model has no metadata > log chains #101 Chain information for WP_231937687.1.ranked_0.pdb #101 --- Chain | Description A | No description available > sequence chain #101/A Alignment identifier is 101/A > select #101/A:667 11 atoms, 10 bonds, 1 residue, 1 model selected > select #101/A:664-667 60 atoms, 61 bonds, 4 residues, 1 model selected > select #101/A:664 15 atoms, 14 bonds, 1 residue, 1 model selected > select #101/A:664-666 49 atoms, 50 bonds, 3 residues, 1 model selected > select #101/A:251 16 atoms, 15 bonds, 1 residue, 1 model selected > select #101/A:251 16 atoms, 15 bonds, 1 residue, 1 model selected > select #101/A:666 17 atoms, 17 bonds, 1 residue, 1 model selected > select #101/A:666-668 48 atoms, 49 bonds, 3 residues, 1 model selected > sym #9 6ii6 mmCIF Assemblies --- 1| author_and_software_defined_assembly| 1 copy of chains A,C 2| author_and_software_defined_assembly| 1 copy of chains B,D > log metadata #9 No models had metadata > log chains #9 Chain information for 6ii6 #9 --- Chain | Description A | Putative RTX-toxin > sequence chain #9/A Alignment identifier is 9/A > select #9/A:3350 11 atoms, 10 bonds, 1 residue, 1 model selected > select #9/A:3350-3352 25 atoms, 24 bonds, 3 residues, 1 model selected > select clear > select #101/A:561 24 atoms, 23 bonds, 1 residue, 1 model selected > select #101/A:561-563 54 atoms, 53 bonds, 3 residues, 1 model selected > select #9/A:3482 8 atoms, 7 bonds, 1 residue, 1 model selected > select #9/A:3482 8 atoms, 7 bonds, 1 residue, 1 model selected > select #101/A:524 24 atoms, 25 bonds, 1 residue, 1 model selected > select #101/A:524-726 3245 atoms, 3281 bonds, 203 residues, 1 model selected > select #101/A:727 17 atoms, 16 bonds, 1 residue, 1 model selected > select #101/A:727-1744 16157 atoms, 16303 bonds, 1018 residues, 1 model selected > show sel cartoons > select #101/A:1744 18 atoms, 18 bonds, 1 residue, 1 model selected > select #101/A:1744 18 atoms, 18 bonds, 1 residue, 1 model selected > select #101/A:1285 20 atoms, 20 bonds, 1 residue, 1 model selected > select #101/A:1285-1295 185 atoms, 187 bonds, 11 residues, 1 model selected > select #101/A:1296 16 atoms, 15 bonds, 1 residue, 1 model selected > select #101/A:1296-1397 1587 atoms, 1602 bonds, 102 residues, 1 model selected > select #101/A:1262 14 atoms, 13 bonds, 1 residue, 1 model selected > select #101/A:1262-1397 2133 atoms, 2154 bonds, 136 residues, 1 model selected > select #101/A:1373 20 atoms, 20 bonds, 1 residue, 1 model selected > select #101/A:1373-1430 902 atoms, 908 bonds, 58 residues, 1 model selected > select > #101/A:9-11,15-19,45-50,207-211,249-252,334-336,340-345,348-356,635-638,658-662,667-673,676-681,685-689,723-726,761-764,767-770,779-781,803-805,892-899,905-912,917-924,1146-1148,1153-1156,1165-1168,1175-1177,1182-1185,1207-1211,1227-1231,1262-1265,1270-1279,1285-1289,1296-1299,1302-1306,1312-1315,1339-1343,1349-1352,1357-1362,1369-1372,1380-1385,1392-1397,1405-1410,1414-1416,1423-1426,1433-1435,1440-1444,1450-1454,1461-1468,1475-1479,1486-1491,1495-1500,1508-1515,1528-1532,1536-1540,1548-1554,1588-1590,1594-1599,1602-1607,1613-1615,1621-1625,1631-1633,1642-1646,1655-1657,1669-1674,1679-1685,1688-1696,1710-1712,1717-1719,1734-1738 5775 atoms, 5767 bonds, 344 residues, 1 model selected > select #101/A:1296 16 atoms, 15 bonds, 1 residue, 1 model selected > select #101/A:1296-1695 6309 atoms, 6380 bonds, 400 residues, 1 model selected > select #101/A:1296 16 atoms, 15 bonds, 1 residue, 1 model selected > select #101/A:1296-1744 7111 atoms, 7189 bonds, 449 residues, 1 model selected > select #101/A:1165 19 atoms, 18 bonds, 1 residue, 1 model selected > select #101/A:1165-1185 315 atoms, 315 bonds, 21 residues, 1 model selected > select #101/A:1165 19 atoms, 18 bonds, 1 residue, 1 model selected > select #101/A:1165-1744 9160 atoms, 9257 bonds, 580 residues, 1 model selected > select #101/A:1146-1196 764 atoms, 765 bonds, 51 residues, 1 model selected > select #101/A:1146-1744 9443 atoms, 9540 bonds, 599 residues, 1 model selected > color sel light gray > lighting flat > lighting shadows true intensity 0.5 > lighting shadows false > lighting flat > lighting shadows true intensity 0.5 > graphics silhouettes false > graphics silhouettes true > lighting shadows false > lighting shadows true > lighting shadows false > lighting shadows true > lighting flat > lighting shadows true intensity 0.5 > lighting flat > lighting shadows true intensity 0.5 > lighting flat > color sel light gray > color sel gray > select add #101 27933 atoms, 28182 bonds, 1744 residues, 1 model selected > select subtract #101 Nothing selected > hide #101 models > show #!94 models > log metadata #94 No models had metadata > log chains #94 Chain information for GMGC10.017_810_714.ranked_0.pdb #94 --- Chain | Description A | No description available > sequence chain #94/A Alignment identifier is 94/A > select #94/A:1531 14 atoms, 13 bonds, 1 residue, 1 model selected > select #94/A:1531-1698 2589 atoms, 2603 bonds, 168 residues, 1 model selected > select #94/A:1521-1522 35 atoms, 35 bonds, 2 residues, 1 model selected > select #94/A:1521-1737 3349 atoms, 3376 bonds, 217 residues, 1 model selected > select #94/A:1521-1737 3349 atoms, 3376 bonds, 217 residues, 1 model selected > select #94/A:1521-2166 9849 atoms, 9937 bonds, 646 residues, 1 model selected > select #94/A:1489 7 atoms, 6 bonds, 1 residue, 1 model selected > select #94/A:1489-1494 95 atoms, 95 bonds, 6 residues, 1 model selected > select #94/A:2167-2168 26 atoms, 25 bonds, 2 residues, 1 model selected > select #94/A:2167-2223 852 atoms, 861 bonds, 57 residues, 1 model selected > select #94/A:2166 11 atoms, 10 bonds, 1 residue, 1 model selected > select #94/A:2153-2166 229 atoms, 231 bonds, 14 residues, 1 model selected > select #94/A:2166 11 atoms, 10 bonds, 1 residue, 1 model selected > select #94/A:1672-2166 7579 atoms, 7652 bonds, 495 residues, 1 model selected > select #94/A:1421-2166 11301 atoms, 11402 bonds, 746 residues, 1 model selected > select add #94 34588 atoms, 34892 bonds, 2223 residues, 2 models selected > select subtract #94 1 model selected > hide #!94 models > show #77 models > log metadata #77 The model has no metadata > log chains #77 Chain information for AF-A0A097A1Q2-F1-model_v4.pdb #77 --- Chain | Description A | putative RTX-toxin > sequence chain #77/A Alignment identifier is 77/A > select > #77/A:16-22,31-46,52-68,70-72,75-93,96-98,111-113,117-125,127-129,153-155 613 atoms, 609 bonds, 83 residues, 1 model selected > save /Users/aho2840/Desktop/1q2 format fasta alignment 77/A > select add #77 1274 atoms, 1295 bonds, 171 residues, 1 model selected > select subtract #77 Nothing selected > hide #77 models > show #75 models > log metadata #75 The model has no metadata > log chains #75 Chain information for AF-A0A0K0E9U3-F1-model_v4.pdb #75 --- Chain | Description A | ubiquitinyl hydrolase 1 > sequence chain #75/A Alignment identifier is 75/A > select #75/A:204-252 396 atoms, 398 bonds, 49 residues, 1 model selected > select #75/A 2008 atoms, 2043 bonds, 252 residues, 1 model selected > matchmaker #75 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with AF-A0A0K0E9U3-F1-model_v4.pdb, chain A (#75), sequence alignment score = 64.1 RMSD between 27 pruned atom pairs is 1.251 angstroms; (across all 166 pairs: 20.318) > select subtract #75 Nothing selected > select add #75 2008 atoms, 2043 bonds, 252 residues, 1 model selected > select subtract #75 Nothing selected > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > select #75/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #75/A:1-26 212 atoms, 215 bonds, 26 residues, 1 model selected > select #75/A:238 8 atoms, 7 bonds, 1 residue, 1 model selected > select #75/A:1-238 1898 atoms, 1932 bonds, 238 residues, 1 model selected > select #75/A:240 8 atoms, 7 bonds, 1 residue, 1 model selected > select #75/A:240 8 atoms, 7 bonds, 1 residue, 1 model selected > select #75/A:194 6 atoms, 5 bonds, 1 residue, 1 model selected > select #75/A:171-194 183 atoms, 187 bonds, 24 residues, 1 model selected > select #75/A:170 9 atoms, 8 bonds, 1 residue, 1 model selected > select #75/A:1-170 1359 atoms, 1386 bonds, 170 residues, 1 model selected > color sel purple > select add #75 2008 atoms, 2043 bonds, 252 residues, 1 model selected > select subtract #75 Nothing selected > select #75/A:252 9 atoms, 8 bonds, 1 residue, 1 model selected > select #75/A:252 9 atoms, 8 bonds, 1 residue, 1 model selected > select add #75 2008 atoms, 2043 bonds, 252 residues, 1 model selected > select subtract #75 Nothing selected > hide #75 models > show #100 models > matchmaker #100 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with WP_148121377.1.ranked_0.pdb, chain A (#100), sequence alignment score = 124.8 RMSD between 57 pruned atom pairs is 1.106 angstroms; (across all 188 pairs: 9.164) > hide #!9 models > log metadata #100 The model has no metadata > log chains #100 Chain information for WP_148121377.1.ranked_0.pdb #100 --- Chain | Description A | No description available > sequence chain #100/A Alignment identifier is 100/A > select #100/A:421 19 atoms, 18 bonds, 1 residue, 1 model selected > select #100/A:351-421 1223 atoms, 1234 bonds, 71 residues, 1 model selected > select #100/A:422 11 atoms, 10 bonds, 1 residue, 1 model selected > select #100/A:422-424 42 atoms, 41 bonds, 3 residues, 1 model selected > select #100/A:421-422 30 atoms, 29 bonds, 2 residues, 1 model selected > select #100/A:421-437 276 atoms, 275 bonds, 17 residues, 1 model selected > show #!9 models > select #100/A:747 7 atoms, 6 bonds, 1 residue, 1 model selected > select #100/A:421-747 5307 atoms, 5372 bonds, 327 residues, 1 model selected > select #100/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #100/A:1-294 4843 atoms, 4906 bonds, 294 residues, 1 model selected > ui tool show Matchmaker > matchmaker #100 & sel to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with WP_148121377.1.ranked_0.pdb, chain A (#100), sequence alignment score = 129.3 RMSD between 53 pruned atom pairs is 0.785 angstroms; (across all 180 pairs: 20.140) > matchmaker #100 & sel to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with WP_148121377.1.ranked_0.pdb, chain A (#100), sequence alignment score = 129.3 RMSD between 53 pruned atom pairs is 0.785 angstroms; (across all 180 pairs: 20.140) > select add #100 31107 atoms, 31455 bonds, 1953 residues, 1 model selected > select subtract #100 Nothing selected > select #100/A:421 19 atoms, 18 bonds, 1 residue, 1 model selected > select #100/A:421-747 5307 atoms, 5372 bonds, 327 residues, 1 model selected > color sel purple > select add #100 31107 atoms, 31455 bonds, 1953 residues, 1 model selected > select subtract #100 Nothing selected > hide #100 models > show #93 models > log metadata #93 The model has no metadata > log chains #93 Chain information for C4K5K2.ranked_0.pdb #93 --- Chain | Description A | No description available > sequence chain #93/A Alignment identifier is 93/A > matchmaker #93 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 133.9 RMSD between 51 pruned atom pairs is 0.709 angstroms; (across all 196 pairs: 19.970) > select #93/A:309 12 atoms, 11 bonds, 1 residue, 1 model selected > select #93/A:1-309 5161 atoms, 5230 bonds, 309 residues, 1 model selected > select #93/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:1-294 4887 atoms, 4952 bonds, 294 residues, 1 model selected > color sel purple > select #93/A:1243 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:1243-1300 888 atoms, 896 bonds, 58 residues, 1 model selected > select #93/A:1243-1901 10228 atoms, 10326 bonds, 659 residues, 1 model selected > color sel #941751ff > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > select #93/A:303 14 atoms, 14 bonds, 1 residue, 1 model selected > select #93/A:303-1251 15310 atoms, 15476 bonds, 949 residues, 1 model selected > ui tool show Matchmaker > matchmaker #93 & sel to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 121.2 RMSD between 51 pruned atom pairs is 1.196 angstroms; (across all 187 pairs: 7.810) > matchmaker #93 & sel to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 121.2 RMSD between 51 pruned atom pairs is 1.196 angstroms; (across all 187 pairs: 7.810) > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > ui mousemode right select Drag select of 804 residues > hide sel cartoons Drag select of 606 residues > hide sel cartoons Drag select of 54 residues > hide sel cartoons Drag select of 108 residues > hide sel cartoons Drag select of 12 residues > hide sel cartoons > ui mousemode right ""translate selected models"" > view matrix models > #93,-0.54652,0.1758,0.81879,36.258,-0.76539,0.2919,-0.57355,17.296,-0.33984,-0.94015,-0.024975,11.622 > undo > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > select #93/A:462 12 atoms, 11 bonds, 1 residue, 1 model selected > select #93/A:412-462 782 atoms, 788 bonds, 51 residues, 1 model selected > select #93/A:425 14 atoms, 13 bonds, 1 residue, 1 model selected > select #93/A:425-450 404 atoms, 407 bonds, 26 residues, 1 model selected > show sel cartoons > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > select #93/A:424 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:374-424 831 atoms, 835 bonds, 51 residues, 1 model selected > show sel cartoons > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > select #93/A:464 21 atoms, 21 bonds, 1 residue, 1 model selected > select #93/A:464-516 866 atoms, 871 bonds, 53 residues, 1 model selected > select #93/A:416 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:416-748 5417 atoms, 5478 bonds, 333 residues, 1 model selected > select #93/A:416 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:416-742 5313 atoms, 5373 bonds, 327 residues, 1 model selected > select #93/A:1912-1960 748 atoms, 759 bonds, 49 residues, 1 model selected > select #93/A 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > show sel cartoons > select subtract #93 Nothing selected > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > select #93/A:263 21 atoms, 21 bonds, 1 residue, 1 model selected > select #93/A:263-364 1780 atoms, 1800 bonds, 102 residues, 1 model selected > select #93/A:86-136 849 atoms, 851 bonds, 51 residues, 1 model selected > select #93/A:35-136 1703 atoms, 1716 bonds, 102 residues, 1 model selected > select #93/A:295 24 atoms, 23 bonds, 1 residue, 1 model selected > select #93/A:295-415 2101 atoms, 2122 bonds, 121 residues, 1 model selected > color sel #040e52ff > select #93/A:416 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:416-742 5313 atoms, 5373 bonds, 327 residues, 1 model selected > color sel purple > select #93/A:743 21 atoms, 21 bonds, 1 residue, 1 model selected > select #93/A:743-1242 7907 atoms, 7989 bonds, 500 residues, 1 model selected > color sel #040e52ff > select #93/A:1902 22 atoms, 21 bonds, 1 residue, 1 model selected > select #93/A:1902-1960 896 atoms, 908 bonds, 59 residues, 1 model selected > color sel #040e52ff > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > hide #93 models > show #104 models > show #105 models > select add #104 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #104 Nothing selected > log metadata #105 The model has no metadata > log chains #105 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.pdb #105 --- Chain | Description A | No description available > sequence chain #105/A Alignment identifier is 105/A > log metadata #104 The model has no metadata > log chains #104 Chain information for GMGC10.011_528_202.ranked_0.1.2000.ranked_0.pdb #104 --- Chain | Description A | No description available > sequence chain #104/A Alignment identifier is 104/A Already setting window visible! > select > #105/A:10-18,30-42,46-68,70-76,109-128,144-152,159-161,182-190,196-198,201-210,221-229,231-245,259-289,301-303,316-328,334-354,361-379,383-385,394-403,447-458,469-472,487-492,494-505,511-518,530-535,547-555,561-563,568-576,581-597,603-605,624-635,646-670,674-689,695-704,710-726,732-740,743-752,766-775,778-790,793-804,809-821,828-833,836-855,859-869,879-896,915-927,935-958,975-977,984-991,995-1018,1020-1022,1026-1038,1043-1082,1331-1333,1394-1396,1434-1442,1546-1548 10303 atoms, 10318 bonds, 667 residues, 1 model selected > select #105/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > select #105/A:1-43 683 atoms, 687 bonds, 43 residues, 1 model selected > select #105/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > select #105/A:1-200 3067 atoms, 3094 bonds, 200 residues, 1 model selected > select #105/A:201 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:201-209 138 atoms, 139 bonds, 9 residues, 1 model selected > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > matchmaker #9 to #104 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1.2000.ranked_0.pdb, chain A (#104) with 6ii6, chain A (#9), sequence alignment score = 105.4 RMSD between 4 pruned atom pairs is 0.393 angstroms; (across all 200 pairs: 44.701) > undo > matchmaker #9 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with 6ii6, chain A (#9), sequence alignment score = 1498.3 RMSD between 212 pruned atom pairs is 0.553 angstroms; (across all 223 pairs: 1.561) > hide #!9 models > select subtract #105 Nothing selected > hide #105 models > show #105 models > matchmaker #9 to #105 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105) with 6ii6, chain A (#9), sequence alignment score = 270 RMSD between 108 pruned atom pairs is 1.145 angstroms; (across all 292 pairs: 10.773) > show #!9 models > select #105/A:300 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:300-303 61 atoms, 61 bonds, 4 residues, 1 model selected > select #105/A:299 16 atoms, 15 bonds, 1 residue, 1 model selected > select #105/A:291-299 141 atoms, 141 bonds, 9 residues, 1 model selected > toolshed show > ui tool show ""Renumber Residues"" > select #105/A:260-310 775 atoms, 779 bonds, 51 residues, 1 model selected > select #105/A:260-410 2225 atoms, 2237 bonds, 151 residues, 1 model selected > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > hide #105 models > show #105 models > select #105/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > select #105/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > ui tool show ""Renumber Residues"" > renumber #105/A seqStart 1800 1601 residues renumbered > select #105/A:2100 17 atoms, 16 bonds, 1 residue, 1 model selected > select #105/A:2100-2404 4566 atoms, 4593 bonds, 305 residues, 1 model selected > select #105/A:2100 17 atoms, 16 bonds, 1 residue, 1 model selected > select #105/A:2100-2111 167 atoms, 167 bonds, 12 residues, 1 model selected > select #105/A:2099 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2077-2099 345 atoms, 346 bonds, 23 residues, 1 model selected > select > #105/A:1809-1817,1829-1841,1845-1867,1869-1875,1908-1927,1943-1951,1958-1960,1981-1989,1995-1997,2000-2009,2020-2028,2030-2044,2058-2088,2100-2102,2115-2127,2133-2153,2160-2178,2182-2184,2193-2202,2246-2257,2268-2271,2286-2291,2293-2304,2310-2317,2329-2334,2346-2354,2360-2362,2367-2375,2380-2396,2402-2404,2423-2434,2445-2469,2473-2488,2494-2503,2509-2525,2531-2539,2542-2551,2565-2574,2577-2589,2592-2603,2608-2620,2627-2632,2635-2654,2658-2668,2678-2695,2714-2726,2734-2757,2774-2776,2783-2790,2794-2817,2819-2821,2825-2837,2842-2881,3130-3132,3193-3195,3233-3241,3345-3347 10303 atoms, 10318 bonds, 667 residues, 1 model selected > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > select #105/A:2058-2059 17 atoms, 16 bonds, 2 residues, 1 model selected > select #105/A:2058-2088 474 atoms, 475 bonds, 31 residues, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2000-2047 752 atoms, 762 bonds, 48 residues, 1 model selected > select #105/A:2305 12 atoms, 11 bonds, 1 residue, 1 model selected > select #105/A:2305-2323 280 atoms, 280 bonds, 19 residues, 1 model selected > color sel #040e52ff > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > select #104/A:210 21 atoms, 21 bonds, 1 residue, 1 model selected > select #104/A:210-580 5606 atoms, 5651 bonds, 371 residues, 1 model selected > select #104/A:210 21 atoms, 21 bonds, 1 residue, 1 model selected > select #104/A:210-572 5487 atoms, 5531 bonds, 363 residues, 1 model selected > select #104/A:209 14 atoms, 13 bonds, 1 residue, 1 model selected > select #104/A:1-209 3205 atoms, 3238 bonds, 209 residues, 1 model selected > color sel #040e52ff > select #104/A:573 15 atoms, 14 bonds, 1 residue, 1 model selected > select #104/A:573-576 54 atoms, 54 bonds, 4 residues, 1 model selected > select #104/A:573-576 54 atoms, 54 bonds, 4 residues, 1 model selected > select #104/A:573-918 5213 atoms, 5272 bonds, 346 residues, 1 model selected > select #104/A:573-1221 9872 atoms, 9977 bonds, 649 residues, 1 model selected > color sel #040e52ff > select #104/A:1223 7 atoms, 6 bonds, 1 residue, 1 model selected > select #104/A:1223-1273 734 atoms, 736 bonds, 51 residues, 1 model selected > select #104/A:1222 10 atoms, 9 bonds, 1 residue, 1 model selected > select #104/A:1222-1324 1472 atoms, 1477 bonds, 103 residues, 1 model selected > select #104/A:1222-1706 7297 atoms, 7351 bonds, 485 residues, 1 model selected > color sel black > select #104/A:1707 16 atoms, 15 bonds, 1 residue, 1 model selected > select #104/A:1707-1716 150 atoms, 152 bonds, 10 residues, 1 model selected > show #!45 models > hide #!45 models > show #!45 models > hide #!45 models > show #!45 models > hide #!45 models > select add #104 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #104 Nothing selected > hide #105 models > hide #104 models > show #!45 models > hide #!45 models > show #!45 models > select add #45 1013 atoms, 1012 bonds, 253 residues, 2 models selected > show #!9 cartoons > select subtract #45 Nothing selected > select add #45 1013 atoms, 1012 bonds, 253 residues, 2 models selected > select subtract #45 Nothing selected > hide #!45 models > hide #!9 models > show #!45 models > select add #45 1013 atoms, 1012 bonds, 253 residues, 2 models selected > show #45.2 models > view matrix models #45,1,0,0,40.708,0,1,0,63.372,0,0,1,-69.846 > hide #45.2 models > hide #!45 models > select subtract #45.2 1 model selected > select add #45 1013 atoms, 1012 bonds, 253 residues, 2 models selected > select subtract #45 Nothing selected > open ""/Users/aho2840/Downloads/ranked_0 (4).pdb"" Chain information for ranked_0 (4).pdb #110 --- Chain | Description A | No description available > open ""/Users/aho2840/Downloads/ranked_0 (5).pdb"" Chain information for ranked_0 (5).pdb #111 --- Chain | Description A | No description available > rename #110 GMGC10.011_528_202.ranked_0.1800.3500.pdb > rename #110 GMGC10.011_528_202.ranked_0.3247.3500.pdb > rename #110 GMGC10.011_528_202.ranked_0.3247.4160.pdb > rename #111 GMGC10.011_528_202.ranked_0.4000.3500.pdb > rename #111 GMGC10.011_528_202.ranked_0.4000.5243.pdb > matchmaker #110 to #105 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105) with GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110), sequence alignment score = 1226.3 RMSD between 129 pruned atom pairs is 0.511 angstroms; (across all 253 pairs: 31.842) > matchmaker #111 to #110 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110) with GMGC10.011_528_202.ranked_0.4000.5243.pdb, chain A (#111), sequence alignment score = 708.7 RMSD between 7 pruned atom pairs is 1.070 angstroms; (across all 161 pairs: 16.247) > show #105 models > select #105/A:3156 14 atoms, 13 bonds, 1 residue, 1 model selected > select #105/A:3156-3314 2426 atoms, 2447 bonds, 159 residues, 1 model selected > select #105/A:3250 10 atoms, 9 bonds, 1 residue, 1 model selected > select #105/A:3250-3400 2361 atoms, 2384 bonds, 151 residues, 1 model selected > ui tool show Matchmaker > matchmaker #110 to #105 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105) with GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110), sequence alignment score = 752.3 RMSD between 8 pruned atom pairs is 1.302 angstroms; (across all 151 pairs: 18.005) > matchmaker #110 to #105 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105) with GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110), sequence alignment score = 752.3 RMSD between 8 pruned atom pairs is 1.302 angstroms; (across all 151 pairs: 18.005) > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > select #105/A:3250 10 atoms, 9 bonds, 1 residue, 1 model selected > select #105/A:3250-3400 2361 atoms, 2384 bonds, 151 residues, 1 model selected > log metadata #110 The model has no metadata > log chains #110 Chain information for GMGC10.011_528_202.ranked_0.3247.4160.pdb #110 --- Chain | Description A | No description available > sequence chain #110/A Alignment identifier is 110/A > select #110/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > select #110/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > ui tool show ""Renumber Residues"" > renumber #110/A seqStart 3247 913 residues renumbered > renumber #110/A seqStart 3247 0 residues renumbered > select #110/A:3247 16 atoms, 15 bonds, 1 residue, 1 model selected > select #110/A:3247-3501 3918 atoms, 3955 bonds, 255 residues, 1 model selected > ui tool show Matchmaker > matchmaker #110 & sel to #105 & sel No 'to' model specified > select #105/A:3250 10 atoms, 9 bonds, 1 residue, 1 model selected > select #105/A:3250-3400 2361 atoms, 2384 bonds, 151 residues, 1 model selected > ui tool show Matchmaker > matchmaker #110 & sel to #105 & sel No molecules/chains to match specified > select #110/A:3501 14 atoms, 13 bonds, 1 residue, 1 model selected > select #110/A:3247-3501 3918 atoms, 3955 bonds, 255 residues, 1 model selected > ui tool show Matchmaker > matchmaker #105 to #110 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110) with GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105), sequence alignment score = 1226.3 RMSD between 129 pruned atom pairs is 0.511 angstroms; (across all 253 pairs: 31.842) > matchmaker #105 to #110 & sel Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110) with GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105), sequence alignment score = 1226.3 RMSD between 129 pruned atom pairs is 0.511 angstroms; (across all 253 pairs: 31.842) > select add #110 13993 atoms, 14133 bonds, 913 residues, 1 model selected > select subtract #110 Nothing selected > select #110/A:3247 16 atoms, 15 bonds, 1 residue, 1 model selected > select #110/A:3247-3499 3894 atoms, 3931 bonds, 253 residues, 1 model selected > view matrix models > #110,0.15907,0.871,0.46482,23.648,0.26589,-0.49121,0.82946,67.554,0.95079,-0.0083555,-0.30973,62.328 > undo > hide sel cartoons > select #110/A:3500 10 atoms, 9 bonds, 1 residue, 1 model selected > select #110/A:3500-3579 1231 atoms, 1241 bonds, 80 residues, 1 model selected > view matrix models > #110,0.15907,0.871,0.46482,-35.338,0.26589,-0.49121,0.82946,31.014,0.95079,-0.0083555,-0.30973,38.751 > select #105/A:3393 17 atoms, 16 bonds, 1 residue, 1 model selected > select #105/A:3393-3400 129 atoms, 128 bonds, 8 residues, 1 model selected > view matrix models > #105,0.070652,0.61953,-0.78179,58.534,-0.84869,0.44916,0.27924,77.982,0.52415,0.64377,0.55752,4.1016 > undo > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > select #110/A:3247 16 atoms, 15 bonds, 1 residue, 1 model selected > select #110/A:3247-3263 270 atoms, 271 bonds, 17 residues, 1 model selected > select #110/A:3247 16 atoms, 15 bonds, 1 residue, 1 model selected > select #110/A:3247-3510 4063 atoms, 4102 bonds, 264 residues, 1 model selected > select #110/A:3504-3505 38 atoms, 38 bonds, 2 residues, 1 model selected > select #110/A:3504-3510 114 atoms, 115 bonds, 7 residues, 1 model selected > select #110/A:3500 10 atoms, 9 bonds, 1 residue, 1 model selected > select #110/A:3500-3534 585 atoms, 590 bonds, 35 residues, 1 model selected > view matrix models > #110,0.15907,0.871,0.46482,-22.055,0.26589,-0.49121,0.82946,63.614,0.95079,-0.0083555,-0.30973,185.11 > ui mousemode right ""rotate selected models"" > view matrix models > #110,0.47262,-0.25828,0.84257,-25.085,-0.61466,-0.78176,0.10513,73.004,0.63153,-0.56758,-0.52823,188.63 > view matrix models > #110,0.50805,-0.24833,0.82475,-25.704,-0.63892,-0.75081,0.16751,73.694,0.57763,-0.61206,-0.54012,189.36 > view matrix models > #110,0.41155,-0.2799,0.86734,-24.051,-0.56296,-0.82648,0.00040731,71.684,0.71673,-0.48845,-0.49771,187.53 > view matrix models > #110,0.53239,-0.24265,0.81098,-26.137,-0.65303,-0.72733,0.21107,74.134,0.53863,-0.64196,-0.54568,189.91 > view matrix models > #110,0.58365,-0.23401,0.77755,-27.073,-0.6754,-0.67148,0.30488,74.962,0.45077,-0.7031,-0.54996,191.19 > view matrix models > #110,0.50053,-0.26305,0.82479,-25.595,-0.61091,-0.78236,0.12122,73.03,0.6134,-0.56455,-0.55229,188.78 > view matrix models > #110,0.54811,-0.2445,0.79987,-26.43,-0.65256,-0.72323,0.22609,74.204,0.52321,-0.64588,-0.55596,190.09 > view matrix models > #110,0.49249,-0.26667,0.82845,-25.457,-0.60267,-0.79124,0.10358,72.815,0.62789,-0.5503,-0.5504,188.57 > view matrix models > #110,0.56859,-0.23809,0.78741,-26.798,-0.66661,-0.69423,0.27144,74.654,0.48202,-0.67923,-0.55345,190.71 > view matrix models > #110,-0.45753,-0.84636,0.27265,-14.236,-0.8879,0.41828,-0.19153,75.864,0.048064,-0.32971,-0.94286,195.29 > view matrix models > #110,0.16212,-0.729,0.66504,-21.465,-0.98276,-0.17998,0.042289,78.334,0.088865,-0.66043,-0.74561,195.61 > ui mousemode right ""translate selected models"" > view matrix models > #110,0.16212,-0.729,0.66504,13.429,-0.98276,-0.17998,0.042289,14.171,0.088865,-0.66043,-0.74561,150.07 > ui mousemode right rotate > ui mousemode right ""translate selected models"" > view matrix models > #110,0.16212,-0.729,0.66504,56.796,-0.98276,-0.17998,0.042289,30.661,0.088865,-0.66043,-0.74561,177.29 > ui mousemode right ""translate selected models"" > view matrix models > #110,0.16212,-0.729,0.66504,62.215,-0.98276,-0.17998,0.042289,36.02,0.088865,-0.66043,-0.74561,170.42 > view matrix models > #110,0.16212,-0.729,0.66504,47.904,-0.98276,-0.17998,0.042289,38.086,0.088865,-0.66043,-0.74561,171.89 > view matrix models > #110,0.16212,-0.729,0.66504,48.471,-0.98276,-0.17998,0.042289,4.313,0.088865,-0.66043,-0.74561,146.61 > ui mousemode right ""rotate selected models"" > view matrix models > #110,0.13868,-0.7211,0.67881,48.894,-0.9903,-0.095156,0.10124,4.7482,-0.0084073,-0.68627,-0.7273,148.15 > view matrix models > #110,0.14058,-0.72184,0.67763,48.86,-0.99007,-0.10231,0.096411,4.7183,-0.00026617,-0.68445,-0.72906,148.02 > view matrix models > #110,0.15864,-0.728,0.66697,48.533,-0.9845,-0.16785,0.05096,4.3863,0.074849,-0.66471,-0.74334,146.83 > ui mousemode right ""translate selected models"" > view matrix models > #110,0.15864,-0.728,0.66697,47.311,-0.9845,-0.16785,0.05096,2.404,0.074849,-0.66471,-0.74334,145.71 > select add #110 13993 atoms, 14133 bonds, 913 residues, 1 model selected > select subtract #110 Nothing selected > select #110/A:3513 19 atoms, 18 bonds, 1 residue, 1 model selected > select #110/A:3513-3555 692 atoms, 697 bonds, 43 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models > #110,0.15864,-0.728,0.66697,45.54,-0.9845,-0.16785,0.05096,3.5472,0.074849,-0.66471,-0.74334,148.09 > view matrix models > #110,0.15864,-0.728,0.66697,43.732,-0.9845,-0.16785,0.05096,4.7486,0.074849,-0.66471,-0.74334,147.21 > view matrix models > #110,0.15864,-0.728,0.66697,43.927,-0.9845,-0.16785,0.05096,4.2323,0.074849,-0.66471,-0.74334,146.75 > view matrix models > #110,0.15864,-0.728,0.66697,43.656,-0.9845,-0.16785,0.05096,3.9038,0.074849,-0.66471,-0.74334,146.59 > select add #110 13993 atoms, 14133 bonds, 913 residues, 1 model selected > select subtract #110 Nothing selected > ui mousemode right ""translate selected models"" > log metadata #111 The model has no metadata > log chains #111 Chain information for GMGC10.011_528_202.ranked_0.4000.5243.pdb #111 --- Chain | Description A | No description available > sequence chain #111/A Alignment identifier is 111/A > ui tool show ""Renumber Residues"" > renumber #111/A seqStart 4000 1244 residues renumbered > renumber #111/A seqStart 4000 0 residues renumbered > matchmaker #111 to #110 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.3247.4160.pdb, chain A (#110) with GMGC10.011_528_202.ranked_0.4000.5243.pdb, chain A (#111), sequence alignment score = 708.7 RMSD between 7 pruned atom pairs is 1.070 angstroms; (across all 161 pairs: 16.247) > select #110/A:3297 22 atoms, 21 bonds, 1 residue, 1 model selected > select #110/A:3297-3303 115 atoms, 116 bonds, 7 residues, 1 model selected > select #110/A:3297-3298 33 atoms, 32 bonds, 2 residues, 1 model selected > select #110/A:3298-3499 3100 atoms, 3130 bonds, 202 residues, 1 model selected > select #110/A:3500-3501 24 atoms, 23 bonds, 2 residues, 1 model selected > select #110/A:3500-3562 975 atoms, 983 bonds, 63 residues, 1 model selected > select add #110 13993 atoms, 14133 bonds, 913 residues, 1 model selected > select subtract #110 Nothing selected > select #111/A:4158-4159 32 atoms, 32 bonds, 2 residues, 1 model selected > select #111/A:4000-4159 2425 atoms, 2448 bonds, 160 residues, 1 model selected > hide sel cartoons > select #111/A:4160 11 atoms, 10 bonds, 1 residue, 1 model selected > select #111/A:4160-4184 417 atoms, 419 bonds, 25 residues, 1 model selected > select #110/A:4152 14 atoms, 13 bonds, 1 residue, 1 model selected > select #110/A:4152-4159 115 atoms, 116 bonds, 8 residues, 1 model selected > select #111/A:4160-4161 28 atoms, 27 bonds, 2 residues, 1 model selected > select #111/A:4160-4181 363 atoms, 364 bonds, 22 residues, 1 model selected > view matrix models > #111,-0.93959,0.29781,0.16873,42.264,-0.33284,-0.67993,-0.65339,-38.87,-0.07986,-0.67008,0.73798,108.14 > view matrix models > #111,-0.93959,0.29781,0.16873,42.797,-0.33284,-0.67993,-0.65339,-42.124,-0.07986,-0.67008,0.73798,107.72 > ui mousemode right ""rotate selected models"" > view matrix models > #111,-0.62713,0.69959,0.34245,41.74,-0.75038,-0.42473,-0.5065,-39.054,-0.20889,-0.57461,0.79132,108.71 > ui mousemode right ""translate selected models"" > view matrix models > #111,-0.62713,0.69959,0.34245,39.779,-0.75038,-0.42473,-0.5065,-28.572,-0.20889,-0.57461,0.79132,111.29 > view matrix models > #111,-0.62713,0.69959,0.34245,41.276,-0.75038,-0.42473,-0.5065,-30.269,-0.20889,-0.57461,0.79132,108.14 > view matrix models > #111,-0.62713,0.69959,0.34245,40.683,-0.75038,-0.42473,-0.5065,-26.478,-0.20889,-0.57461,0.79132,111.91 > ui mousemode right ""rotate selected models"" > view matrix models > #111,-0.97688,0.12135,0.17602,41.593,-0.21316,-0.48928,-0.84568,-29.863,-0.016504,-0.86364,0.50383,110.14 > ui mousemode right ""translate selected models"" > view matrix models > #111,-0.97688,0.12135,0.17602,43.383,-0.21316,-0.48928,-0.84568,-27.172,-0.016504,-0.86364,0.50383,105.83 > ui mousemode right ""rotate selected models"" > view matrix models > #111,-0.99466,0.089736,0.051026,43.43,-0.098489,-0.67688,-0.72947,-28.271,-0.030922,-0.7306,0.6821,106.19 > ui mousemode right ""translate selected models"" > view matrix models > #111,-0.99466,0.089736,0.051026,45.183,-0.098489,-0.67688,-0.72947,-41.19,-0.030922,-0.7306,0.6821,108.26 > view matrix models > #111,-0.99466,0.089736,0.051026,45.845,-0.098489,-0.67688,-0.72947,-42.078,-0.030922,-0.7306,0.6821,107.43 > ui mousemode right ""rotate selected models"" > view matrix models > #111,-0.9879,0.15505,0.0031988,45.944,-0.10909,-0.68007,-0.72499,-42.021,-0.11024,-0.71657,0.68875,107.94 > ui mousemode right translate > ui mousemode right rotate > ui mousemode right ""translate selected models"" > view matrix models > #111,-0.9879,0.15505,0.0031988,46.032,-0.10909,-0.68007,-0.72499,-38.774,-0.11024,-0.71657,0.68875,110.99 > view matrix models > #111,-0.9879,0.15505,0.0031988,46.099,-0.10909,-0.68007,-0.72499,-38.417,-0.11024,-0.71657,0.68875,111.67 > view matrix models > #111,-0.9879,0.15505,0.0031988,50.478,-0.10909,-0.68007,-0.72499,-37.638,-0.11024,-0.71657,0.68875,114.86 > view matrix models > #111,-0.9879,0.15505,0.0031988,54.429,-0.10909,-0.68007,-0.72499,-39.744,-0.11024,-0.71657,0.68875,112.26 > view matrix models > #111,-0.9879,0.15505,0.0031988,53.684,-0.10909,-0.68007,-0.72499,-39.925,-0.11024,-0.71657,0.68875,111.24 > view matrix models > #111,-0.9879,0.15505,0.0031988,53.467,-0.10909,-0.68007,-0.72499,-39.84,-0.11024,-0.71657,0.68875,111.92 > select add #111 18385 atoms, 18537 bonds, 1244 residues, 1 model selected > select subtract #111 Nothing selected > select #110/A:4159 12 atoms, 11 bonds, 1 residue, 1 model selected > select #110/A:3797-4159 5587 atoms, 5653 bonds, 363 residues, 1 model selected > color sel #040e52ff > select #111/A:4000-4001 23 atoms, 22 bonds, 2 residues, 1 model selected > select #111/A 18385 atoms, 18537 bonds, 1244 residues, 1 model selected > color sel #040e52ff > select #110/A:3247 16 atoms, 15 bonds, 1 residue, 1 model selected > select #110/A 13993 atoms, 14133 bonds, 913 residues, 1 model selected > color sel #040e52ff > select subtract #110 Nothing selected > show #104 models > log metadata #104 The model has no metadata > log chains #104 Chain information for GMGC10.011_528_202.ranked_0.1.2000.ranked_0.pdb #104 --- Chain | Description A | No description available > sequence chain #104/A Alignment identifier is 104/A > select #104/A:1-2 30 atoms, 29 bonds, 2 residues, 1 model selected > select #104/A 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > color sel #040e52ff Already setting window visible! > select #105/A:3353-3400 770 atoms, 777 bonds, 48 residues, 1 model selected > select #105/A 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > color sel #040e52ff > select subtract #105 Nothing selected > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2000-2304 4600 atoms, 4636 bonds, 305 residues, 1 model selected > color sel purple > show #!9 models > matchmaker #9 to #105 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1800.3500.pdb, chain A (#105) with 6ii6, chain A (#9), sequence alignment score = 270 RMSD between 108 pruned atom pairs is 1.145 angstroms; (across all 292 pairs: 10.773) > hide #!9 models > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > show #!9 models > select #104/A:208 10 atoms, 9 bonds, 1 residue, 1 model selected > select #104/A:208-209 24 atoms, 23 bonds, 2 residues, 1 model selected > select #104/A:210 21 atoms, 21 bonds, 1 residue, 1 model selected > select #104/A:210-572 5487 atoms, 5531 bonds, 363 residues, 1 model selected > color sel black > select #104/A:1222 10 atoms, 9 bonds, 1 residue, 1 model selected > select #104/A:1222-1226 66 atoms, 65 bonds, 5 residues, 1 model selected > select #104/A:1222 10 atoms, 9 bonds, 1 residue, 1 model selected > select #104/A:1222-1706 7297 atoms, 7351 bonds, 485 residues, 1 model selected > color sel black > select add #104 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #104 Nothing selected > select #111/A:4513 24 atoms, 23 bonds, 1 residue, 1 model selected > select #111/A:4467-4513 707 atoms, 714 bonds, 47 residues, 1 model selected > select #111/A:4413 14 atoms, 13 bonds, 1 residue, 1 model selected > select #111/A:4413 14 atoms, 13 bonds, 1 residue, 1 model selected > select #111/A:4529 15 atoms, 14 bonds, 1 residue, 1 model selected > select #111/A:4529-4540 167 atoms, 167 bonds, 12 residues, 1 model selected > select #111/A:4529 15 atoms, 14 bonds, 1 residue, 1 model selected > select #111/A:4529-4672 2029 atoms, 2039 bonds, 144 residues, 1 model selected > select #111/A:4394-4672 4060 atoms, 4092 bonds, 279 residues, 1 model selected > select #111/A:4358 14 atoms, 13 bonds, 1 residue, 1 model selected > select #111/A:4358-4393 553 atoms, 557 bonds, 36 residues, 1 model selected > select #111/A:4358-4561 3067 atoms, 3098 bonds, 204 residues, 1 model selected > select #111/A:4358-4672 4613 atoms, 4650 bonds, 315 residues, 1 model selected > select #111/A:4358-4832 6891 atoms, 6945 bonds, 475 residues, 1 model selected > view matrix models > #111,-0.9879,0.15505,0.0031988,-8.1987,-0.10909,-0.68007,-0.72499,71.437,-0.11024,-0.71657,0.68875,123.17 > undo > select #111/A:4832 19 atoms, 18 bonds, 1 residue, 1 model selected > select #111/A:4832-4877 715 atoms, 721 bonds, 46 residues, 1 model selected > select #111/A:4949 15 atoms, 14 bonds, 1 residue, 1 model selected > select #111/A:4931-4949 286 atoms, 286 bonds, 19 residues, 1 model selected > select #111/A:4952 19 atoms, 18 bonds, 1 residue, 1 model selected > select #111/A:4750-4952 3012 atoms, 3033 bonds, 203 residues, 1 model selected > select #111/A:4810 12 atoms, 11 bonds, 1 residue, 1 model selected > select #111/A:4759-4810 756 atoms, 762 bonds, 52 residues, 1 model selected > select #111/A:4854 11 atoms, 10 bonds, 1 residue, 1 model selected > select #111/A:4757-4854 1492 atoms, 1503 bonds, 98 residues, 1 model selected > select #111/A:4761 19 atoms, 18 bonds, 1 residue, 1 model selected > select #111/A:4761 19 atoms, 18 bonds, 1 residue, 1 model selected > select #111/A:4759-4760 29 atoms, 28 bonds, 2 residues, 1 model selected > select #111/A:4759-4762 59 atoms, 58 bonds, 4 residues, 1 model selected > select #111/A:4769 16 atoms, 15 bonds, 1 residue, 1 model selected > select #111/A:4769-4774 95 atoms, 95 bonds, 6 residues, 1 model selected > select #111/A:4826 16 atoms, 15 bonds, 1 residue, 1 model selected > select #111/A:4826-4832 117 atoms, 116 bonds, 7 residues, 1 model selected > select #111/A:4931 10 atoms, 9 bonds, 1 residue, 1 model selected > select #111/A:4931-4938 109 atoms, 108 bonds, 8 residues, 1 model selected > select #111/A:4891 19 atoms, 18 bonds, 1 residue, 1 model selected > select #111/A:4884-4891 141 atoms, 140 bonds, 8 residues, 1 model selected > select #111/A:4854 11 atoms, 10 bonds, 1 residue, 1 model selected > select #111/A:4851-4854 66 atoms, 66 bonds, 4 residues, 1 model selected > select #111/A:4804-4854 816 atoms, 821 bonds, 51 residues, 1 model selected > select #111/A:4358-4854 7272 atoms, 7330 bonds, 497 residues, 1 model selected > color sel #941751ff > select add #111 18385 atoms, 18537 bonds, 1244 residues, 1 model selected > select subtract #111 Nothing selected > select #111/A:5065 14 atoms, 13 bonds, 1 residue, 1 model selected > select #111/A:5065-5122 814 atoms, 816 bonds, 58 residues, 1 model selected > select #111/A:5065 14 atoms, 13 bonds, 1 residue, 1 model selected > select #111/A:5065-5212 2149 atoms, 2163 bonds, 148 residues, 1 model selected > view matrix models > #111,-0.9879,0.15505,0.0031988,51.419,-0.10909,-0.68007,-0.72499,-38.212,-0.11024,-0.71657,0.68875,109.14 > undo > select #111/A:5035 11 atoms, 10 bonds, 1 residue, 1 model selected > select #111/A:5035-5243 3025 atoms, 3048 bonds, 209 residues, 1 model selected > color sel #945200ff > select add #111 18385 atoms, 18537 bonds, 1244 residues, 1 model selected > select subtract #111 Nothing selected > hide #111 models > hide #110 models > hide #105 models > hide #104 models > show #97 models > rename #97 A0A2X2DF79.ranked_0.pdb > log metadata #97 The model has no metadata > log chains #97 Chain information for A0A2X2DF79.ranked_0.pdb #97 --- Chain | Description A | No description available > sequence chain #97/A Alignment identifier is 97/A > matchmaker #97 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with A0A2X2DF79.ranked_0.pdb, chain A (#97), sequence alignment score = 398.6 RMSD between 127 pruned atom pairs is 1.100 angstroms; (across all 305 pairs: 11.055) > select #97/A:1306 22 atoms, 21 bonds, 1 residue, 1 model selected > select #97/A:619-1306 10786 atoms, 10903 bonds, 688 residues, 1 model selected > select #97/A:1960 22 atoms, 22 bonds, 1 residue, 1 model selected > select #97/A:1960 22 atoms, 22 bonds, 1 residue, 1 model selected > select add #97 31322 atoms, 31645 bonds, 1960 residues, 1 model selected > select subtract #97 Nothing selected > hide #97 models > show #92 models > log metadata #92 The model has no metadata > log chains #92 Chain information for B6XGD1.ranked_0.pdb #92 --- Chain | Description A | No description available > sequence chain #92/A Alignment identifier is 92/A > select #92/A:419 14 atoms, 13 bonds, 1 residue, 1 model selected > select #92/A:419-737 5065 atoms, 5111 bonds, 319 residues, 1 model selected > select #92/A:419 14 atoms, 13 bonds, 1 residue, 1 model selected > select #92/A:419-710 4622 atoms, 4667 bonds, 292 residues, 1 model selected > select #92/A:711 11 atoms, 10 bonds, 1 residue, 1 model selected > select #92/A:711-714 48 atoms, 47 bonds, 4 residues, 1 model selected > select #92/A:419 14 atoms, 13 bonds, 1 residue, 1 model selected > select #92/A:419-710 4622 atoms, 4667 bonds, 292 residues, 1 model selected > select #92/A:418 11 atoms, 10 bonds, 1 residue, 1 model selected > select #92/A:401-418 271 atoms, 271 bonds, 18 residues, 1 model selected > select #92/A:419 14 atoms, 13 bonds, 1 residue, 1 model selected > select #92/A:419-710 4622 atoms, 4667 bonds, 292 residues, 1 model selected > select #92/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #92/A 33408 atoms, 33762 bonds, 2103 residues, 1 model selected > color sel #040e52ff > select #92/A:318-368 878 atoms, 880 bonds, 51 residues, 1 model selected > select #92/A:267-368 1722 atoms, 1730 bonds, 102 residues, 1 model selected > select #92/A:419 14 atoms, 13 bonds, 1 residue, 1 model selected > select #92/A:419-710 4622 atoms, 4667 bonds, 292 residues, 1 model selected > color sel purple > matchmaker #92 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with B6XGD1.ranked_0.pdb, chain A (#92), sequence alignment score = 401.5 RMSD between 133 pruned atom pairs is 1.062 angstroms; (across all 317 pairs: 13.801) > select add #92 33408 atoms, 33762 bonds, 2103 residues, 1 model selected > select subtract #92 Nothing selected > select #92/A:739 24 atoms, 23 bonds, 1 residue, 1 model selected > select #92/A:739-789 851 atoms, 859 bonds, 51 residues, 1 model selected > select #92/A:1370-1419 789 atoms, 797 bonds, 50 residues, 1 model selected > select #92/A:739-1419 10732 atoms, 10845 bonds, 681 residues, 1 model selected > select #92/A:739 24 atoms, 23 bonds, 1 residue, 1 model selected > select #92/A:739-1419 10732 atoms, 10845 bonds, 681 residues, 1 model selected > color sel cornflower blue > select add #92 33408 atoms, 33762 bonds, 2103 residues, 1 model selected > select subtract #92 Nothing selected > hide #92 models > show #88 models > log metadata #88 The model has no metadata > log chains #88 Chain information for Mcf2.ranked_0.pdb #88 --- Chain | Description A | No description available > sequence chain #88/A Alignment identifier is 88/A > select #88/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #88/A:1-627 9728 atoms, 9811 bonds, 627 residues, 1 model selected > select #88/A:2339-2388 718 atoms, 724 bonds, 50 residues, 1 model selected > select #88/A 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > select subtract #88 Nothing selected > select add #88 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > select subtract #88 Nothing selected > ui mousemode right select Drag select of 384 residues > select #88/A:674 11 atoms, 10 bonds, 1 residue, 1 model selected > select #88/A:674 11 atoms, 10 bonds, 1 residue, 1 model selected > select #88/A:670 14 atoms, 14 bonds, 1 residue, 1 model selected > select #88/A:670-971 4617 atoms, 4665 bonds, 302 residues, 1 model selected > select > #88/A:5-21,24-39,46-49,59-69,80-94,112-114,117-122,133-138,153-167,202-215,249-267,271-281,294-302,319-326,328-334,340-344,447-450,460-462,520-538,541-544,571-598,608-652,654-656,662-665,676-700,716-725,730-767,776-783,791-822,827-840,844-848,858-867,911-924,927-930,949-954,965-967,972-994,996-1024,1035-1037,1067-1086,1104-1132,1139-1156,1162-1173,1177-1180,1187-1190,1211-1217,1221-1229,1231-1234,1277-1302,1375-1379,1416-1418,1424-1431,1586-1589,1596-1605,1646-1650,1739-1747,1754-1765,1929-1932,1938-1944,2016-2022,2082-2102,2225-2228,2288-2290,2307-2317,2327-2329,2352-2360 12054 atoms, 12098 bonds, 758 residues, 1 model selected > select #88/A:670-971 4617 atoms, 4665 bonds, 302 residues, 1 model selected > select #88/A:612-613 29 atoms, 28 bonds, 2 residues, 1 model selected > select #88/A:561-613 882 atoms, 889 bonds, 53 residues, 1 model selected > select #88/A:676-677 23 atoms, 22 bonds, 2 residues, 1 model selected > select #88/A:676-700 372 atoms, 376 bonds, 25 residues, 1 model selected > matchmaker #89 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-D6YWY5-F1-model_v4.pdb, chain A (#89), sequence alignment score = 111.4 RMSD between 37 pruned atom pairs is 1.149 angstroms; (across all 266 pairs: 25.856) > matchmaker #88 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with Mcf2.ranked_0.pdb, chain A (#88), sequence alignment score = 405.2 RMSD between 128 pruned atom pairs is 0.972 angstroms; (across all 303 pairs: 12.736) Drag select of 651 residues > select #88/A:973 14 atoms, 13 bonds, 1 residue, 1 model selected > select #88/A:973-974 28 atoms, 27 bonds, 2 residues, 1 model selected > select #88/A:967 14 atoms, 13 bonds, 1 residue, 1 model selected > select #88/A:965-967 45 atoms, 44 bonds, 3 residues, 1 model selected Drag select of 651 residues > select #88/A:973 14 atoms, 13 bonds, 1 residue, 1 model selected > select #88/A:973-975 44 atoms, 43 bonds, 3 residues, 1 model selected > select > #88/A:5-21,24-39,46-49,59-69,80-94,112-114,117-122,133-138,153-167,202-215,249-267,271-281,294-302,319-326,328-334,340-344,447-450,460-462,520-538,541-544,571-598,608-652,654-656,662-665,676-700,716-725,730-767,776-783,791-822,827-840,844-848,858-867,911-924,927-930,949-954,965-967,972-994,996-1024,1035-1037,1067-1086,1104-1132,1139-1156,1162-1173,1177-1180,1187-1190,1211-1217,1221-1229,1231-1234,1277-1302,1375-1379,1416-1418,1424-1431,1586-1589,1596-1605,1646-1650,1739-1747,1754-1765,1929-1932,1938-1944,2016-2022,2082-2102,2225-2228,2288-2290,2307-2317,2327-2329,2352-2360 12054 atoms, 12098 bonds, 758 residues, 1 model selected > select #88/A:967 14 atoms, 13 bonds, 1 residue, 1 model selected > select #88/A:965-967 45 atoms, 44 bonds, 3 residues, 1 model selected > select #88/A:676 16 atoms, 15 bonds, 1 residue, 1 model selected > select #88/A:676-967 4470 atoms, 4515 bonds, 292 residues, 1 model selected > select #88/A:2339-2388 718 atoms, 724 bonds, 50 residues, 1 model selected > select #88/A 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > show sel cartoons > select #88/A:675-725 807 atoms, 816 bonds, 51 residues, 1 model selected > select #88/A:675-820 2252 atoms, 2276 bonds, 146 residues, 1 model selected > select #88/A:924 7 atoms, 6 bonds, 1 residue, 1 model selected > select #88/A:924-974 769 atoms, 774 bonds, 51 residues, 1 model selected > select #88/A:676 16 atoms, 15 bonds, 1 residue, 1 model selected > select #88/A:676-967 4470 atoms, 4515 bonds, 292 residues, 1 model selected > color sel purple > select add #88 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > select subtract #88 Nothing selected > select #88/A:281 14 atoms, 13 bonds, 1 residue, 1 model selected > select #88/A:133-281 2274 atoms, 2293 bonds, 149 residues, 1 model selected > select #88/A:125-126 30 atoms, 30 bonds, 2 residues, 1 model selected > select #88/A:125-281 2412 atoms, 2433 bonds, 157 residues, 1 model selected > select clear > select #88/A:125 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:125-281 2412 atoms, 2433 bonds, 157 residues, 1 model selected > ui mousemode right ""translate selected models"" > color sel yellow > select #88/A:996 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:996-1675 10412 atoms, 10525 bonds, 680 residues, 1 model selected > select add #88 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > select subtract #88 Nothing selected > select #88/A:996 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:996-1005 156 atoms, 156 bonds, 10 residues, 1 model selected > select #88/A:1675 12 atoms, 11 bonds, 1 residue, 1 model selected > select #88/A:1501-1675 2672 atoms, 2699 bonds, 175 residues, 1 model selected > select #88/A:1675 12 atoms, 11 bonds, 1 residue, 1 model selected > select #88/A:1663-1675 195 atoms, 198 bonds, 13 residues, 1 model selected > select #88/A:996 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:996-1096 1624 atoms, 1644 bonds, 101 residues, 1 model selected > select #88/A:1675 12 atoms, 11 bonds, 1 residue, 1 model selected > select #88/A:1416-1675 4077 atoms, 4122 bonds, 260 residues, 1 model selected > select #88/A:1675 12 atoms, 11 bonds, 1 residue, 1 model selected > select #88/A:1665-1675 154 atoms, 155 bonds, 11 residues, 1 model selected > select #88/A:1625-1675 784 atoms, 794 bonds, 51 residues, 1 model selected > select #88/A:1312-1675 5730 atoms, 5797 bonds, 364 residues, 1 model selected > select #88/A:996 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:996-1675 10412 atoms, 10525 bonds, 680 residues, 1 model selected > color sel cornflower blue > select add #88 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > select subtract #88 Nothing selected > select #88/A:2388 12 atoms, 11 bonds, 1 residue, 1 model selected > select #88/A:2388 12 atoms, 11 bonds, 1 residue, 1 model selected > select #88/A:2342-2388 675 atoms, 680 bonds, 47 residues, 1 model selected > select #88/A 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > color sel #040e52ff > select #88/A:705 19 atoms, 18 bonds, 1 residue, 1 model selected > select #88/A:705-812 1656 atoms, 1672 bonds, 108 residues, 1 model selected > select #88/A:676 16 atoms, 15 bonds, 1 residue, 1 model selected > select #88/A:676-967 4470 atoms, 4515 bonds, 292 residues, 1 model selected > color sel purple > select #88/A:996 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:996-1094 1586 atoms, 1605 bonds, 99 residues, 1 model selected > select #88/A:996 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:996-1665 10270 atoms, 10381 bonds, 670 residues, 1 model selected > select #88/A:996-1675 10412 atoms, 10525 bonds, 680 residues, 1 model selected > color sel cornflower blue > select #88/A:125 10 atoms, 9 bonds, 1 residue, 1 model selected > select #88/A:125-281 2412 atoms, 2433 bonds, 157 residues, 1 model selected > color sel yellow > select add #88 36672 atoms, 37035 bonds, 2388 residues, 1 model selected > select subtract #88 Nothing selected > hide #88 models > show #95 models > log metadata #95 The model has no metadata > log chains #95 Chain information for MGYP000860465678.ranked_0.pdb #95 --- Chain | Description A | No description available > sequence chain #95/A Alignment identifier is 95/A > select #95/A:1-2 33 atoms, 32 bonds, 2 residues, 1 model selected > select #95/A 31954 atoms, 32283 bonds, 1998 residues, 1 model selected > select subtract #95 Nothing selected > matchmaker #95 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP000860465678.ranked_0.pdb, chain A (#95), sequence alignment score = 382.4 RMSD between 134 pruned atom pairs is 1.003 angstroms; (across all 296 pairs: 7.540) > select #95/A:730 19 atoms, 18 bonds, 1 residue, 1 model selected > select #95/A:730-732 41 atoms, 40 bonds, 3 residues, 1 model selected > select #95/A:980 10 atoms, 9 bonds, 1 residue, 1 model selected > select #95/A:980-1031 728 atoms, 734 bonds, 52 residues, 1 model selected > select #95/A:737 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:737-1397 10498 atoms, 10612 bonds, 661 residues, 1 model selected > select #95/A:721 14 atoms, 13 bonds, 1 residue, 1 model selected > select #95/A:721-799 1295 atoms, 1309 bonds, 79 residues, 1 model selected > select #95/A:716 15 atoms, 14 bonds, 1 residue, 1 model selected > select #95/A:563-716 2515 atoms, 2538 bonds, 154 residues, 1 model selected > select #95/A:1646 19 atoms, 18 bonds, 1 residue, 1 model selected > select #95/A:1629-1646 253 atoms, 255 bonds, 18 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1391-1397 126 atoms, 127 bonds, 7 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1395-1397 50 atoms, 49 bonds, 3 residues, 1 model selected > select #95/A:1398 19 atoms, 18 bonds, 1 residue, 1 model selected > select #95/A:1398-1998 9522 atoms, 9624 bonds, 601 residues, 1 model selected > color sel #040e52ff > select #95/A:1741 10 atoms, 9 bonds, 1 residue, 1 model selected > select #95/A:1741-1841 1557 atoms, 1566 bonds, 101 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1391-1397 126 atoms, 127 bonds, 7 residues, 1 model selected > select add #95 31954 atoms, 32283 bonds, 1998 residues, 1 model selected > select subtract #95 Nothing selected > select #95/A:1391 22 atoms, 21 bonds, 1 residue, 1 model selected > select #95/A:1391-1397 126 atoms, 127 bonds, 7 residues, 1 model selected > select #95/A:1385-1386 41 atoms, 42 bonds, 2 residues, 1 model selected > select #95/A:1378-1386 150 atoms, 152 bonds, 9 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1316-1397 1344 atoms, 1363 bonds, 82 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1392-1397 104 atoms, 105 bonds, 6 residues, 1 model selected > select #95/A:1395-1396 38 atoms, 37 bonds, 2 residues, 1 model selected > select #95/A:1389-1396 145 atoms, 146 bonds, 8 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:1292-1397 1709 atoms, 1730 bonds, 106 residues, 1 model selected > select #95/A:1397 12 atoms, 11 bonds, 1 residue, 1 model selected > select #95/A:721-1397 10753 atoms, 10869 bonds, 677 residues, 1 model selected > select add #95 31954 atoms, 32283 bonds, 1998 residues, 1 model selected > select subtract #95 Nothing selected > hide #95 models > show #54 models > matchmaker #54 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2X2DBV1-F1-model_v4.pdb, chain A (#54), sequence alignment score = 359.9 RMSD between 135 pruned atom pairs is 0.987 angstroms; (across all 298 pairs: 8.517) > log metadata #54 The model has no metadata > log chains #54 Chain information for AF-A0A2X2DBV1-F1-model_v4.pdb #54 --- Chain | Description A | toxin B > sequence chain #54/A Alignment identifier is 54/A > select #54/A:364 8 atoms, 7 bonds, 1 residue, 1 model selected > select #54/A:364-568 1640 atoms, 1666 bonds, 205 residues, 1 model selected > select #54/A:364 8 atoms, 7 bonds, 1 residue, 1 model selected > select #54/A:364-658 2355 atoms, 2401 bonds, 295 residues, 1 model selected > select #54/A:361-362 18 atoms, 17 bonds, 2 residues, 1 model selected > select #54/A:357-362 55 atoms, 55 bonds, 6 residues, 1 model selected > select #54/A:658 6 atoms, 5 bonds, 1 residue, 1 model selected > select #54/A:654-658 38 atoms, 38 bonds, 5 residues, 1 model selected > select #54/A:663 8 atoms, 7 bonds, 1 residue, 1 model selected > select #54/A:663-1269 4877 atoms, 4991 bonds, 607 residues, 1 model selected > select #54/A:663 8 atoms, 7 bonds, 1 residue, 1 model selected > select #54/A:663-668 46 atoms, 45 bonds, 6 residues, 1 model selected > select #54/A:663 8 atoms, 7 bonds, 1 residue, 1 model selected > select #54/A:663-1269 4877 atoms, 4991 bonds, 607 residues, 1 model selected > select #54/A:612 11 atoms, 11 bonds, 1 residue, 1 model selected > select #54/A:562-612 427 atoms, 440 bonds, 51 residues, 1 model selected > select add #54 10263 atoms, 10482 bonds, 1269 residues, 1 model selected > select subtract #54 Nothing selected > hide #54 models > show #91 models > log metadata #91 The model has no metadata > log chains #91 Chain information for A0A4P2SNJ1.longerNterm.ranked_0.pdb #91 --- Chain | Description A | No description available > sequence chain #91/A Alignment identifier is 91/A > select #91/A:254-255 29 atoms, 29 bonds, 2 residues, 1 model selected > select #91/A:254-259 83 atoms, 83 bonds, 6 residues, 1 model selected > select #91/A:304-305 37 atoms, 36 bonds, 2 residues, 1 model selected > select #91/A:304-309 99 atoms, 98 bonds, 6 residues, 1 model selected > matchmaker #91 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with A0A4P2SNJ1.longerNterm.ranked_0.pdb, chain A (#91), sequence alignment score = 180.1 RMSD between 57 pruned atom pairs is 0.921 angstroms; (across all 231 pairs: 21.738) > log metadata #43 The model has no metadata > log chains #43 Chain information for AF-A0A1Y3API8-F1-model_v4.pdb #43 --- Chain | Description A | rhodanese domain-containing protein > sequence chain #43/A Alignment identifier is 43/A > open ""/Users/aho2840/Desktop/Satchell Lab/MCFHomologs/A0A097A1Q2.1.A > Putative RTX-toxin.pdb"" A0A097A1Q2.1.A Putative RTX-toxin.pdb title: SWISS-MODEL SERVER (https://swissmodel.expasy.org) aMCF [more info...] Chain information for A0A097A1Q2.1.A Putative RTX-toxin.pdb #112 --- Chain | Description A | No description available > hide #112 models > show #112 models > log metadata #112 Metadata for A0A097A1Q2.1.A Putative RTX-toxin.pdb #112 --- Title | SWISS-MODEL SERVER (https://swissmodel.expasy.org) aMCF Citation | Swiss-model: homology modelling of protein structures andcomplexes PMID: 29788355 Experimental method | Theoretical model (swiss-model server) > log chains #112 Chain information for A0A097A1Q2.1.A Putative RTX-toxin.pdb #112 --- Chain | Description A | No description available > sequence chain #112/A Alignment identifier is 112/A > sym #9 6ii6 mmCIF Assemblies --- 1| author_and_software_defined_assembly| 1 copy of chains A,C 2| author_and_software_defined_assembly| 1 copy of chains B,D > log metadata #9 No models had metadata > log chains #9 Chain information for 6ii6 #9 --- Chain | Description A | Putative RTX-toxin > sequence chain #9/A Alignment identifier is 9/A > select #9/A:3267 11 atoms, 10 bonds, 1 residue, 1 model selected > select #9/A:3267-3269 25 atoms, 24 bonds, 3 residues, 1 model selected > select #9/A:3349 4 atoms, 3 bonds, 1 residue, 1 model selected > select #9/A:3349-3351 21 atoms, 20 bonds, 3 residues, 1 model selected > select #9/A:3352 8 atoms, 7 bonds, 1 residue, 1 model selected > select #9/A:3350-3352 25 atoms, 24 bonds, 3 residues, 1 model selected > select #9/A:3269 8 atoms, 7 bonds, 1 residue, 1 model selected > select #9/A:3267-3269 25 atoms, 24 bonds, 3 residues, 1 model selected > select #9/A:3352 8 atoms, 7 bonds, 1 residue, 1 model selected > select #9/A:3350-3352 25 atoms, 24 bonds, 3 residues, 1 model selected > show #109 models > hide #112 models > hide #109 models > show #72 models > log metadata #72 The model has no metadata > log chains #72 Chain information for AF-Q327I5-F1-model_v4.pdb #72 --- Chain | Description | UniProt A | OSPD2 | Q327I5_SHIDS 1-572 > sequence chain #72/A Alignment identifier is 72/A > select #72/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #72/A:1-106 847 atoms, 860 bonds, 106 residues, 1 model selected > select #72/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #72/A:1-250 2039 atoms, 2085 bonds, 250 residues, 1 model selected > hide #91 models > matchmaker #72 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 126.1 RMSD between 10 pruned atom pairs is 1.365 angstroms; (across all 189 pairs: 18.434) > ui tool show Matchmaker > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 34.4 RMSD between 23 pruned atom pairs is 1.153 angstroms; (across all 229 pairs: 19.731) > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 34.4 RMSD between 23 pruned atom pairs is 1.153 angstroms; (across all 229 pairs: 19.731) > select add #72 4592 atoms, 4687 bonds, 572 residues, 1 model selected > select subtract #72 Nothing selected > hide #72 models > show #99 models > log metadata #99 The model has no metadata > log chains #99 Chain information for WP_095034189.1.ranked_0.pdb #99 --- Chain | Description A | No description available > sequence chain #99/A Alignment identifier is 99/A > select #99/A:324 20 atoms, 20 bonds, 1 residue, 1 model selected > select #99/A:322-324 44 atoms, 45 bonds, 3 residues, 1 model selected > select #99/A:343 20 atoms, 20 bonds, 1 residue, 1 model selected > select #99/A:1-343 5585 atoms, 5652 bonds, 343 residues, 1 model selected > view matrix models > #99,-0.24018,-0.60835,-0.75645,11.198,0.83562,0.26701,-0.48005,61.266,0.49402,-0.7474,0.44422,112.71 > undo > select #99/A:349 15 atoms, 14 bonds, 1 residue, 1 model selected > select #99/A:349-499 2447 atoms, 2466 bonds, 151 residues, 1 model selected > view matrix models > #99,-0.24018,-0.60835,-0.75645,5.0569,0.83562,0.26701,-0.48005,32.943,0.49402,-0.7474,0.44422,41.557 > select #99/A:349-499,501-502 2477 atoms, 2495 bonds, 153 residues, 1 model selected > select #99/A:349-502 2491 atoms, 2510 bonds, 154 residues, 1 model selected > select add #99 8782 atoms, 8876 bonds, 543 residues, 1 model selected > select subtract #99 Nothing selected > hide #99 models > show #100 models > log metadata #100 The model has no metadata > log chains #100 Chain information for WP_148121377.1.ranked_0.pdb #100 --- Chain | Description A | No description available > sequence chain #100/A Alignment identifier is 100/A > select #100/A:1386 21 atoms, 21 bonds, 1 residue, 1 model selected > select #100/A:1386 21 atoms, 21 bonds, 1 residue, 1 model selected > select #100/A:1386-1422 560 atoms, 564 bonds, 37 residues, 1 model selected > select #100/A:1428 12 atoms, 11 bonds, 1 residue, 1 model selected > select #100/A:1386-1428 619 atoms, 623 bonds, 43 residues, 1 model selected > view matrix models > #100,-0.75361,-0.61809,-0.2237,28.604,-0.07069,0.41455,-0.90728,101.69,0.65351,-0.66792,-0.3561,72.831 > select #100/A:1367 19 atoms, 18 bonds, 1 residue, 1 model selected > select #100/A:1367-1953 9141 atoms, 9226 bonds, 587 residues, 1 model selected > select add #100 31107 atoms, 31455 bonds, 1953 residues, 1 model selected > select subtract #100 Nothing selected > hide #100 models > show #93 models > log metadata #93 The model has no metadata > log chains #93 Chain information for C4K5K2.ranked_0.pdb #93 --- Chain | Description A | No description available > sequence chain #93/A Alignment identifier is 93/A > select #93/A:1751 14 atoms, 13 bonds, 1 residue, 1 model selected > select #93/A:1751-1880 1905 atoms, 1915 bonds, 130 residues, 1 model selected > select #93/A:1863 12 atoms, 11 bonds, 1 residue, 1 model selected > select #93/A:1751-1863 1613 atoms, 1623 bonds, 113 residues, 1 model selected > select #93/A:1862 14 atoms, 13 bonds, 1 residue, 1 model selected > select #93/A:1860-1862 28 atoms, 27 bonds, 3 residues, 1 model selected > select #93/A:1863 12 atoms, 11 bonds, 1 residue, 1 model selected > select #93/A:1751-1863 1613 atoms, 1623 bonds, 113 residues, 1 model selected > select #93/A:1751 14 atoms, 13 bonds, 1 residue, 1 model selected > select #93/A:1751-1753 38 atoms, 37 bonds, 3 residues, 1 model selected > select #93/A:1396 7 atoms, 6 bonds, 1 residue, 1 model selected > select #93/A:1396-1413 272 atoms, 273 bonds, 18 residues, 1 model selected > select #93/A:1435-1437 43 atoms, 43 bonds, 3 residues, 1 model selected > select #93/A:1396-1435 552 atoms, 555 bonds, 40 residues, 1 model selected > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > hide #93 models > show #35 models > log metadata #35 The model has no metadata > log chains #35 Chain information for AF-A0A7U6JX76-F1-model_v4.pdb #35 --- Chain | Description A | EFA1/lifa-like protein, N-terminal part > sequence chain #35/A Alignment identifier is 35/A > select #35/A:165 7 atoms, 6 bonds, 1 residue, 1 model selected > select #35/A:165-229 528 atoms, 533 bonds, 65 residues, 1 model selected > select #35/A:161 5 atoms, 4 bonds, 1 residue, 1 model selected > select #35/A:161-164 31 atoms, 30 bonds, 4 residues, 1 model selected > select #35/A:210 8 atoms, 7 bonds, 1 residue, 1 model selected > select #35/A:209-210 17 atoms, 16 bonds, 2 residues, 1 model selected > select #35/A:161 5 atoms, 4 bonds, 1 residue, 1 model selected > select #35/A:161-229 559 atoms, 564 bonds, 69 residues, 1 model selected > select #35/A:152 9 atoms, 8 bonds, 1 residue, 1 model selected > select #35/A:152-229 634 atoms, 639 bonds, 78 residues, 1 model selected > select #35/A:261 9 atoms, 8 bonds, 1 residue, 1 model selected > select #35/A:261-363 826 atoms, 847 bonds, 103 residues, 1 model selected > select #35/A:164-166 24 atoms, 23 bonds, 3 residues, 1 model selected > select #35/A:166-253 704 atoms, 712 bonds, 88 residues, 1 model selected > select #35/A:754 11 atoms, 10 bonds, 1 residue, 1 model selected > select #35/A:754-805 416 atoms, 426 bonds, 52 residues, 1 model selected > select #35/A:253 6 atoms, 5 bonds, 1 residue, 1 model selected > select #35/A:167-253 695 atoms, 703 bonds, 87 residues, 1 model selected > select #35/A:165-253 711 atoms, 719 bonds, 89 residues, 1 model selected > view matrix models > #35,0.22503,-0.93827,0.26272,7.1151,0.23315,0.31365,0.92047,40.856,-0.94605,-0.14588,0.28934,83.248 > select add #35 9990 atoms, 10180 bonds, 1238 residues, 1 model selected > hide #35 models > select subtract #35 Nothing selected > show #38 models > matchmaker #38 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A0K3YVA7-F1-model_v4.pdb, chain A (#38), sequence alignment score = 929.6 RMSD between 298 pruned atom pairs is 0.887 angstroms; (across all 338 pairs: 1.776) > log metadata #38 The model has no metadata > log chains #38 Chain information for AF-A0A0K3YVA7-F1-model_v4.pdb #38 --- Chain | Description A | EFA1/lifa-like protein > sequence chain #38/A Alignment identifier is 38/A > select #38/A:151 7 atoms, 7 bonds, 1 residue, 1 model selected > select #38/A:151-490 2732 atoms, 2788 bonds, 340 residues, 1 model selected > select #38/A:144-145 15 atoms, 14 bonds, 2 residues, 1 model selected > select #38/A:1-145 1097 atoms, 1117 bonds, 145 residues, 1 model selected > select add #38 3870 atoms, 3947 bonds, 490 residues, 1 model selected > select subtract #38 Nothing selected > hide #38 models > show #43 models > log metadata #43 The model has no metadata > log chains #43 Chain information for AF-A0A1Y3API8-F1-model_v4.pdb #43 --- Chain | Description A | rhodanese domain-containing protein > sequence chain #43/A Alignment identifier is 43/A > select #43/A:115-116 16 atoms, 15 bonds, 2 residues, 1 model selected > select #43/A:1-116 880 atoms, 889 bonds, 116 residues, 1 model selected > select #43/A:132 9 atoms, 8 bonds, 1 residue, 1 model selected > select #43/A:1-132 1014 atoms, 1026 bonds, 132 residues, 1 model selected > show #84 models > select add #43 6371 atoms, 6504 bonds, 812 residues, 1 model selected > select subtract #43 Nothing selected > hide #43 models > hide #!9 models > hide #84 models > show #43 models > select #43/A:1 5 atoms, 4 bonds, 1 residue, 1 model selected > select #43/A:1-132 1014 atoms, 1026 bonds, 132 residues, 1 model selected > color sel red > select add #43 6371 atoms, 6504 bonds, 812 residues, 1 model selected > select subtract #43 Nothing selected > hide #43 models > show #111 models > show #104 models > show #105 models > show #110 models > log metadata #111 The model has no metadata > log chains #111 Chain information for GMGC10.011_528_202.ranked_0.4000.5243.pdb #111 --- Chain | Description A | No description available > sequence chain #111/A Alignment identifier is 111/A > select #111/A:4583 12 atoms, 11 bonds, 1 residue, 1 model selected > select #111/A:4583-4816 3249 atoms, 3269 bonds, 234 residues, 1 model selected > select #111/A:4583-4832 3480 atoms, 3501 bonds, 250 residues, 1 model selected > select #111/A:4583-4854 3861 atoms, 3886 bonds, 272 residues, 1 model selected > select #111/A:4573 19 atoms, 18 bonds, 1 residue, 1 model selected > select #111/A:4573-4816 3428 atoms, 3449 bonds, 244 residues, 1 model selected > view matrix models > #111,-0.9879,0.15505,0.0031988,27.034,-0.10909,-0.68007,-0.72499,-18.027,-0.11024,-0.71657,0.68875,102.91 > undo > select #111/A:4621-4671 662 atoms, 663 bonds, 51 residues, 1 model selected > select #111/A:4621-4671 662 atoms, 663 bonds, 51 residues, 1 model selected > select #111/A:4583 12 atoms, 11 bonds, 1 residue, 1 model selected > select #111/A:4583-4816 3249 atoms, 3269 bonds, 234 residues, 1 model selected > select #111/A:4583-4817 3256 atoms, 3276 bonds, 235 residues, 1 model selected > select add #111 18385 atoms, 18537 bonds, 1244 residues, 1 model selected > select subtract #111 Nothing selected > hide #111 models > hide #110 models > hide #105 models > hide #104 models > show #96 models > log metadata #96 The model has no metadata > log chains #96 Chain information for MGYP003605169772.ranked_0.pdb #96 --- Chain | Description A | No description available > sequence chain #96/A Alignment identifier is 96/A > select #96/A:942 14 atoms, 14 bonds, 1 residue, 1 model selected > select #96/A:942-1234 4430 atoms, 4471 bonds, 293 residues, 1 model selected > select #96/A:941 12 atoms, 11 bonds, 1 residue, 1 model selected > select #96/A:1-941 14637 atoms, 14805 bonds, 941 residues, 1 model selected > color sel #040e52ff > select #96/A:1062 7 atoms, 6 bonds, 1 residue, 1 model selected > select #96/A:1061-1062 24 atoms, 23 bonds, 2 residues, 1 model selected > select #96/A:819 22 atoms, 21 bonds, 1 residue, 1 model selected > select #96/A:819-936 1722 atoms, 1740 bonds, 118 residues, 1 model selected > select #96/A:815-816 27 atoms, 27 bonds, 2 residues, 1 model selected > select #96/A:765-816 763 atoms, 771 bonds, 52 residues, 1 model selected > select #96/A:907-908 30 atoms, 30 bonds, 2 residues, 1 model selected > select #96/A:819-907 1325 atoms, 1336 bonds, 89 residues, 1 model selected > view matrix models > #96,0.61612,0.18057,0.76667,-0.57975,-0.38691,-0.77845,0.49428,21.519,0.68607,-0.60117,-0.40975,90.045 > select add #96 19067 atoms, 19277 bonds, 1234 residues, 1 model selected > select subtract #96 Nothing selected > hide #96 models > show #112 models > log metadata #112 Metadata for A0A097A1Q2.1.A Putative RTX-toxin.pdb #112 --- Title | SWISS-MODEL SERVER (https://swissmodel.expasy.org) aMCF Citation | Swiss-model: homology modelling of protein structures andcomplexes PMID: 29788355 Experimental method | Theoretical model (swiss-model server) > log chains #112 Chain information for A0A097A1Q2.1.A Putative RTX-toxin.pdb #112 --- Chain | Description A | No description available > sequence chain #112/A Alignment identifier is 112/A > show #!78 models > log metadata #78 No models had metadata > log chains #78 Chain information for 8adb #78 --- Chain | Description | UniProt A | Wc-VDT1 | D6YWY5_WADCW 279-493 > sequence chain #78/A Alignment identifier is 78/A > hide #!78 models > show #19 models > log metadata #19 The model has no metadata > log chains #19 Chain information for AF-D6YWY5-F1-model_v4.pdb #19 --- Chain | Description | UniProt A | uncharacterized protein | D6YWY5_WADCW 1-494 > sequence chain #19/A Alignment identifier is 19/A > show #!9 models > matchmaker #19 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-D6YWY5-F1-model_v4.pdb, chain A (#19), sequence alignment score = 111.4 RMSD between 37 pruned atom pairs is 1.149 angstroms; (across all 266 pairs: 25.856) > hide #112 models > select #19/A:494 7 atoms, 6 bonds, 1 residue, 1 model selected > select #19/A 3887 atoms, 3974 bonds, 494 residues, 1 model selected > color sel #040e52ff > select #19/A:72-121 397 atoms, 400 bonds, 50 residues, 1 model selected > select #19/A:72-120 389 atoms, 392 bonds, 49 residues, 1 model selected > select #19/A:472 12 atoms, 12 bonds, 1 residue, 1 model selected > select #19/A:472 12 atoms, 12 bonds, 1 residue, 1 model selected > select #19/A:86-88 23 atoms, 23 bonds, 3 residues, 1 model selected > select #19/A:88-275 1508 atoms, 1543 bonds, 188 residues, 1 model selected > color sel purple > select #19/A:308 5 atoms, 4 bonds, 1 residue, 1 model selected > select #19/A:308-494 1451 atoms, 1479 bonds, 187 residues, 1 model selected > color sel purple > select #19/A:25 4 atoms, 3 bonds, 1 residue, 1 model selected > select #19/A:25-80 415 atoms, 423 bonds, 56 residues, 1 model selected > select #19/A:25 4 atoms, 3 bonds, 1 residue, 1 model selected > select #19/A:25-80 415 atoms, 423 bonds, 56 residues, 1 model selected > color sel #929000ff > select add #19 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #19 Nothing selected > hide #19 models > show #109 models > matchmaker #109 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with C7BKP9.ranked_0.pdb, chain A (#109), sequence alignment score = 292.3 RMSD between 75 pruned atom pairs is 1.064 angstroms; (across all 284 pairs: 10.403) > log metadata #109 The model has no metadata > log chains #109 Chain information for C7BKP9.ranked_0.pdb #109 --- Chain | Description A | No description available > sequence chain #109/A Alignment identifier is 109/A > select #109/A:527 14 atoms, 14 bonds, 1 residue, 1 model selected > select #109/A:527-712 2996 atoms, 3017 bonds, 186 residues, 1 model selected > select #109/A:712 15 atoms, 14 bonds, 1 residue, 1 model selected > select #109/A:706-712 113 atoms, 112 bonds, 7 residues, 1 model selected > select #109/A:526 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:1-526 8497 atoms, 8568 bonds, 526 residues, 1 model selected > color sel #040e52ff > select #109/A:526-527 33 atoms, 33 bonds, 2 residues, 1 model selected > select #109/A:527-712 2996 atoms, 3017 bonds, 186 residues, 1 model selected > color sel #945200ff > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > select #109/A:713 14 atoms, 13 bonds, 1 residue, 1 model selected > select #109/A:713-1745 16672 atoms, 16831 bonds, 1033 residues, 1 model selected > color sel #040e52ff > select #109/A:1746 17 atoms, 16 bonds, 1 residue, 1 model selected > select #109/A:1746-2031 4485 atoms, 4530 bonds, 286 residues, 1 model selected > select #109/A:2054-2055 26 atoms, 25 bonds, 2 residues, 1 model selected > select #109/A:2032-2054 351 atoms, 353 bonds, 23 residues, 1 model selected > color sel #040e52ff > select #109/A:2055-2056 40 atoms, 40 bonds, 2 residues, 1 model selected > select #109/A:2055-2394 5465 atoms, 5528 bonds, 340 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2382 5280 atoms, 5340 bonds, 328 residues, 1 model selected > select #109/A:2053 12 atoms, 11 bonds, 1 residue, 1 model selected > select #109/A:2052-2053 36 atoms, 35 bonds, 2 residues, 1 model selected > select #109/A:2382 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2382 5280 atoms, 5340 bonds, 328 residues, 1 model selected > color sel blue > select #109/A:2383-2533 2311 atoms, 2333 bonds, 151 residues, 1 model selected > select #109/A:2383-2675 4554 atoms, 4610 bonds, 293 residues, 1 model selected > select #109/A:2632 20 atoms, 20 bonds, 1 residue, 1 model selected > select #109/A:2632-2732 1559 atoms, 1592 bonds, 101 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2274 3589 atoms, 3634 bonds, 220 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2296 3923 atoms, 3971 bonds, 242 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2288 3804 atoms, 3850 bonds, 234 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2279 3666 atoms, 3711 bonds, 225 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2274 3589 atoms, 3634 bonds, 220 residues, 1 model selected > select #109/A:2057-2107 837 atoms, 849 bonds, 51 residues, 1 model selected > select #109/A:2057-2112 918 atoms, 930 bonds, 56 residues, 1 model selected > select #109/A:2055 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2059 94 atoms, 95 bonds, 5 residues, 1 model selected > select #109/A:2382 19 atoms, 18 bonds, 1 residue, 1 model selected > select #109/A:2055-2382 5280 atoms, 5340 bonds, 328 residues, 1 model selected > select #109/A:2484 12 atoms, 11 bonds, 1 residue, 1 model selected > select #109/A:2383-2484 1535 atoms, 1551 bonds, 102 residues, 1 model selected > select #109/A:2383 7 atoms, 6 bonds, 1 residue, 1 model selected > select #109/A:2383-2484 1535 atoms, 1551 bonds, 102 residues, 1 model selected > color sel #040e52ff > select #109/A:2485 10 atoms, 9 bonds, 1 residue, 1 model selected > select #109/A:2485-2486 24 atoms, 23 bonds, 2 residues, 1 model selected > select #109/A:2646 17 atoms, 17 bonds, 1 residue, 1 model selected > select #109/A:2485-2646 2596 atoms, 2628 bonds, 162 residues, 1 model selected > select #109/A:2647 14 atoms, 13 bonds, 1 residue, 1 model selected > select #109/A:2647-2957 4741 atoms, 4803 bonds, 311 residues, 1 model selected > color sel #040e52ff > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > show #!94 models > hide #109 models > hide #!94 models > show #112 models > hide #112 models > show #112 models > matchmaker #112 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with A0A097A1Q2.1.A Putative RTX-toxin.pdb, chain A (#112), sequence alignment score = 835.5 RMSD between 171 pruned atom pairs is 0.264 angstroms; (across all 171 pairs: 0.264) > hide #112 models > show #!94 models > matchmaker #94 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with GMGC10.017_810_714.ranked_0.pdb, chain A (#94), sequence alignment score = 196.4 RMSD between 49 pruned atom pairs is 0.960 angstroms; (across all 284 pairs: 32.428) > log metadata #94 No models had metadata > log chains #94 Chain information for GMGC10.017_810_714.ranked_0.pdb #94 --- Chain | Description A | No description available > sequence chain #94/A Alignment identifier is 94/A > select #94/A:1531 14 atoms, 13 bonds, 1 residue, 1 model selected > select #94/A:1531-1638 1604 atoms, 1616 bonds, 108 residues, 1 model selected > select #94/A:1531-1532 33 atoms, 32 bonds, 2 residues, 1 model selected > select #94/A:1531-1689 2440 atoms, 2454 bonds, 159 residues, 1 model selected > select #94/A:1531 14 atoms, 13 bonds, 1 residue, 1 model selected > select #94/A:1531-1683 2335 atoms, 2348 bonds, 153 residues, 1 model selected > view matrix models > #94,-0.35268,0.092262,0.93118,19.032,-0.8443,0.39768,-0.35918,87.956,-0.40345,-0.91288,-0.062356,83.392 > select #94/A:1737 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1531-1737 3222 atoms, 3248 bonds, 207 residues, 1 model selected > select #94/A:1521 14 atoms, 13 bonds, 1 residue, 1 model selected > select #94/A:1521-1683 2462 atoms, 2476 bonds, 163 residues, 1 model selected > select #94/A:1421 22 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1421-1683 3914 atoms, 3941 bonds, 263 residues, 1 model selected > select #94/A:1421 22 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1421-1422 36 atoms, 35 bonds, 2 residues, 1 model selected > select #94/A:1421 22 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1421-1429 137 atoms, 136 bonds, 9 residues, 1 model selected > select #94/A:1420 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1418-1420 59 atoms, 59 bonds, 3 residues, 1 model selected > select #94/A:1420 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1401-1420 342 atoms, 347 bonds, 20 residues, 1 model selected > select #94/A:1420 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1398-1420 397 atoms, 402 bonds, 23 residues, 1 model selected > select #94/A:1397 19 atoms, 18 bonds, 1 residue, 1 model selected > select #94/A:1376-1397 362 atoms, 364 bonds, 22 residues, 1 model selected > select #94/A:1421 22 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1421-1448 407 atoms, 408 bonds, 28 residues, 1 model selected > select #94/A:1418-1419 38 atoms, 37 bonds, 2 residues, 1 model selected > select #94/A:1416-1419 68 atoms, 67 bonds, 4 residues, 1 model selected > select #94/A:1683 19 atoms, 18 bonds, 1 residue, 1 model selected > select #94/A:1660-1683 376 atoms, 375 bonds, 24 residues, 1 model selected > select #94/A:1684 15 atoms, 14 bonds, 1 residue, 1 model selected > select #94/A:1684-1700 285 atoms, 286 bonds, 17 residues, 1 model selected > select #94/A:1737 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1421-1737 4801 atoms, 4841 bonds, 317 residues, 1 model selected > color (#!94 & sel) #73fdffff > color (#!94 & sel) #76d6ffff > color (#!94 & sel) #55bef0ff > color (#!94 & sel) #b3d7ffff > select #94/A:1781 11 atoms, 10 bonds, 1 residue, 1 model selected > select #94/A:1780-1781 18 atoms, 17 bonds, 2 residues, 1 model selected > select #94/A:405-406 19 atoms, 18 bonds, 2 residues, 1 model selected > select #94/A:1-406 6407 atoms, 6461 bonds, 406 residues, 1 model selected > select #94/A:513-562 813 atoms, 817 bonds, 50 residues, 1 model selected > select #94/A:513-559 763 atoms, 767 bonds, 47 residues, 1 model selected > select #94/A:354-405 812 atoms, 821 bonds, 52 residues, 1 model selected > select #94/A:1-405 6395 atoms, 6449 bonds, 405 residues, 1 model selected > select #94/A:550 19 atoms, 18 bonds, 1 residue, 1 model selected > select #94/A:550-859 4899 atoms, 4943 bonds, 310 residues, 1 model selected > select #94/A:417-418 39 atoms, 38 bonds, 2 residues, 1 model selected > select #94/A:314-418 1648 atoms, 1672 bonds, 105 residues, 1 model selected > select #94/A:859 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:550-859 4899 atoms, 4943 bonds, 310 residues, 1 model selected > color (#!94 & sel) purple > select #94/A:549 11 atoms, 10 bonds, 1 residue, 1 model selected > select #94/A:406-549 2330 atoms, 2350 bonds, 144 residues, 1 model selected > select #94/A:1420 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:860-1420 8811 atoms, 8882 bonds, 561 residues, 1 model selected > select #94/A:1421-1471 734 atoms, 740 bonds, 51 residues, 1 model selected > select #94/A:1421-1737 4801 atoms, 4841 bonds, 317 residues, 1 model selected > select #94/A:1998 12 atoms, 11 bonds, 1 residue, 1 model selected > select #94/A:1738-1998 4007 atoms, 4048 bonds, 261 residues, 1 model selected > select #94/A:1999 14 atoms, 13 bonds, 1 residue, 1 model selected > select #94/A:1999-2147 2176 atoms, 2188 bonds, 149 residues, 1 model selected > select #94/A:2148 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:2148-2223 1169 atoms, 1184 bonds, 76 residues, 1 model selected > select add #94 34588 atoms, 34892 bonds, 2223 residues, 2 models selected > select subtract #94 1 model selected > hide #!94 models > show #72 models > matchmaker #72 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 126.1 RMSD between 10 pruned atom pairs is 1.365 angstroms; (across all 189 pairs: 18.434) > show #72 models > log metadata #72 The model has no metadata > log chains #72 Chain information for AF-Q327I5-F1-model_v4.pdb #72 --- Chain | Description | UniProt A | OSPD2 | Q327I5_SHIDS 1-572 > log metadata #72 The model has no metadata > log chains #72 Chain information for AF-Q327I5-F1-model_v4.pdb #72 --- Chain | Description | UniProt A | OSPD2 | Q327I5_SHIDS 1-572 > sequence chain #72/A Alignment identifier is 72/A > select #72/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #72/A:1-250 2039 atoms, 2085 bonds, 250 residues, 1 model selected > ui tool show Matchmaker > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 34.4 RMSD between 23 pruned atom pairs is 1.153 angstroms; (across all 229 pairs: 19.731) > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 34.4 RMSD between 23 pruned atom pairs is 1.153 angstroms; (across all 229 pairs: 19.731) > select #72/A:258 6 atoms, 5 bonds, 1 residue, 1 model selected > select #72/A:258-261 32 atoms, 31 bonds, 4 residues, 1 model selected > select add #72 4592 atoms, 4687 bonds, 572 residues, 1 model selected > select subtract #72 Nothing selected > hide #72 models > show #46 models > sym #46 3gqj mmCIF Assemblies --- 1| author_defined_assembly| 1 copy of chain A 2| software_defined_assembly| 2 copies of chain A > log metadata #46 The model has no metadata > log chains #46 Chain information for 3gqj #46 --- Chain | Description | UniProt A | Cell Inhibiting Factor (Cif) | Q7N439_PHOLL 48-308 > sequence chain #46/A Alignment identifier is 46/A > hide #46 models > show #103 models > matchmaker #103 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q7N439-F1-model_v4.pdb, chain A (#103), sequence alignment score = 91.8 RMSD between 9 pruned atom pairs is 1.075 angstroms; (across all 201 pairs: 21.871) > hide #103 models > show #103 models > hide #!9 models > show #46 models > matchmaker #46 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with 3gqj, chain A (#46), sequence alignment score = 81.1 RMSD between 13 pruned atom pairs is 1.488 angstroms; (across all 192 pairs: 19.974) > hide #46 models > show #!9 models > hide #!9 models > show #!9 models > log metadata #103 The model has no metadata > log chains #103 Chain information for AF-Q7N439-F1-model_v4.pdb #103 --- Chain | Description | UniProt A | protein-glutamine deamidase cif | CIF_PHOLL 1-313 > sequence chain #103/A Alignment identifier is 103/A > select #103/A:58-59 15 atoms, 14 bonds, 2 residues, 1 model selected > select #103/A:58-313 2045 atoms, 2078 bonds, 256 residues, 1 model selected > select #103/A:57 8 atoms, 7 bonds, 1 residue, 1 model selected > select #103/A:1-57 436 atoms, 439 bonds, 57 residues, 1 model selected > select add #103 2481 atoms, 2518 bonds, 313 residues, 1 model selected > select subtract #103 Nothing selected > hide #103 models > show #101 models > matchmaker #101 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_231937687.1.ranked_0.pdb, chain A (#101), sequence alignment score = 205.8 RMSD between 73 pruned atom pairs is 0.941 angstroms; (across all 296 pairs: 20.392) > log metadata #101 The model has no metadata > log chains #101 Chain information for WP_231937687.1.ranked_0.pdb #101 --- Chain | Description A | No description available > sequence chain #101/A Alignment identifier is 101/A > select #101/A:524 24 atoms, 25 bonds, 1 residue, 1 model selected > select #101/A:524-726 3245 atoms, 3281 bonds, 203 residues, 1 model selected > select #101/A:1146 22 atoms, 21 bonds, 1 residue, 1 model selected > select #101/A:1146-1148 50 atoms, 49 bonds, 3 residues, 1 model selected > select #101/A:1146 22 atoms, 21 bonds, 1 residue, 1 model selected > select #101/A:1146-1744 9443 atoms, 9540 bonds, 599 residues, 1 model selected > select add #101 27933 atoms, 28182 bonds, 1744 residues, 1 model selected > select subtract #101 Nothing selected > hide #101 models > show #52 models > log metadata #52 The model has no metadata > log chains #52 Chain information for MGYP000706081912.pdb #52 --- Chain | Description A | No description available > sequence chain #52/A Alignment identifier is 52/A > select #52/A:360 9 atoms, 8 bonds, 1 residue, 1 model selected > select #52/A:1-360 2963 atoms, 3015 bonds, 360 residues, 1 model selected > matchmaker #52 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP000706081912.pdb, chain A (#52), sequence alignment score = 226.2 RMSD between 57 pruned atom pairs is 0.989 angstroms; (across all 293 pairs: 30.191) > select #52/A:361-362 17 atoms, 16 bonds, 2 residues, 1 model selected > select #52/A:361-482 1002 atoms, 1024 bonds, 122 residues, 1 model selected > select add #52 3965 atoms, 4040 bonds, 482 residues, 1 model selected > select subtract #52 Nothing selected > hide #52 models > show #75 models > matchmaker #75 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A0K0E9U3-F1-model_v4.pdb, chain A (#75), sequence alignment score = 79 RMSD between 27 pruned atom pairs is 1.278 angstroms; (across all 165 pairs: 19.308) > log metadata #75 The model has no metadata > log chains #75 Chain information for AF-A0A0K0E9U3-F1-model_v4.pdb #75 --- Chain | Description A | ubiquitinyl hydrolase 1 > sequence chain #75/A Alignment identifier is 75/A > select #75/A:171-172 17 atoms, 17 bonds, 2 residues, 1 model selected > select #75/A:171-252 649 atoms, 656 bonds, 82 residues, 1 model selected > color sel #040e52ff > select add #75 2008 atoms, 2043 bonds, 252 residues, 1 model selected > select subtract #75 Nothing selected > select #75/A:163 6 atoms, 5 bonds, 1 residue, 1 model selected > select #75/A:1-163 1308 atoms, 1335 bonds, 163 residues, 1 model selected > select add #75 2008 atoms, 2043 bonds, 252 residues, 1 model selected > select subtract #75 Nothing selected > hide #75 models > show #71 models > log metadata #71 The model has no metadata > log chains #71 Chain information for AF-Q327D9-F1-model_v4.pdb #71 --- Chain | Description | UniProt A | OSPD3 | Q327D9_SHIDS 1-549 > sequence chain #71/A Alignment identifier is 71/A > select #71/A:214-216 27 atoms, 26 bonds, 3 residues, 1 model selected > select #71/A:1-216 1755 atoms, 1796 bonds, 216 residues, 1 model selected > ui tool show Matchmaker > matchmaker #71 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327D9-F1-model_v4.pdb, chain A (#71), sequence alignment score = 95.1 RMSD between 27 pruned atom pairs is 1.084 angstroms; (across all 175 pairs: 18.329) > matchmaker #71 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327D9-F1-model_v4.pdb, chain A (#71), sequence alignment score = 95.1 RMSD between 27 pruned atom pairs is 1.084 angstroms; (across all 175 pairs: 18.329) > select add #71 4321 atoms, 4400 bonds, 549 residues, 1 model selected > select subtract #71 Nothing selected > hide #71 models > show #!94 models > log metadata #94 No models had metadata > log chains #94 Chain information for GMGC10.017_810_714.ranked_0.pdb #94 --- Chain | Description A | No description available > matchmaker #94 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with GMGC10.017_810_714.ranked_0.pdb, chain A (#94), sequence alignment score = 196.4 RMSD between 49 pruned atom pairs is 0.960 angstroms; (across all 284 pairs: 32.428) > sequence chain #94/A Alignment identifier is 94/A > select #94/A:404-405 22 atoms, 21 bonds, 2 residues, 1 model selected > select #94/A:1-405 6395 atoms, 6449 bonds, 405 residues, 1 model selected > hide #!9 models > select #94/A:550 19 atoms, 18 bonds, 1 residue, 1 model selected > select #94/A:406-550 2349 atoms, 2369 bonds, 145 residues, 1 model selected > select #94/A:520 16 atoms, 15 bonds, 1 residue, 1 model selected > select #94/A:520 16 atoms, 15 bonds, 1 residue, 1 model selected > select > #94/A:13-33,38-45,49-62,66-82,92-144,154-164,166-168,172-182,188-200,209-222,242-270,281-290,299-308,353-365,380-382,388-393,415-420,423-433,486-506,516-518,537-539,545-547,550-565,576-585,595-602,605-624,628-630,633-660,679-699,702-721,726-742,809-824,831-833,852-859,866-873,885-890,902-907,911-914,919-927,934-947,963-977,988-1000,1002-1008,1018-1034,1041-1056,1058-1060,1068-1081,1089-1102,1113-1129,1133-1160,1169-1197,1202-1215,1220-1247,1275-1297,1306-1314,1317-1319,1330-1336,1343-1354,1361-1369,1400-1405,1410-1412,1417-1419,1510-1515,1655-1657,1739-1742,1838-1840,1853-1860,1863-1865,1868-1879,1917-1919,2122-2124,2150-2152,2155-2161,2173-2184 13898 atoms, 13930 bonds, 857 residues, 1 model selected > select #94/A:549 11 atoms, 10 bonds, 1 residue, 1 model selected > select #94/A:434-549 1872 atoms, 1888 bonds, 116 residues, 1 model selected > select #94/A:406-549 2330 atoms, 2350 bonds, 144 residues, 1 model selected > select #94/A:859 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:550-859 4899 atoms, 4943 bonds, 310 residues, 1 model selected > select #94/A:1420 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:860-1420 8811 atoms, 8882 bonds, 561 residues, 1 model selected > select #94/A:1737 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:1421-1737 4801 atoms, 4841 bonds, 317 residues, 1 model selected > select #94/A:1998 12 atoms, 11 bonds, 1 residue, 1 model selected > select #94/A:1738-1998 4007 atoms, 4048 bonds, 261 residues, 1 model selected > select #94/A:1999-2000 33 atoms, 32 bonds, 2 residues, 1 model selected > select #94/A:1999-2223 3345 atoms, 3373 bonds, 225 residues, 1 model selected > select #94/A:1999 14 atoms, 13 bonds, 1 residue, 1 model selected > select #94/A:1999-2147 2176 atoms, 2188 bonds, 149 residues, 1 model selected > select #94/A:2148 21 atoms, 21 bonds, 1 residue, 1 model selected > select #94/A:2148-2223 1169 atoms, 1184 bonds, 76 residues, 1 model selected > select add #94 34588 atoms, 34892 bonds, 2223 residues, 2 models selected > select subtract #94 1 model selected > hide #!94 models > show #8 models > log metadata #8 The model has no metadata > log chains #8 Chain information for AF-Q60XN1-F1-model_v4.pdb #8 --- Chain | Description | UniProt A | ataxin-3 homolog | ATX3_CAEBR 1-319 > sequence chain #8/A Alignment identifier is 8/A > show #!9 models > matchmaker #8 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q60XN1-F1-model_v4.pdb, chain A (#8), sequence alignment score = 85.4 RMSD between 5 pruned atom pairs is 1.161 angstroms; (across all 217 pairs: 34.528) > hide #8 models > show #8 models > matchmaker #1 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with 6ii0.cropped.06.25.23.pdb, chain B (#1), sequence alignment score = 1498.3 RMSD between 212 pruned atom pairs is 0.553 angstroms; (across all 223 pairs: 1.561) > matchmaker #8 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with AF-Q60XN1-F1-model_v4.pdb, chain A (#8), sequence alignment score = 63.8 RMSD between 13 pruned atom pairs is 0.566 angstroms; (across all 192 pairs: 39.787) > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > select #8/A:179 8 atoms, 7 bonds, 1 residue, 1 model selected > select #8/A:1-179 1446 atoms, 1477 bonds, 179 residues, 1 model selected > select #8/A:188 8 atoms, 7 bonds, 1 residue, 1 model selected > select #8/A:188-190 27 atoms, 27 bonds, 3 residues, 1 model selected > select #8/A:188 8 atoms, 7 bonds, 1 residue, 1 model selected > select #8/A:188-208 179 atoms, 182 bonds, 21 residues, 1 model selected > select #8/A:205-206 15 atoms, 14 bonds, 2 residues, 1 model selected > select #8/A:205-207 26 atoms, 25 bonds, 3 residues, 1 model selected > select #8/A:207 11 atoms, 10 bonds, 1 residue, 1 model selected > select #8/A:196-207 102 atoms, 103 bonds, 12 residues, 1 model selected > select #8/A:243 8 atoms, 7 bonds, 1 residue, 1 model selected > select #8/A:243-254 92 atoms, 91 bonds, 12 residues, 1 model selected > select #8/A:231 8 atoms, 7 bonds, 1 residue, 1 model selected > select #8/A:223-231 61 atoms, 60 bonds, 9 residues, 1 model selected > select #8/A:221 11 atoms, 10 bonds, 1 residue, 1 model selected > select #8/A:221 11 atoms, 10 bonds, 1 residue, 1 model selected > select #8/A:221 11 atoms, 10 bonds, 1 residue, 1 model selected > select #8/A:221-232 89 atoms, 88 bonds, 12 residues, 1 model selected > select #8/A:293 5 atoms, 4 bonds, 1 residue, 1 model selected > select #8/A:293-316 207 atoms, 207 bonds, 24 residues, 1 model selected > select #8/A:89-92,110-114,119-125,128-132,140-142,160-165 268 atoms, 271 bonds, 30 residues, 1 model selected > select #8/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #8/A:1-179 1446 atoms, 1477 bonds, 179 residues, 1 model selected > ui tool show Matchmaker > matchmaker #8 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q60XN1-F1-model_v4.pdb, chain A (#8), sequence alignment score = 61.9 RMSD between 6 pruned atom pairs is 0.950 angstroms; (across all 153 pairs: 26.130) > matchmaker #8 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q60XN1-F1-model_v4.pdb, chain A (#8), sequence alignment score = 61.9 RMSD between 6 pruned atom pairs is 0.950 angstroms; (across all 153 pairs: 26.130) > select add #8 2517 atoms, 2565 bonds, 319 residues, 1 model selected > select subtract #8 Nothing selected > hide #!9 models > show #1 models > hide #8 models > show #!9 models > hide #!9 models > show #8 models > hide #8 models > show #8 models > hide #8 models > show #8 models > hide #8 models > show #8 models > hide #1 models > show #1 models > hide #8 models > show #8 models > hide #1 models > show #1 models > select add #8 2517 atoms, 2565 bonds, 319 residues, 1 model selected > view matrix models > #8,-0.25102,-0.52287,-0.81461,-3.9588,-0.96789,0.12376,0.21882,73.446,-0.0136,0.84338,-0.53714,71.947 > view matrix models > #8,-0.25102,-0.52287,-0.81461,4.6156,-0.96789,0.12376,0.21882,49.504,-0.0136,0.84338,-0.53714,62.421 > view matrix models > #8,-0.25102,-0.52287,-0.81461,40.206,-0.96789,0.12376,0.21882,92.988,-0.0136,0.84338,-0.53714,75.666 > view matrix models > #8,-0.25102,-0.52287,-0.81461,41.642,-0.96789,0.12376,0.21882,94.077,-0.0136,0.84338,-0.53714,76.323 > ui mousemode right rotate > ui mousemode right ""rotate selected models"" > view matrix models > #8,0.99821,0.034809,-0.048623,66.586,0.035089,0.31745,0.94762,117.22,0.048421,-0.94763,0.31566,99.863 > view matrix models > #8,0.99339,-0.09014,0.07114,68.419,-0.046511,0.25058,0.96698,116.31,-0.10499,-0.96389,0.24473,96.45 > view matrix models > #8,0.99542,0.010348,0.09507,67.658,-0.095363,0.18192,0.97868,116.04,-0.007168,-0.98326,0.18207,98.234 > view matrix models > #8,-0.64407,-0.65726,-0.39139,37.553,-0.71229,0.70186,-0.0064905,92.403,0.27897,0.2746,-0.9202,85.272 > view matrix models > #8,-0.60155,-0.29358,-0.74293,32.782,-0.42497,0.90511,-0.013568,96.286,0.67642,0.30756,-0.66923,94.621 > view matrix models > #8,0.48565,-0.73646,0.47092,66.693,-0.62741,0.081455,0.77442,104.88,-0.60869,-0.67156,-0.4225,79.259 > view matrix models > #8,-0.60353,-0.59059,-0.53568,36.847,-0.68804,0.72526,-0.024424,92.563,0.40293,0.35383,-0.84407,87.522 > view matrix models > #8,0.74809,-0.45538,0.48269,69.45,-0.54575,-0.0083843,0.83791,107.79,-0.37752,-0.89026,-0.25479,87.084 > view matrix models > #8,0.97723,0.10994,0.18147,66.885,-0.19053,0.078401,0.97855,115.08,0.093351,-0.99084,0.097562,99.825 > ui mousemode right ""translate selected models"" > view matrix models > #8,0.97723,0.10994,0.18147,12.749,-0.19053,0.078401,0.97855,82.546,0.093351,-0.99084,0.097562,72.849 > view matrix models > #8,0.97723,0.10994,0.18147,12.847,-0.19053,0.078401,0.97855,83.249,0.093351,-0.99084,0.097562,72.686 > view matrix models > #8,0.97723,0.10994,0.18147,2.0631,-0.19053,0.078401,0.97855,88.77,0.093351,-0.99084,0.097562,86.819 > select subtract #8 Nothing selected > hide #8 models > show #8 models > hide #8 models > show #69 models > matchmaker #69to #9 Missing or invalid ""matchAtoms"" argument: only initial part ""#69"" of atom specifier valid > matchmaker #69 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q9F3T4-F1-model_v4.pdb, chain A (#69), sequence alignment score = 99.5 RMSD between 15 pruned atom pairs is 1.383 angstroms; (across all 244 pairs: 24.018) > log metadata #69 The model has no metadata > log chains #69 Chain information for AF-Q9F3T4-F1-model_v4.pdb #69 --- Chain | Description | UniProt A | probable cysteine protease avirulence protein AVRPPIC2 | AVRP2_PSESJ 1-269 > sequence chain #69/A Alignment identifier is 69/A > hide #69 models > show #24 models > log metadata #24 The model has no metadata > log chains #24 Chain information for AF-C4K468-F1-model_v4.pdb #24 --- Chain | Description | UniProt A | putative autotransporter adhesin | C4K468_HAMD5 1-818 > sequence chain #24/A Alignment identifier is 24/A > matchmaker #24 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K468-F1-model_v4.pdb, chain A (#24), sequence alignment score = 183.8 RMSD between 56 pruned atom pairs is 1.189 angstroms; (across all 304 pairs: 14.130) > ui mousemode right select Drag select of 486 residues > select add #24 8372 atoms, 6889 bonds, 1034 residues, 2 models selected > select subtract #24 1624 atoms, 216 residues, 1 model selected > select add #1 2049 atoms, 1716 bonds, 587 residues, 1 model selected > select subtract #1 Nothing selected > hide #1 models > show #!9 models > hide #!9 models > select #24/A:688 8 atoms, 7 bonds, 1 residue, 1 model selected > select #24/A:688-800 910 atoms, 922 bonds, 113 residues, 1 model selected > select #24/A:687 6 atoms, 5 bonds, 1 residue, 1 model selected > select #24/A:359-687 2737 atoms, 2792 bonds, 329 residues, 1 model selected > select clear > ui mousemode right ""translate selected models"" > select #24/A:359 11 atoms, 10 bonds, 1 residue, 1 model selected > select #24/A:359-687 2737 atoms, 2792 bonds, 329 residues, 1 model selected > color sel purple > select add #24 6748 atoms, 6889 bonds, 818 residues, 1 model selected > select subtract #24 Nothing selected > select #24/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #24/A:1-246 2026 atoms, 2073 bonds, 246 residues, 1 model selected > ui tool show Matchmaker > matchmaker #24 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K468-F1-model_v4.pdb, chain A (#24), sequence alignment score = 189.7 RMSD between 56 pruned atom pairs is 1.042 angstroms; (across all 223 pairs: 20.806) > select add #24 6748 atoms, 6889 bonds, 818 residues, 1 model selected > show #!9 models > select subtract #24 Nothing selected > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #1 models > hide #1 models > show #1 models > hide #1 models > show #1 models > hide #1 models > show #1 models > hide #1 models > show #1 models > hide #1 models > show #!9 models > select #24/A:242-297 455 atoms, 464 bonds, 56 residues, 1 model selected > select #24/A:242-297 455 atoms, 464 bonds, 56 residues, 1 model selected > select #24/A:17 5 atoms, 4 bonds, 1 residue, 1 model selected > select #24/A:17-19 19 atoms, 18 bonds, 3 residues, 1 model selected > sym #9 6ii6 mmCIF Assemblies --- 1| author_and_software_defined_assembly| 1 copy of chains A,C 2| author_and_software_defined_assembly| 1 copy of chains B,D > log metadata #9 No models had metadata > log chains #9 Chain information for 6ii6 #9 --- Chain | Description A | Putative RTX-toxin > sequence chain #9/A Alignment identifier is 9/A > select #9/A:3482 8 atoms, 7 bonds, 1 residue, 1 model selected > select #9/A:3482 8 atoms, 7 bonds, 1 residue, 1 model selected > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > select subtract #9 Nothing selected > matchmaker #24 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K468-F1-model_v4.pdb, chain A (#24), sequence alignment score = 183.8 RMSD between 56 pruned atom pairs is 1.189 angstroms; (across all 304 pairs: 14.130) > select #24/A:515 11 atoms, 10 bonds, 1 residue, 1 model selected > select #24/A:515-517 26 atoms, 25 bonds, 3 residues, 1 model selected > select #24/A:502 7 atoms, 6 bonds, 1 residue, 1 model selected > select #24/A:502-504 19 atoms, 18 bonds, 3 residues, 1 model selected > select #24/A:500 6 atoms, 5 bonds, 1 residue, 1 model selected > select #24/A:500-502 21 atoms, 20 bonds, 3 residues, 1 model selected > select #24/A:497 5 atoms, 4 bonds, 1 residue, 1 model selected > select #24/A:497-499 25 atoms, 25 bonds, 3 residues, 1 model selected > select #24/A:499 8 atoms, 7 bonds, 1 residue, 1 model selected > select #24/A:499-501 22 atoms, 21 bonds, 3 residues, 1 model selected > select #9/A:3482 8 atoms, 7 bonds, 1 residue, 1 model selected > select #9/A:3482 8 atoms, 7 bonds, 1 residue, 1 model selected > color sel yellow > select clear > hide #24 models > show #21 models > log metadata #21 The model has no metadata > log chains #21 Chain information for AF-A0A4V0NNU7-F1-model_v4.pdb #21 --- Chain | Description A | peptidase_C58 domain-containing protein > sequence chain #21/A Alignment identifier is 21/A > matchmaker #21 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4V0NNU7-F1-model_v4.pdb, chain A (#21), sequence alignment score = 208.3 RMSD between 54 pruned atom pairs is 0.914 angstroms; (across all 285 pairs: 23.672) > hide #21 models > show #20 models > matchmaker #20 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4V0NNP3-F1-model_v4.pdb, chain A (#20), sequence alignment score = 167.5 RMSD between 54 pruned atom pairs is 0.979 angstroms; (across all 290 pairs: 24.128) > show #98 models > hide #20 models > matchmaker #98 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_095034161.1.ranked_0.pdb, chain A (#98), sequence alignment score = 189.7 RMSD between 60 pruned atom pairs is 1.387 angstroms; (across all 312 pairs: 13.944) > log metadata #98 The model has no metadata > log chains #98 Chain information for WP_095034161.1.ranked_0.pdb #98 --- Chain | Description A | No description available > sequence chain #98/A Alignment identifier is 98/A > select #98/A:555 24 atoms, 23 bonds, 1 residue, 1 model selected > select #98/A:555-557 46 atoms, 45 bonds, 3 residues, 1 model selected > hide #!9 models > show #!9 models > hide #!9 models > select #98/A:417 19 atoms, 18 bonds, 1 residue, 1 model selected > select #98/A:417-774 5818 atoms, 5888 bonds, 358 residues, 1 model selected > show #!9 models > color sel purple > select #98/A:416 14 atoms, 13 bonds, 1 residue, 1 model selected > select #98/A:1-416 6947 atoms, 7030 bonds, 416 residues, 1 model selected > ui tool show Matchmaker > matchmaker #98 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_095034161.1.ranked_0.pdb, chain A (#98), sequence alignment score = 157.2 RMSD between 52 pruned atom pairs is 0.820 angstroms; (across all 263 pairs: 23.967) > matchmaker #98 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_095034161.1.ranked_0.pdb, chain A (#98), sequence alignment score = 157.2 RMSD between 52 pruned atom pairs is 0.820 angstroms; (across all 263 pairs: 23.967) > select add #98 12765 atoms, 12919 bonds, 774 residues, 1 model selected > select subtract #98 Nothing selected > hide #98 models > show #18 models > log metadata #18 The model has no metadata > log chains #18 Chain information for AF-A0A4P2SM79-F1-model_v4.pdb #18 --- Chain | Description A | peptidase_C58 domain-containing protein > sequence chain #18/A Alignment identifier is 18/A > matchmaker #18 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4P2SM79-F1-model_v4.pdb, chain A (#18), sequence alignment score = 204.4 RMSD between 54 pruned atom pairs is 1.295 angstroms; (across all 314 pairs: 14.398) > select #18/A:415-416 15 atoms, 14 bonds, 2 residues, 1 model selected > select #18/A:1-416 3498 atoms, 3581 bonds, 416 residues, 1 model selected > ui tool show Matchmaker > matchmaker #18 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4P2SM79-F1-model_v4.pdb, chain A (#18), sequence alignment score = 175 RMSD between 51 pruned atom pairs is 0.849 angstroms; (across all 283 pairs: 24.132) > matchmaker #18 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4P2SM79-F1-model_v4.pdb, chain A (#18), sequence alignment score = 175 RMSD between 51 pruned atom pairs is 0.849 angstroms; (across all 283 pairs: 24.132) > select add #18 6435 atoms, 6589 bonds, 774 residues, 1 model selected > select subtract #18 Nothing selected > hide #18 models > show #100 models > log metadata #100 The model has no metadata > log chains #100 Chain information for WP_148121377.1.ranked_0.pdb #100 --- Chain | Description A | No description available > sequence chain #100/A Alignment identifier is 100/A > matchmaker #100 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_148121377.1.ranked_0.pdb, chain A (#100), sequence alignment score = 196.6 RMSD between 63 pruned atom pairs is 1.204 angstroms; (across all 298 pairs: 14.062) > select #100/A:1367-1422 865 atoms, 872 bonds, 56 residues, 1 model selected > select #100/A:1367-1953 9141 atoms, 9226 bonds, 587 residues, 1 model selected > select add #100 31107 atoms, 31455 bonds, 1953 residues, 1 model selected > select subtract #100 Nothing selected > hide #100 models > show #93 models > matchmaker #93 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 190.5 RMSD between 59 pruned atom pairs is 1.280 angstroms; (across all 299 pairs: 13.592) > log metadata #93 The model has no metadata > log chains #93 Chain information for C4K5K2.ranked_0.pdb #93 --- Chain | Description A | No description available > sequence chain #93/A Alignment identifier is 93/A > select #93/A:294 11 atoms, 10 bonds, 1 residue, 1 model selected > select #93/A:1-294 4887 atoms, 4952 bonds, 294 residues, 1 model selected > select #93/A:742 7 atoms, 6 bonds, 1 residue, 1 model selected > select #93/A:416-742 5313 atoms, 5373 bonds, 327 residues, 1 model selected > select #93/A:1243 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:1243-1917 10482 atoms, 10583 bonds, 675 residues, 1 model selected > select #93/A:1243 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:1243-1910 10354 atoms, 10453 bonds, 668 residues, 1 model selected > select #93/A:1243 19 atoms, 18 bonds, 1 residue, 1 model selected > select #93/A:1243-1901 10228 atoms, 10326 bonds, 659 residues, 1 model selected > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > hide #93 models > show #23 models > log metadata #23 The model has no metadata > log chains #23 Chain information for AF-C4K3P9-F1-model_v4.pdb #23 --- Chain | Description | UniProt A | putative RTX-family protein-1 | C4K3P9_HAMD5 1-1196 > sequence chain #23/A Alignment identifier is 23/A > matchmaker #23 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K3P9-F1-model_v4.pdb, chain A (#23), sequence alignment score = 183.4 RMSD between 61 pruned atom pairs is 1.222 angstroms; (across all 303 pairs: 14.576) > hide #23 models > show #100 models > hide #100 models > show #93 models > hide #93 models > show #23 models > hide #!9 models > ui mousemode right select Drag select of 362 residues > select #23/A:478-479 21 atoms, 21 bonds, 2 residues, 1 model selected > select #23/A:478-812 2760 atoms, 2827 bonds, 335 residues, 1 model selected > select #23/A:478 9 atoms, 8 bonds, 1 residue, 1 model selected > select #23/A:478-485 63 atoms, 63 bonds, 8 residues, 1 model selected > show #!9 models > select #23/A:767 9 atoms, 8 bonds, 1 residue, 1 model selected > select #23/A:431-767 2777 atoms, 2843 bonds, 337 residues, 1 model selected > color sel purple > select #23/A:307-308 13 atoms, 12 bonds, 2 residues, 1 model selected > select #23/A:1-308 2566 atoms, 2635 bonds, 308 residues, 1 model selected > ui tool show Matchmaker > matchmaker #23 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K3P9-F1-model_v4.pdb, chain A (#23), sequence alignment score = 163.6 RMSD between 53 pruned atom pairs is 0.972 angstroms; (across all 257 pairs: 25.421) > hide #!9 models > select add #23 9794 atoms, 10025 bonds, 1196 residues, 1 model selected > select subtract #23 Nothing selected > log metadata #24 The model has no metadata > log chains #24 Chain information for AF-C4K468-F1-model_v4.pdb #24 --- Chain | Description | UniProt A | putative autotransporter adhesin | C4K468_HAMD5 1-818 > sequence chain #24/A Alignment identifier is 24/A > log metadata #98 The model has no metadata > log chains #98 Chain information for WP_095034161.1.ranked_0.pdb #98 --- Chain | Description A | No description available > sequence chain #98/A Alignment identifier is 98/A > show #!9 models > hide #23 models > show #106 models > show #107 models > hide #107 models > hide #106 models > show #106 models > hide #106 models > show #107 models > hide #107 models > show #108 models > hide #108 models > show #106 models > hide #106 models > show #108 models > hide #108 models > show #106 models > show #107 models > show #108 models > hide #106 models > hide #107 models > hide #108 models > show #106 models > show #107 models > hide #107 models > hide #106 models > show #106 models > hide #106 models > show #107 models > hide #107 models > show #108 models > hide #108 models > show #91 models > log metadata #91 The model has no metadata > log chains #91 Chain information for A0A4P2SNJ1.longerNterm.ranked_0.pdb #91 --- Chain | Description A | No description available > sequence chain #91/A Alignment identifier is 91/A > hide #91 models > show #91 models > hide #91 models > show #17 models > log metadata #17 The model has no metadata > log chains #17 Chain information for AF-A0A2D3T3R8-F1-model_v4.pdb #17 --- Chain | Description A | uncharacterized protein > sequence chain #17/A Alignment identifier is 17/A > matchmaker #17 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2D3T3R8-F1-model_v4.pdb, chain A (#17), sequence alignment score = 161.4 RMSD between 53 pruned atom pairs is 0.936 angstroms; (across all 297 pairs: 21.092) > hide #17 models > show #25 models > log metadata #25 The model has no metadata > log chains #25 Chain information for AF-C4K5L0-F1-model_v4.pdb #25 --- Chain | Description | UniProt A | putative RTX-family protein-15 | C4K5L0_HAMD5 1-555 > matchmaker #25 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K5L0-F1-model_v4.pdb, chain A (#25), sequence alignment score = 202.4 RMSD between 71 pruned atom pairs is 0.846 angstroms; (across all 300 pairs: 16.095) > log metadata #25 The model has no metadata > log chains #25 Chain information for AF-C4K5L0-F1-model_v4.pdb #25 --- Chain | Description | UniProt A | putative RTX-family protein-15 | C4K5L0_HAMD5 1-555 > sequence chain #25/A Alignment identifier is 25/A > hide #25 models > show #99 models > log metadata #99 The model has no metadata > log chains #99 Chain information for WP_095034189.1.ranked_0.pdb #99 --- Chain | Description A | No description available > sequence chain #99/A Alignment identifier is 99/A > matchmaker #99 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_095034189.1.ranked_0.pdb, chain A (#99), sequence alignment score = 201 RMSD between 46 pruned atom pairs is 0.814 angstroms; (across all 293 pairs: 22.670) > select #99/A:348-349 27 atoms, 26 bonds, 2 residues, 1 model selected > select #99/A:349-502 2491 atoms, 2510 bonds, 154 residues, 1 model selected > color sel #73fa79ff > color sel #7bf78bff > color sel #b3f7acff > color sel #b4f78fff > color sel #d1f7b1ff > color sel #c6f78dff > color sel #abf789ff > color sel #bff7b8ff > color sel #b1f798ff > color sel #aef77eff > color sel #5bf7abff > color sel #c9f7cfff > color sel #dcf4f7ff > color sel #cbf7e2ff > color sel #a1f7cbff > color sel #93f7a8ff > color sel #92f7a7ff > color sel #b2f7c9ff > color sel #aaf7a6ff > color sel #dcf79fff > color sel #d0f7b0ff > color sel #b8db9cff > color sel #c2e6a4ff > select add #99 8782 atoms, 8876 bonds, 543 residues, 1 model selected > select subtract #99 Nothing selected > select #99/A:349 15 atoms, 14 bonds, 1 residue, 1 model selected > select #99/A:349-502 2491 atoms, 2510 bonds, 154 residues, 1 model selected > color sel #c1e6a4ff > color sel #c0e4a3ff > color sel #bee1a1ff > color sel #bbde9eff > color sel #badd9eff > select add #99 8782 atoms, 8876 bonds, 543 residues, 1 model selected > select subtract #99 Nothing selected > hide #99 models > show #!78 models > hide #!78 models > show #89 models > matchmaker #89 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-D6YWY5-F1-model_v4.pdb, chain A (#89), sequence alignment score = 111.4 RMSD between 37 pruned atom pairs is 1.149 angstroms; (across all 266 pairs: 25.856) > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > log metadata #89 The model has no metadata > log chains #89 Chain information for AF-D6YWY5-F1-model_v4.pdb #89 --- Chain | Description | UniProt A | uncharacterized protein | D6YWY5_WADCW 1-494 > sequence chain #89/A Alignment identifier is 89/A > select #89/A:111 9 atoms, 8 bonds, 1 residue, 1 model selected > select #89/A:111-116 38 atoms, 37 bonds, 6 residues, 1 model selected > select add #89 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #89 Nothing selected > ui mousemode right select Drag select of 201 residues > select #89/A:282 9 atoms, 8 bonds, 1 residue, 1 model selected > select #89/A:282-494 1660 atoms, 1691 bonds, 213 residues, 1 model selected > ui tool show Matchmaker > matchmaker #89 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-D6YWY5-F1-model_v4.pdb, chain A (#89), sequence alignment score = 119.4 RMSD between 32 pruned atom pairs is 1.387 angstroms; (across all 165 pairs: 11.925) > matchmaker #89 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-D6YWY5-F1-model_v4.pdb, chain A (#89), sequence alignment score = 119.4 RMSD between 32 pruned atom pairs is 1.387 angstroms; (across all 165 pairs: 11.925) > select add #89 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #89 Nothing selected > select #89/A:171 4 atoms, 3 bonds, 1 residue, 1 model selected > select #89/A:116-171 460 atoms, 468 bonds, 56 residues, 1 model selected > select add #89 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #89 Nothing selected > hide #89 models > show #89 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models Drag select of 178 residues > matchmaker #89 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-D6YWY5-F1-model_v4.pdb, chain A (#89), sequence alignment score = 111.4 RMSD between 37 pruned atom pairs is 1.149 angstroms; (across all 266 pairs: 25.856) > show #!9 models > select add #89 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #89 Nothing selected > hide #89 models > show #89 models > hide #!9 models > select clear > ui mousemode right ""translate selected models"" > ui mousemode right select Drag select of 189 residues > select #89/A:28 6 atoms, 5 bonds, 1 residue, 1 model selected > select #89/A:28 6 atoms, 5 bonds, 1 residue, 1 model selected > select #89/A:88 9 atoms, 8 bonds, 1 residue, 1 model selected > select #89/A:88-275 1508 atoms, 1543 bonds, 188 residues, 1 model selected > select #89/A:276-277 16 atoms, 15 bonds, 2 residues, 1 model selected > select #89/A:276-494 1708 atoms, 1740 bonds, 219 residues, 1 model selected > color sel #040e52ff > select #89/A:25-27 29 atoms, 31 bonds, 3 residues, 1 model selected > select #89/A:25-90 492 atoms, 502 bonds, 66 residues, 1 model selected > select #89/A:25 4 atoms, 3 bonds, 1 residue, 1 model selected > select #89/A:25-80 415 atoms, 423 bonds, 56 residues, 1 model selected > color sel #445215ff > color sel #4b5b17ff > color sel #4c5c18ff > color sel #4d5e18ff > color sel #596c1cff > color sel #6d8422ff > color sel #7d9827ff > color sel #8aa82bff > color sel #8caa2cff > color sel #8cab2cff > color sel #8ba92cff > color sel #85a22aff > color sel #809c28ff > color sel #7e9928ff > color sel #7e9a28ff > color sel #849a10ff > color sel #7e9a05ff > color sel #7f9a05ff > color sel #7f9b06ff > color sel #819d06ff > color sel #829f06ff > color sel #84a006ff > color sel #85a206ff > color sel #86a306ff > color sel #89a706ff > color sel #8baa06ff > color sel #8ead06ff > color sel #90af06ff > color sel #91b006ff > color sel #92b206ff > color sel #93b206ff > color sel #90b203ff > color sel #91b203ff > color sel #92b204ff > color sel #92b203ff > color sel #93b203ff > color sel #94b203ff > color sel #95b203ff > color sel #96b203ff > color sel #98b204ff > color sel #9ab204ff > color sel #9bb204ff > color sel #a3b202ff > color sel #a7b200ff > color sel #a6b201ff > color sel #a2b209ff > color sel #a1b20bff > color sel #a1b20dff > color sel #a0b20eff > color sel #a0b20fff > color sel #a0b210ff > color sel #a6b21aff > color sel #a7b21cff > color sel #a7b21dff > color sel #a8b21eff > color sel #a8b21dff > color sel #a9b21dff > color sel #aab21dff > color sel #abb21dff > color sel #adb21eff > color sel #adb21dff > color sel #afb21eff > color sel #b2b21fff > color sel #b2b11fff > color sel #b2b01fff > color sel #b2ab20ff > color sel #b2a820ff > color sel #b2a71fff > color sel #b2a81eff > color sel #b2a81dff > color sel #b0a61dff > color sel #afa51cff > color sel #ada31cff > color sel #aca21cff > color sel #aba11cff > color sel #aaa11cff > color sel #a99f1bff > color sel #a89e1bff > color sel #a79e1bff > color sel #a69d1bff > color sel #a59c1bff > color sel #a49b1bff > select add #92 33823 atoms, 34185 bonds, 2159 residues, 2 models selected > select subtract #92 415 atoms, 423 bonds, 56 residues, 1 model selected > select add #89 3887 atoms, 3974 bonds, 494 residues, 1 model selected > select subtract #89 Nothing selected > hide #89 models > show #110 models > show #111 models > select clear > ui mousemode right ""translate selected models"" > show #104 models > show #105 models > hide #104 models > hide #105 models > hide #110 models > hide #111 models > show #67 models > log metadata #67 The model has no metadata > log chains #67 Chain information for 1ukf #67 --- Chain | Description | UniProt A | Avirulence protein AVRPPH3 | AVRP3_PSESH 81-267 > sequence chain #67/A Alignment identifier is 67/A > sequence chain #67/A Alignment identifier is 67/A > show #112 models > hide #112 models > show #112 models > hide #112 models > show #102 models > log metadata #102 The model has no metadata > log chains #102 Chain information for AF-Q52430-F1-model_v4.pdb #102 --- Chain | Description | UniProt A | cysteine protease avirulence protein avrpphb | AVRP3_PSESH 1-267 > sequence chain #102/A Alignment identifier is 102/A > matchmaker #102 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q52430-F1-model_v4.pdb, chain A (#102), sequence alignment score = 75 RMSD between 16 pruned atom pairs is 0.930 angstroms; (across all 200 pairs: 25.752) > hide #67 models > show #!9 models > select #102/A:80-81 13 atoms, 12 bonds, 2 residues, 1 model selected > select #102/A:1-81 598 atoms, 611 bonds, 81 residues, 1 model selected > select #102/A:136-137 16 atoms, 15 bonds, 2 residues, 1 model selected > select #102/A:136-138 28 atoms, 28 bonds, 3 residues, 1 model selected > select #102/A:81 6 atoms, 5 bonds, 1 residue, 1 model selected > select #102/A:81-82 14 atoms, 13 bonds, 2 residues, 1 model selected > select #102/A:79-80 16 atoms, 15 bonds, 2 residues, 1 model selected > select #102/A:79-80 16 atoms, 15 bonds, 2 residues, 1 model selected > select #102/A:81-82 14 atoms, 13 bonds, 2 residues, 1 model selected > select #102/A:81-82 14 atoms, 13 bonds, 2 residues, 1 model selected > select #102/A:81 6 atoms, 5 bonds, 1 residue, 1 model selected > select #102/A:81 6 atoms, 5 bonds, 1 residue, 1 model selected > color sel #040e52ff > select #102/A:82-85,98-107,114-121,126-148,153-164,181-193,237-239,241-254 666 atoms, 671 bonds, 87 residues, 1 model selected > select add #102 2017 atoms, 2057 bonds, 267 residues, 1 model selected > select subtract #102 Nothing selected > hide #102 models > show #86 models > matchmaker #86 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q9AMW4-F1-model_v4.pdb, chain A (#86), sequence alignment score = 87.8 RMSD between 30 pruned atom pairs is 0.803 angstroms; (across all 234 pairs: 23.197) > log metadata #86 The model has no metadata > log chains #86 Chain information for AF-Q9AMW4-F1-model_v4.pdb #86 --- Chain | Description | UniProt A | putative cysteine protease yopt-like BLR2058 | Y2058_BRADU 1-298 > sequence chain #86/A Alignment identifier is 86/A > hide #86 models > show #85 models > log metadata #85 The model has no metadata > log chains #85 Chain information for AF-Q89T99-F1-model_v4.pdb #85 --- Chain | Description | UniProt A | putative cysteine protease yopt-like BLR2140 | Y2140_BRADU 1-271 > sequence chain #85/A Alignment identifier is 85/A > matchmaker #85 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q89T99-F1-model_v4.pdb, chain A (#85), sequence alignment score = 83.5 RMSD between 30 pruned atom pairs is 0.963 angstroms; (across all 195 pairs: 24.092) > hide #85 models > show #73 models > log metadata #73 The model has no metadata > log chains #73 Chain information for AF-P55730-F1-model_v4.pdb #73 --- Chain | Description | UniProt A | putative cysteine protease yopt-like Y4ZC | Y4ZC_SINFN 1-261 > sequence chain #73/A Alignment identifier is 73/A > matchmaker #73 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-P55730-F1-model_v4.pdb, chain A (#73), sequence alignment score = 72.4 RMSD between 25 pruned atom pairs is 0.955 angstroms; (across all 190 pairs: 24.079) > hide #73 models > show #43 models > log metadata #43 The model has no metadata > log chains #43 Chain information for AF-A0A1Y3API8-F1-model_v4.pdb #43 --- Chain | Description A | rhodanese domain-containing protein > sequence chain #43/A Alignment identifier is 43/A > matchmaker #43 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A1Y3API8-F1-model_v4.pdb, chain A (#43), sequence alignment score = 317.2 RMSD between 75 pruned atom pairs is 0.980 angstroms; (across all 295 pairs: 14.271) > hide #43 models > show #84 models > matchmaker #84 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4ULG3-F1-model_v4.pdb, chain A (#84), sequence alignment score = 321.7 RMSD between 101 pruned atom pairs is 1.004 angstroms; (across all 280 pairs: 9.316) > show #43 models > hide #43 models > hide #84 models > show #109 models > hide #109 models > show #110 models > hide #110 models > show #111 models > show #109 models > hide #111 models > log metadata #109 The model has no metadata > log chains #109 Chain information for C7BKP9.ranked_0.pdb #109 --- Chain | Description A | No description available > sequence chain #109/A Alignment identifier is 109/A > select #109/A:527-528 29 atoms, 29 bonds, 2 residues, 1 model selected > select #109/A:527-756 3689 atoms, 3719 bonds, 230 residues, 1 model selected > select #109/A:527 14 atoms, 14 bonds, 1 residue, 1 model selected > select #109/A:527-712 2996 atoms, 3017 bonds, 186 residues, 1 model selected > select #109/A:527-528 29 atoms, 29 bonds, 2 residues, 1 model selected > select #109/A:527-713 3010 atoms, 3031 bonds, 187 residues, 1 model selected > color sel #945200ff > color sel #8b551cff > color sel #8d571cff > color sel #9e6120ff > color sel #a66621ff > color sel #ac6a22ff > color sel #b06c23ff > color sel #bd7326ff > color sel #bd7426ff > color sel #c17627ff > color sel #c1802aff > color sel #c17e29ff > color sel #c17b20ff > color sel #c1791aff > color sel #c17715ff > color sel #c17511ff > color sel #c17510ff > color sel #c1760eff > color sel #c1760dff > color sel #c1770dff > color sel #c1770cff > color sel #c1780cff > color sel #c1790aff > color sel #c17b08ff > color sel #c17c07ff > color sel #c17d06ff > color sel #c17e06ff > color sel #c27e06ff > color sel #c88206ff > color sel #ca8306ff > color sel #ca8406ff > color sel #cb8406ff > color sel #cd8506ff > color sel #d08706ff > color sel #cf8706ff > color sel #c98306ff > color sel #c37f06ff > color sel #c27e06ff > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > select #109/A:527 14 atoms, 14 bonds, 1 residue, 1 model selected > select #109/A:527-713 3010 atoms, 3031 bonds, 187 residues, 1 model selected > color sel #945200ff > color sel #8b551cff > color sel #8f581dff > color sel #9c601fff > color sel #9e6120ff > color sel #a06220ff > color sel #a46521ff > color sel #a56521ff > color sel #a86722ff > color sel #a96822ff > color sel #aa6822ff > color sel #ab6922ff > color sel #b06c23ff > color sel #b26d24ff > color sel #b46e24ff > select add #109 47153 atoms, 47629 bonds, 2957 residues, 1 model selected > select subtract #109 Nothing selected > show #111 models > hide #111 models > hide #109 models > show #109 models > hide #109 models > show #74 models > matchmaker #74 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001564015939.pdb, chain A (#74), sequence alignment score = 205.5 RMSD between 86 pruned atom pairs is 1.408 angstroms; (across all 190 pairs: 16.441) > hide #74 models > show #81 models > matchmaker #81 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A1JU65-F1-model_v4.pdb, chain A (#81), sequence alignment score = 167 RMSD between 24 pruned atom pairs is 1.316 angstroms; (across all 252 pairs: 17.802) > hide #81 models > show #83 models > matchmaker #83 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q93RN4-F1-model_v4.pdb, chain A (#83), sequence alignment score = 154.3 RMSD between 61 pruned atom pairs is 1.078 angstroms; (across all 253 pairs: 13.858) > hide #83 models > show #46 models > sym #46 3gqj mmCIF Assemblies --- 1| author_defined_assembly| 1 copy of chain A 2| software_defined_assembly| 2 copies of chain A > log metadata #46 The model has no metadata > log chains #46 Chain information for 3gqj #46 --- Chain | Description | UniProt A | Cell Inhibiting Factor (Cif) | Q7N439_PHOLL 48-308 > sequence chain #46/A Alignment identifier is 46/A > log metadata #36 The model has no metadata > log chains #36 Chain information for pdb3efy.ent #36 --- Chain | Description | UniProt A B | cif (cell cycle inhibiting factor) | Q7WRZ5_ECOLX 100-282 > sequence chain #36/A#36/B Alignment identifier is 1 > log metadata #6 The model has no metadata > log chains #6 Chain information for 2ffg.pdb #6 --- Chain | Description | UniProt A B | YKUJ | O34588_BACSU 1-79 > hide #46 models > log metadata #47 No models had metadata > log chains #47 Chain information for 8p52 #47 --- Chain | Description | UniProt A | Toxin protein | Q8KT65_PHOLU 1-2929 > show #82 models > log metadata #82 The model has no metadata > log chains #82 Chain information for AF-O68703-F1-model_v4.pdb #82 --- Chain | Description | UniProt A | cysteine protease yopt | YOPT_YERPE 1-322 > sequence chain #82/A Alignment identifier is 82/A > matchmaker #82 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-O68703-F1-model_v4.pdb, chain A (#82), sequence alignment score = 155.7 RMSD between 60 pruned atom pairs is 1.095 angstroms; (across all 245 pairs: 14.853) > show #38 models > log metadata #38 The model has no metadata > log chains #38 Chain information for AF-A0A0K3YVA7-F1-model_v4.pdb #38 --- Chain | Description A | EFA1/lifa-like protein > sequence chain #38/A Alignment identifier is 38/A > select #38/A:145 9 atoms, 8 bonds, 1 residue, 1 model selected > select #38/A:1-145 1097 atoms, 1117 bonds, 145 residues, 1 model selected > select #38/A:150 8 atoms, 7 bonds, 1 residue, 1 model selected > select #38/A:1-150 1138 atoms, 1158 bonds, 150 residues, 1 model selected > color sel #040e52ff > select #38/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #38/A:1-145 1097 atoms, 1117 bonds, 145 residues, 1 model selected > color sel #030d52ff > color sel #040e52ff > color sel #050f52ff > color sel #0a1452ff > color sel #0d1652ff > color sel #0f1852ff > color sel #121a52ff > color sel #151d52ff > color sel #181f52ff > color sel #1a2152ff > color sel #1b2152ff > color sel #1c2152ff > color sel #1d2252ff > color sel #1e2252ff > color sel #1e2152ff > color sel #212252ff > color sel #2b2852ff > color sel #2e2a52ff > color sel #302c52ff > color sel #312d52ff > color sel #322e52ff > color sel #322f52ff > color sel #323052ff > color sel #413e6bff > color sel #494578ff > color sel #4a4679ff > color sel #4b477bff > color sel #4d497eff > color sel #4e4980ff > color sel #4d4a80ff > color sel #4d4880ff > color sel #4d4680ff > color sel #4c4280ff > color sel #4c3f80ff > color sel #4c3e80ff > color sel #4c3d80ff > color sel #4c3c80ff > color sel #4d3c80ff > color sel #4d3980ff > color sel #4d3680ff > color sel #4d3580ff > color sel #4c3480ff > color sel #4f3980ff > color sel #513b80ff > color sel #513c80ff > color sel #533e80ff > color sel #564280ff > color sel #594480ff > color sel #5a4680ff > color sel #5b4680ff > color sel #5b4780ff > color sel #5b4680ff > color sel #593c80ff > color sel #542b80ff > color sel #501b80ff > color sel #4f1980ff > color sel #4f1880ff > color sel #4d1680ff > color sel #441080ff > color sel #3d0c80ff > color sel #3b0a80ff > color sel #3a0a80ff > color sel #390a80ff > color sel #380980ff > color sel #360880ff > color sel #350880ff > color sel #350780ff > color sel #340780ff > color sel #300580ff > color sel #2e0480ff > color sel #2d0480ff > color sel #2d047fff > color sel #2d047dff > color sel #2c047dff > color sel #2c047bff > color sel #2b047aff > color sel #2b0479ff > color sel #2a0477ff > color sel #2a0476ff > color sel #2a0475ff > color sel #290474ff > color sel #2b0674ff > color sel #2c0774ff > color sel #2f0b74ff > color sel #341074ff > color sel #381574ff > color sel #3c1b74ff > color sel #3e1d74ff > color sel #3f1e74ff > color sel #3f1f74ff > color sel #3f1e74ff > color sel #3e1e72ff > color sel #3d1e71ff > color sel #3c1d6fff > color sel #3b1d6dff > color sel #3b1c6cff > color sel #391c6aff > color sel #381b68ff > color sel #371b66ff > color sel #371b65ff > select add #38 3870 atoms, 3947 bonds, 490 residues, 1 model selected > select subtract #38 Nothing selected > hide #38 models > show #41 models > log metadata #41 The model has no metadata > log chains #41 Chain information for AF-A0A3W5Y7A7-F1-model_v4.pdb #41 --- Chain | Description A | uncharacterized protein > sequence chain #41/A Alignment identifier is 41/A > matchmaker #41 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A3W5Y7A7-F1-model_v4.pdb, chain A (#41), sequence alignment score = 930.7 RMSD between 280 pruned atom pairs is 0.685 angstroms; (across all 298 pairs: 1.326) > hide #41 models > show #39 models > log metadata #39 The model has no metadata > log chains #39 Chain information for AF-A0A2X3JAL5-F1-model_v4.pdb #39 --- Chain | Description A | EFA1/lifa-like protein > sequence chain #39/A Alignment identifier is 39/A > hide #39 models > hide #82 models > show #39 models > matchmaker #39 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2X3JAL5-F1-model_v4.pdb, chain A (#39), sequence alignment score = 1054.4 RMSD between 315 pruned atom pairs is 0.673 angstroms; (across all 343 pairs: 1.660) > hide #39 models > show #35 models > matchmaker #35 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7U6JX76-F1-model_v4.pdb, chain A (#35), sequence alignment score = 1035.8 RMSD between 314 pruned atom pairs is 0.728 angstroms; (across all 343 pairs: 2.052) > log metadata #35 The model has no metadata > log chains #35 Chain information for AF-A0A7U6JX76-F1-model_v4.pdb #35 --- Chain | Description A | EFA1/lifa-like protein, N-terminal part > sequence chain #35/A Alignment identifier is 35/A > hide #35 models > show #40 models > log metadata #40 The model has no metadata > log chains #40 Chain information for AF-A0A376U9H5-F1-model_v4.pdb #40 --- Chain | Description A | EFA1/lifa-like protein > sequence chain #40/A Alignment identifier is 40/A > matchmaker #40 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A376U9H5-F1-model_v4.pdb, chain A (#40), sequence alignment score = 1050.8 RMSD between 316 pruned atom pairs is 0.697 angstroms; (across all 343 pairs: 2.132) > hide #40 models > show #65 models > log metadata #65 The model has no metadata > log chains #65 Chain information for AF-A0A2T4FGD4-F1-model_v4.pdb #65 --- Chain | Description A | uncharacterized protein > sequence chain #65/A Alignment identifier is 65/A > matchmaker #65 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2T4FGD4-F1-model_v4.pdb, chain A (#65), sequence alignment score = 328.4 RMSD between 116 pruned atom pairs is 0.971 angstroms; (across all 291 pairs: 8.697) > hide #65 models > show #61 models > matchmaker #61 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003613210660.pdb, chain A (#61), sequence alignment score = 251.9 RMSD between 96 pruned atom pairs is 1.039 angstroms; (across all 196 pairs: 6.185) > hide #61 models > show #63 models > matchmaker #63 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7Z6MWD8-F1-model_v4.pdb, chain A (#63), sequence alignment score = 318.1 RMSD between 109 pruned atom pairs is 1.021 angstroms; (across all 290 pairs: 8.681) > log metadata #63 The model has no metadata > log chains #63 Chain information for AF-A0A7Z6MWD8-F1-model_v4.pdb #63 --- Chain | Description A | uncharacterized protein > sequence chain #63/A Alignment identifier is 63/A > show #60 models > hide #63 models > matchmaker #60 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003607098654.pdb, chain A (#60), sequence alignment score = 252.9 RMSD between 84 pruned atom pairs is 0.881 angstroms; (across all 209 pairs: 4.498) > hide #60 models > show #64 models > log metadata #64 The model has no metadata > log chains #64 Chain information for AF-A0A656YJH9-F1-model_v4 (1).pdb #64 --- Chain | Description A | uncharacterized protein > sequence chain #64/A Alignment identifier is 64/A > matchmaker #64 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A656YJH9-F1-model_v4 (1).pdb, chain A (#64), sequence alignment score = 367.2 RMSD between 108 pruned atom pairs is 1.011 angstroms; (across all 303 pairs: 7.242) > hide #64 models > show #62 models > log metadata #62 The model has no metadata > log chains #62 Chain information for AF-A0A7X1AT80-F1-model_v4.pdb #62 --- Chain | Description A | uncharacterized protein > sequence chain #62/A Alignment identifier is 62/A > matchmaker #62 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7X1AT80-F1-model_v4.pdb, chain A (#62), sequence alignment score = 362.8 RMSD between 133 pruned atom pairs is 1.005 angstroms; (across all 278 pairs: 7.096) > hide #62 models > show #55 models > log metadata #55 The model has no metadata > log chains #55 Chain information for MGYP003605169772.pdb #55 --- Chain | Description A | No description available > sequence chain #55/A Alignment identifier is 55/A > show #96 models > hide #55 models > matchmaker #96 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003605169772.ranked_0.pdb, chain A (#96), sequence alignment score = 378.7 RMSD between 133 pruned atom pairs is 1.066 angstroms; (across all 289 pairs: 8.432) > log metadata #96 The model has no metadata > log chains #96 Chain information for MGYP003605169772.ranked_0.pdb #96 --- Chain | Description A | No description available > sequence chain #96/A Alignment identifier is 96/A > select #96/A:818-819 41 atoms, 40 bonds, 2 residues, 1 model selected > select #96/A:819-907 1325 atoms, 1336 bonds, 89 residues, 1 model selected > color sel #ff7e79ff > color sel #ef8d85ff > color sel #ef8d86ff > color sel #ef908cff > color sel #ef9495ff > color sel #ef969dff > color sel #ef98aaff > color sel #ef9ab4ff > color sel #ef9bb9ff > color sel #ef9bbbff > color sel #ef9cbdff > color sel #ef9cbfff > color sel #ef9cc1ff > color sel #ef9cc2ff > color sel #ef9bc1ff > color sel #ef97bfff > color sel #ef93bcff > color sel #ef8bb5ff > color sel #ef86b0ff > color sel #ef85afff > color sel #ef82acff > color sel #ef7ca6ff > color sel #ef79a3ff > color sel #ef80a8ff > color sel #ef7fa8ff > color sel #ef80a3ff > color sel #ef7f9fff > color sel #ef809eff > color sel #ef809dff > color sel #ef819aff > color sel #ef8095ff > color sel #ef7f94ff > color sel #ef7e93ff > color sel #ef7c91ff > color sel #ef798eff > color sel #ef768bff > color sel #ef7489ff > color sel #ef7287ff > color sel #ef6c80ff > color sel #ef6b80ff > color sel #ef6b7fff > color sel #ef6c7dff > color sel #ef717fff > color sel #ef717eff > color sel #ef717dff > color sel #ef717cff > color sel #ef7079ff > color sel #ef7078ff > color sel #ef7077ff > color sel #ef6f76ff > color sel #ef6e76ff > color sel #ef6975ff > color sel #ef6976ff > color sel #ef6a72ff > color sel #ef6b73ff > color sel #ef6b75ff > color sel #ef6b79ff > color sel #ef6c7eff > color sel #ef6d82ff > color sel #ef6d85ff > color sel #ef6e86ff > color sel #ef6e89ff > color sel #ee6e89ff > color sel #ec6d88ff > color sel #ea6c86ff > color sel #e76b85ff > color sel #e56a83ff > select add #96 19067 atoms, 19277 bonds, 1234 residues, 1 model selected > select subtract #96 Nothing selected > hide #96 models > show #66 models > log metadata #66 The model has no metadata > log chains #66 Chain information for AF-A0A7Y1H706-F1-model_v4.pdb #66 --- Chain | Description A | uncharacterized protein > sequence chain #66/A Alignment identifier is 66/A > matchmaker #66 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7Y1H706-F1-model_v4.pdb, chain A (#66), sequence alignment score = 356.6 RMSD between 101 pruned atom pairs is 1.011 angstroms; (across all 289 pairs: 8.691) > hide #66 models > show #70 models > log metadata #70 The model has no metadata > log chains #70 Chain information for MGYP000967698752.pdb #70 --- Chain | Description A | No description available > sequence chain #70/A Alignment identifier is 70/A > matchmaker #70 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP000967698752.pdb, chain A (#70), sequence alignment score = 390.3 RMSD between 87 pruned atom pairs is 0.959 angstroms; (across all 261 pairs: 10.937) > hide #70 models > show #59 models > matchmaker #59 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003580314631.pdb, chain A (#59), sequence alignment score = 308.2 RMSD between 92 pruned atom pairs is 1.075 angstroms; (across all 214 pairs: 5.876) > hide #59 models > show #51 models > log metadata #51 The model has no metadata > log chains #51 Chain information for MGYP003392964057.pdb #51 --- Chain | Description A | No description available > matchmaker #51 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003392964057.pdb, chain A (#51), sequence alignment score = 173.6 RMSD between 63 pruned atom pairs is 1.174 angstroms; (across all 170 pairs: 10.258) > hide #51 models > show #49 models > matchmaker #49 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003443402579.pdb, chain A (#49), sequence alignment score = 259.8 RMSD between 93 pruned atom pairs is 1.207 angstroms; (across all 252 pairs: 11.060) > show #48 models > hide #49 models > matchmaker #48 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003405926657.pdb, chain A (#48), sequence alignment score = 252.6 RMSD between 94 pruned atom pairs is 0.977 angstroms; (across all 232 pairs: 7.888) > show #68 models > log metadata #68 The model has no metadata > log chains #68 Chain information for AF-A0A2R7TF17-F1-model_v4.pdb #68 --- Chain | Description A | uncharacterized protein > sequence chain #68/A Alignment identifier is 68/A > matchmaker #68 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2R7TF17-F1-model_v4.pdb, chain A (#68), sequence alignment score = 322.1 RMSD between 115 pruned atom pairs is 1.131 angstroms; (across all 311 pairs: 11.935) > hide #68 models > show #58 models > log metadata #58 The model has no metadata > log chains #58 Chain information for MGYP003469346235.pdb #58 --- Chain | Description A | No description available > matchmaker #58 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003469346235.pdb, chain A (#58), sequence alignment score = 260 RMSD between 112 pruned atom pairs is 0.911 angstroms; (across all 214 pairs: 4.268) > hide #48 models > hide #58 models > show #57 models > matchmaker #57 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001106352814.pdb, chain A (#57), sequence alignment score = 257.4 RMSD between 108 pruned atom pairs is 0.961 angstroms; (across all 204 pairs: 6.932) > hide #57 models > show #56 models > matchmaker #56 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001094995491.pdb, chain A (#56), sequence alignment score = 219.4 RMSD between 81 pruned atom pairs is 0.883 angstroms; (across all 176 pairs: 6.421) > show #76 models > hide #56 models > matchmaker #76 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001011426704.pdb, chain A (#76), sequence alignment score = 250.7 RMSD between 136 pruned atom pairs is 1.144 angstroms; (across all 235 pairs: 4.027) > log metadata #76 The model has no metadata > log chains #76 Chain information for MGYP001011426704.pdb #76 --- Chain | Description A | No description available > sequence chain #76/A Alignment identifier is 76/A > select #76/A:279 11 atoms, 11 bonds, 1 residue, 1 model selected > select #76/A 2143 atoms, 2185 bonds, 279 residues, 1 model selected > color sel purple > select subtract #76 Nothing selected > hide #76 models > show #44 models > matchmaker #44 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A3A3FFL6-F1-model_v4.pdb, chain A (#44), sequence alignment score = 336.7 RMSD between 120 pruned atom pairs is 1.136 angstroms; (across all 290 pairs: 7.449) > log metadata #44 The model has no metadata > log chains #44 Chain information for AF-A0A3A3FFL6-F1-model_v4.pdb #44 --- Chain | Description A | peptidase_C58 domain-containing protein > sequence chain #44/A Alignment identifier is 44/A > hide #44 models > show #92 models > log metadata #92 The model has no metadata > log chains #92 Chain information for B6XGD1.ranked_0.pdb #92 --- Chain | Description A | No description available > sequence chain #92/A Alignment identifier is 92/A > hide #92 models > show #97 models > log metadata #97 The model has no metadata > log chains #97 Chain information for A0A2X2DF79.ranked_0.pdb #97 --- Chain | Description A | No description available > sequence chain #97/A Alignment identifier is 97/A > hide #97 models > show #88 models > log metadata #88 The model has no metadata > log chains #88 Chain information for Mcf2.ranked_0.pdb #88 --- Chain | Description A | No description available > sequence chain #88/A Alignment identifier is 88/A > hide #88 models > show #!47 models > log metadata #47 No models had metadata > log chains #47 Chain information for 8p52 #47 --- Chain | Description | UniProt A | Toxin protein | Q8KT65_PHOLU 1-2929 > matchmaker #47 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with 8p52, chain A (#47), sequence alignment score = 363.5 RMSD between 115 pruned atom pairs is 1.082 angstroms; (across all 307 pairs: 15.407) > log metadata #47 No models had metadata > log chains #47 Chain information for 8p52 #47 --- Chain | Description | UniProt A | Toxin protein | Q8KT65_PHOLU 1-2929 > sequence chain #47/A Alignment identifier is 47/A > select #47/A:968 9 atoms, 8 bonds, 1 residue, 1 model selected > select #47/A:968-970 20 atoms, 19 bonds, 3 residues, 1 model selected > select #47/A:996 8 atoms, 7 bonds, 1 residue, 1 model selected > select #47/A:968-996 223 atoms, 227 bonds, 29 residues, 1 model selected > view matrix models > #47,-0.74537,0.41033,-0.52541,120.04,-0.45766,0.25812,0.85084,-18.258,0.48474,0.87464,-0.0046032,-50.831 > view matrix models > #47,-0.74537,0.41033,-0.52541,98.946,-0.45766,0.25812,0.85084,0.71671,0.48474,0.87464,-0.0046032,-115.16 > select #47/A:1576-1577 17 atoms, 16 bonds, 2 residues, 1 model selected > select #47/A:1576-1666 748 atoms, 760 bonds, 91 residues, 1 model selected > select #47/A:1576 9 atoms, 8 bonds, 1 residue, 1 model selected > select #47/A:1575-1576 18 atoms, 17 bonds, 2 residues, 1 model selected > select #47/A:1576-1603 225 atoms, 224 bonds, 28 residues, 1 model selected > select #47/A:1599-1600 17 atoms, 16 bonds, 2 residues, 1 model selected > select #47/A:1576-1600 200 atoms, 199 bonds, 25 residues, 1 model selected > color sel #040e52ff > select #47/A:1909 8 atoms, 7 bonds, 1 residue, 1 model selected > select #47/A:1810-1909 683 atoms, 692 bonds, 100 residues, 1 model selected > select #47/A:1809 4 atoms, 3 bonds, 1 residue, 1 model selected > select #47/A:1809-1909 687 atoms, 696 bonds, 101 residues, 1 model selected > select #47/A:1810 4 atoms, 3 bonds, 1 residue, 1 model selected > select #47/A:1810-1907 671 atoms, 680 bonds, 98 residues, 1 model selected > select #47/A:1810 4 atoms, 3 bonds, 1 residue, 1 model selected > select #47/A:1810-1908 675 atoms, 684 bonds, 99 residues, 1 model selected > view matrix models > #47,-0.74537,0.41033,-0.52541,105.06,-0.45766,0.25812,0.85084,-12.022,0.48474,0.87464,-0.0046032,-149.14 > color sel #040e52ff > select add #47 22783 atoms, 23225 bonds, 1 pseudobond, 2914 residues, 2 models selected > select subtract #47 Nothing selected > select #47/A:2188-2189 15 atoms, 14 bonds, 2 residues, 1 model selected > select #47/A:2188-2217 242 atoms, 248 bonds, 30 residues, 1 model selected > select #47/A:2188-2189 15 atoms, 14 bonds, 2 residues, 1 model selected > select #47/A:2188-2213 209 atoms, 214 bonds, 26 residues, 1 model selected > select #47/A:2188-2189 15 atoms, 14 bonds, 2 residues, 1 model selected > select #47/A:2188-2212 200 atoms, 205 bonds, 25 residues, 1 model selected > color sel #040e52ff > select add #47 22783 atoms, 23225 bonds, 1 pseudobond, 2914 residues, 2 models selected > select subtract #47 Nothing selected > matchmaker #47 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with 8p52, chain A (#47), sequence alignment score = 363.5 RMSD between 115 pruned atom pairs is 1.082 angstroms; (across all 307 pairs: 15.407) > hide #!47 models > show #54 models > log metadata #54 The model has no metadata > log chains #54 Chain information for AF-A0A2X2DBV1-F1-model_v4.pdb #54 --- Chain | Description A | toxin B > sequence chain #54/A Alignment identifier is 54/A > matchmaker #54 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2X2DBV1-F1-model_v4.pdb, chain A (#54), sequence alignment score = 359.9 RMSD between 135 pruned atom pairs is 0.987 angstroms; (across all 298 pairs: 8.517) > hide #54 models > show #50 models > show #95 models > hide #50 models > log metadata #95 The model has no metadata > log chains #95 Chain information for MGYP000860465678.ranked_0.pdb #95 --- Chain | Description A | No description available > sequence chain #95/A Alignment identifier is 95/A > hide #95 models > show #53 models > log metadata #53 The model has no metadata > log chains #53 Chain information for AF-B6XGD5-F1-model_v4.pdb #53 --- Chain | Description | UniProt A | cysteine protease domain, yopt-type | B6XGD5_9GAMM 1-966 > sequence chain #53/A Alignment identifier is 53/A > matchmaker #53 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-B6XGD5-F1-model_v4.pdb, chain A (#53), sequence alignment score = 383.9 RMSD between 114 pruned atom pairs is 0.934 angstroms; (across all 277 pairs: 10.206) > save ""/Users/aho2840/Desktop/Satchell > Lab/MCFHomologs/MCF:Homolog.paper/Homologs.08.11.25.cxs"" > hide #53 models > show #103 models > matchmaker #103 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q7N439-F1-model_v4.pdb, chain A (#103), sequence alignment score = 91.8 RMSD between 9 pruned atom pairs is 1.075 angstroms; (across all 201 pairs: 21.871) > hide #103 models > select add #53 7840 atoms, 7983 bonds, 966 residues, 1 model selected > select subtract #53 Nothing selected > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > color sel gray > color sel light gray > color sel dark gray > select subtract #9 Nothing selected > color #9 #040e5200 > color #9 #040e52cc > color #9 #c0c0c0ff > show #10 models > hide #10 models > show #32 models > hide #32 models > show #53 models > hide #53 models > show #103 models > lighting flat > graphics silhouettes false > graphics silhouettes true > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting shadows false > lighting flat > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting flat > graphics silhouettes false > graphics silhouettes true > lighting flat > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting flat > hide #103 models > show #103 models > hide #!9 models > show #!9 models > hide #!9 models > show #!7 models > hide #!7 models > show #6 models > hide #6 models > show #!9 models > undo > hide #!7 models > show #!9 models > hide #103 models > show #103 models > hide #103 models > show #103 models > hide #103 models > show #103 models > hide #103 models > show #103 models > hide #103 models > show #103 models > matchmaker #103 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with AF-Q7N439-F1-model_v4.pdb, chain A (#103), sequence alignment score = 58.6 RMSD between 24 pruned atom pairs is 1.518 angstroms; (across all 208 pairs: 15.755) > matchmaker #1 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with 6ii0.cropped.06.25.23.pdb, chain B (#1), sequence alignment score = 1498.3 RMSD between 212 pruned atom pairs is 0.553 angstroms; (across all 223 pairs: 1.561) > matchmaker #103 to #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 6ii0.cropped.06.25.23.pdb, chain B (#1) with AF-Q7N439-F1-model_v4.pdb, chain A (#103), sequence alignment score = 58.6 RMSD between 24 pruned atom pairs is 1.518 angstroms; (across all 208 pairs: 15.755) > hide #!9 models > show #!9 models > hide #103 models > show #103 models > hide #103 models > show #103 models > hide #103 models > hide #!9 models > show #1 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #1 models > show #103 models > hide #103 models > show #103 models > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > color sel #c0c0c0ff > color sel #c0c0c0fb > color sel #c0c0c0f8 > color sel #c0c0c0f6 > color sel #c0c0c0f4 > color sel #c0c0c0f3 > color sel #c0c0c0eb > color sel #c0c0c0ea > color sel #c0c0c0e3 > color sel #c0c0c0df > color sel #c0c0c0dc > color sel #c0c0c0db > color sel #c0c0c0d7 > color sel #c0c0c0d4 > color sel #c0c0c0d1 > color sel #c0c0c0d0 > color sel #c0c0c0ce > color sel #c0c0c0c6 > color sel #c0c0c0be > color sel #c0c0c0cc > color sel #c0c0c0db > color sel #c0c0c0da > color sel #c0c0c0d7 > color sel #c0c0c0d4 > color sel #c0c0c0d2 > color sel #c0c0c0d1 > color sel #c0c0c0cf > color sel #c0c0c0cd > color sel #c0c0c0cc > select subtract #9 Nothing selected > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > color sel #c0c0c0cb > color sel #c0c0c0b5 > color sel #c0c0c0a8 > color sel #c0c0c0a7 > color sel #c0c0c0a6 > color sel #c0c0c0a3 > color sel #c0c0c0a4 > color sel #c0c0c0a5 > color sel #c0c0c0a6 > select subtract #9 Nothing selected > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > color sel #c0c0c0a5 > color sel #c0c0c090 > color sel #c0c0c08e > color sel #c0c0c089 > color sel #c0c0c087 > color sel #c0c0c086 > color sel #c0c0c084 > color sel #c0c0c083 > color sel #c0c0c082 > color sel #c0c0c081 > color sel #c0c0c080 > select subtract #9 Nothing selected > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > color sel #c0c0c07f > color sel #c0c0c06d > color sel #c0c0c066 > color sel #c0c0c064 > color sel #c0c0c062 > color sel #c0c0c05f > color sel #c0c0c05e > color sel #c0c0c05b > color sel #c0c0c05a > color sel #c0c0c056 > color sel #c0c0c052 > color sel #c0c0c04a > color sel #c0c0c03b > color sel #c0c0c03e > color sel #c0c0c043 > color sel #c0c0c048 > color sel #c0c0c04b > color sel #c0c0c04e > color sel #c0c0c050 > color sel #c0c0c051 > color sel #c0c0c052 > color sel #c0c0c053 > color sel #c0c0c052 > color sel #c0c0c050 > color sel #c0c0c04f > color sel #c0c0c04e > color sel #c0c0c04c > color sel #c0c0c04d > select subtract #9 Nothing selected > select add #103 2481 atoms, 2518 bonds, 313 residues, 1 model selected > hide #!9 models > select subtract #103 Nothing selected > select add #103 2481 atoms, 2518 bonds, 313 residues, 1 model selected > select subtract #103 Nothing selected > hide #103 models > show #!9 models > color #9 #c0c0c04c > color #9 #c0c0c04a > color #9 #c0c0c044 > color #9 #c0c0c03d > color #9 #c0c0c03a > color #9 #c0c0c032 > color #9 #c0c0c02e > color #9 #c0c0c02c > color #9 #c0c0c02a > color #9 #c0c0c026 > color #9 #c0c0c023 > color #9 #c0c0c022 > color #9 #c0c0c021 > color #9 #c0c0c022 > color #9 #c0c0c024 > color #9 #c0c0c026 > show #103 models > hide #103 models > hide #!9 models > show #!9 models > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > show sel surfaces > hide sel surfaces > select subtract #9 1 model selected > show #103 models > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #103 models > select add #9 3249 atoms, 2729 bonds, 917 residues, 1 model selected > color (#!9 & sel) #c0c0c027 > color (#!9 & sel) #c0c0c029 > color (#!9 & sel) #c0c0c02e > color (#!9 & sel) #c0c0c034 > color (#!9 & sel) #c0c0c038 > color (#!9 & sel) #c0c0c03c > color (#!9 & sel) #c0c0c04c > color (#!9 & sel) #c0c0c055 > color (#!9 & sel) #c0c0c058 > color (#!9 & sel) #c0c0c05a > color (#!9 & sel) #c0c0c063 > color (#!9 & sel) #c0c0c067 > color (#!9 & sel) #c0c0c074 > color (#!9 & sel) #c0c0c07d > color (#!9 & sel) #c0c0c07f > color (#!9 & sel) #c0c0c080 > color (#!9 & sel) #c0c0c081 > color (#!9 & sel) #c0c0c084 > color (#!9 & sel) #c0c0c086 > color (#!9 & sel) #c0c0c085 > color (#!9 & sel) #c0c0c080 > select subtract #9 1 model selected > show #103 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #103 models > show #89 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #89 models > show #77 models > hide #77 models > show #75 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #75 models > show #38 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #38 models > show #43 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #43 models > show #17 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #17 models > show #68 models > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #68 models > show #65 models > save /Users/aho2840/Desktop/image2.png supersample 3 > matchmaker #65 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2T4FGD4-F1-model_v4.pdb, chain A (#65), sequence alignment score = 328.4 RMSD between 116 pruned atom pairs is 0.971 angstroms; (across all 291 pairs: 8.697) > turn x 180 > turn y 180 > save /Users/aho2840/Desktop/image2.png supersample 3 > turn y 180 > hide #65 models > show #54 models > matchmaker #54 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2X2DBV1-F1-model_v4.pdb, chain A (#54), sequence alignment score = 359.9 RMSD between 135 pruned atom pairs is 0.987 angstroms; (across all 298 pairs: 8.517) > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #54 models > show #97 models > matchmaker #97 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with A0A2X2DF79.ranked_0.pdb, chain A (#97), sequence alignment score = 398.6 RMSD between 127 pruned atom pairs is 1.100 angstroms; (across all 305 pairs: 11.055) > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #97 models > show #39 models > matchmaker #39 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A2X3JAL5-F1-model_v4.pdb, chain A (#39), sequence alignment score = 1054.4 RMSD between 315 pruned atom pairs is 0.673 angstroms; (across all 343 pairs: 1.660) > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #39 models > show #40 models > matchmaker #40 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A376U9H5-F1-model_v4.pdb, chain A (#40), sequence alignment score = 1050.8 RMSD between 316 pruned atom pairs is 0.697 angstroms; (across all 343 pairs: 2.132) > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #40 models > show #44 models > matchmaker #404to #9 Missing or invalid ""matchAtoms"" argument: only initial part ""#404"" of atom specifier valid > matchmaker #44to #9 Missing or invalid ""matchAtoms"" argument: only initial part ""#44"" of atom specifier valid > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #44 models > show #41 models > matchmaker #41 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A3W5Y7A7-F1-model_v4.pdb, chain A (#41), sequence alignment score = 930.7 RMSD between 280 pruned atom pairs is 0.685 angstroms; (across all 298 pairs: 1.326) > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #41 models > show #18 models > matchmaker #18 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4P2SM79-F1-model_v4.pdb, chain A (#18), sequence alignment score = 204.4 RMSD between 54 pruned atom pairs is 1.295 angstroms; (across all 314 pairs: 14.398) > save /Users/aho2840/Desktop/image1.png supersample 3 > log metadata #18 The model has no metadata > log chains #18 Chain information for AF-A0A4P2SM79-F1-model_v4.pdb #18 --- Chain | Description A | peptidase_C58 domain-containing protein > sequence chain #18/A Alignment identifier is 18/A > ui mousemode right select Drag select of 589 residues > select #18/A:407-463 443 atoms, 449 bonds, 57 residues, 1 model selected > select #18/A:1-463 3869 atoms, 3958 bonds, 463 residues, 1 model selected > ui tool show Matchmaker > matchmaker #18 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4P2SM79-F1-model_v4.pdb, chain A (#18), sequence alignment score = 175 RMSD between 51 pruned atom pairs is 0.849 angstroms; (across all 283 pairs: 24.132) > select add #18 6435 atoms, 6589 bonds, 774 residues, 1 model selected > select subtract #18 Nothing selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #18 models > show #91 models > matchmaker #91 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with A0A4P2SNJ1.longerNterm.ranked_0.pdb, chain A (#91), sequence alignment score = 180.1 RMSD between 57 pruned atom pairs is 0.921 angstroms; (across all 231 pairs: 21.738) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #91 models > show #20 models > matchmaker #20 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4V0NNP3-F1-model_v4.pdb, chain A (#20), sequence alignment score = 167.5 RMSD between 54 pruned atom pairs is 0.979 angstroms; (across all 290 pairs: 24.128) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #20 models > show #21 models > matchmaker #21 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A4V0NNU7-F1-model_v4.pdb, chain A (#21), sequence alignment score = 208.3 RMSD between 54 pruned atom pairs is 0.914 angstroms; (across all 285 pairs: 23.672) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #21 models > show #64 models > matchmaker #64 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A656YJH9-F1-model_v4 (1).pdb, chain A (#64), sequence alignment score = 367.2 RMSD between 108 pruned atom pairs is 1.011 angstroms; (across all 303 pairs: 7.242) > save /Users/aho2840/Desktop/image1.png supersample 3 > matchmaker #35 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7U6JX76-F1-model_v4.pdb, chain A (#35), sequence alignment score = 1035.8 RMSD between 314 pruned atom pairs is 0.728 angstroms; (across all 343 pairs: 2.052) > hide #64 models > show #35 models > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #35 models > show #62 models > matchmaker #62 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7X1AT80-F1-model_v4.pdb, chain A (#62), sequence alignment score = 362.8 RMSD between 133 pruned atom pairs is 1.005 angstroms; (across all 278 pairs: 7.096) > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #62 models > show #66 models > turn y 180 > matchmaker #66 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7Y1H706-F1-model_v4.pdb, chain A (#66), sequence alignment score = 356.6 RMSD between 101 pruned atom pairs is 1.011 angstroms; (across all 289 pairs: 8.691) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #66 models > show #63 models > matchmaker #63 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A0A7Z6MWD8-F1-model_v4.pdb, chain A (#63), sequence alignment score = 318.1 RMSD between 109 pruned atom pairs is 1.021 angstroms; (across all 290 pairs: 8.681) > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > hide #63 models > show #81 models > matchmaker #81 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-A1JU65-F1-model_v4.pdb, chain A (#81), sequence alignment score = 167 RMSD between 24 pruned atom pairs is 1.316 angstroms; (across all 252 pairs: 17.802) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #81 models > show #84 models > matchmaker #84 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4ULG3-F1-model_v4.pdb, chain A (#84), sequence alignment score = 321.7 RMSD between 101 pruned atom pairs is 1.004 angstroms; (across all 280 pairs: 9.316) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #84 models > show #102 models > matchmaker #102 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q52430-F1-model_v4.pdb, chain A (#102), sequence alignment score = 75 RMSD between 16 pruned atom pairs is 0.930 angstroms; (across all 200 pairs: 25.752) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #102 models > show #92 models > matchmaker #92 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with B6XGD1.ranked_0.pdb, chain A (#92), sequence alignment score = 401.5 RMSD between 133 pruned atom pairs is 1.062 angstroms; (across all 317 pairs: 13.801) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #92 models > show #53 models > matchmaker #53 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-B6XGD5-F1-model_v4.pdb, chain A (#53), sequence alignment score = 383.9 RMSD between 114 pruned atom pairs is 0.934 angstroms; (across all 277 pairs: 10.206) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #53 models > show #23 models > matchmaker #23 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K3P9-F1-model_v4.pdb, chain A (#23), sequence alignment score = 183.4 RMSD between 61 pruned atom pairs is 1.222 angstroms; (across all 303 pairs: 14.576) > save /Users/aho2840/Desktop/image1.png supersample 3 > ui mousemode right select Drag select of 351 residues > ui tool show Matchmaker > matchmaker #23 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K3P9-F1-model_v4.pdb, chain A (#23), sequence alignment score = 165.1 RMSD between 53 pruned atom pairs is 0.972 angstroms; (across all 279 pairs: 25.183) > matchmaker #23 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K3P9-F1-model_v4.pdb, chain A (#23), sequence alignment score = 165.1 RMSD between 53 pruned atom pairs is 0.972 angstroms; (across all 279 pairs: 25.183) > select add #23 9794 atoms, 10025 bonds, 1196 residues, 1 model selected > select subtract #23 Nothing selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #23 models > show #24 models > matchmaker #24 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K468-F1-model_v4.pdb, chain A (#24), sequence alignment score = 183.8 RMSD between 56 pruned atom pairs is 1.189 angstroms; (across all 304 pairs: 14.130) > save /Users/aho2840/Desktop/image1.png supersample 3 > ui mousemode right select Drag select of 271 residues > ui tool show Matchmaker > matchmaker #24 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K468-F1-model_v4.pdb, chain A (#24), sequence alignment score = 171.6 RMSD between 45 pruned atom pairs is 1.057 angstroms; (across all 234 pairs: 21.465) > matchmaker #24 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K468-F1-model_v4.pdb, chain A (#24), sequence alignment score = 171.6 RMSD between 45 pruned atom pairs is 1.057 angstroms; (across all 234 pairs: 21.465) > select add #24 6748 atoms, 6889 bonds, 818 residues, 1 model selected > select subtract #24 Nothing selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #24 models > show #93 models > matchmaker #93 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 190.5 RMSD between 59 pruned atom pairs is 1.280 angstroms; (across all 299 pairs: 13.592) > save /Users/aho2840/Desktop/image1.png supersample 3 > ui mousemode right select Drag select of 333 residues > ui tool show Matchmaker > matchmaker #93 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 186.6 RMSD between 49 pruned atom pairs is 0.723 angstroms; (across all 252 pairs: 25.651) > matchmaker #93 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with C4K5K2.ranked_0.pdb, chain A (#93), sequence alignment score = 186.6 RMSD between 49 pruned atom pairs is 0.723 angstroms; (across all 252 pairs: 25.651) > select add #93 31332 atoms, 31675 bonds, 1960 residues, 1 model selected > select subtract #93 Nothing selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #93 models > show #25 models > matchmaker #25 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-C4K5L0-F1-model_v4.pdb, chain A (#25), sequence alignment score = 202.4 RMSD between 71 pruned atom pairs is 0.846 angstroms; (across all 300 pairs: 16.095) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #25 models > show #!94 models > matchmaker #94 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with GMGC10.017_810_714.ranked_0.pdb, chain A (#94), sequence alignment score = 196.4 RMSD between 49 pruned atom pairs is 0.960 angstroms; (across all 284 pairs: 32.428) > save /Users/aho2840/Desktop/image1.png supersample 3 > ui mousemode right select Drag select of 609 residues > ui tool show Matchmaker > matchmaker #!94 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with GMGC10.017_810_714.ranked_0.pdb, chain A (#94), sequence alignment score = 167.3 RMSD between 47 pruned atom pairs is 1.286 angstroms; (across all 245 pairs: 11.473) > select add #94 34588 atoms, 34892 bonds, 2223 residues, 2 models selected > select subtract #94 1 model selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > hide #!94 models > show #!47 models > matchmaker #47 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with 8p52, chain A (#47), sequence alignment score = 363.5 RMSD between 115 pruned atom pairs is 1.082 angstroms; (across all 307 pairs: 15.407) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #!47 models > show #88 models > matchmaker #88 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with Mcf2.ranked_0.pdb, chain A (#88), sequence alignment score = 405.2 RMSD between 128 pruned atom pairs is 0.972 angstroms; (across all 303 pairs: 12.736) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #88 models > show #52 models > matchmaker #52 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP000706081912.pdb, chain A (#52), sequence alignment score = 226.2 RMSD between 57 pruned atom pairs is 0.989 angstroms; (across all 293 pairs: 30.191) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #52 models > show #95 models > matchmaker #95 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP000860465678.ranked_0.pdb, chain A (#95), sequence alignment score = 382.4 RMSD between 134 pruned atom pairs is 1.003 angstroms; (across all 296 pairs: 7.540) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #95 models > show #70 models > matchmaker #70 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP000967698752.pdb, chain A (#70), sequence alignment score = 390.3 RMSD between 87 pruned atom pairs is 0.959 angstroms; (across all 261 pairs: 10.937) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #70 models > show #76 models > matchmaker #76 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001011426704.pdb, chain A (#76), sequence alignment score = 250.7 RMSD between 136 pruned atom pairs is 1.144 angstroms; (across all 235 pairs: 4.027) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #76 models > show #56 models > matchmaker #56 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001094995491.pdb, chain A (#56), sequence alignment score = 219.4 RMSD between 81 pruned atom pairs is 0.883 angstroms; (across all 176 pairs: 6.421) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #56 models > show #57 models > matchmaker #57 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001106352814.pdb, chain A (#57), sequence alignment score = 257.4 RMSD between 108 pruned atom pairs is 0.961 angstroms; (across all 204 pairs: 6.932) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #57 models > show #74 models > matchmaker #74 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP001564015939.pdb, chain A (#74), sequence alignment score = 205.5 RMSD between 86 pruned atom pairs is 1.408 angstroms; (across all 190 pairs: 16.441) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #74 models > show #51 models > matchmaker #51 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003392964057.pdb, chain A (#51), sequence alignment score = 173.6 RMSD between 63 pruned atom pairs is 1.174 angstroms; (across all 170 pairs: 10.258) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #51 models > show #48 models > matchmaker #48 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003405926657.pdb, chain A (#48), sequence alignment score = 252.6 RMSD between 94 pruned atom pairs is 0.977 angstroms; (across all 232 pairs: 7.888) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #48 models > show #49 models > matchmaker #49 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003443402579.pdb, chain A (#49), sequence alignment score = 259.8 RMSD between 93 pruned atom pairs is 1.207 angstroms; (across all 252 pairs: 11.060) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #49 models > show #58 models > matchmaker #58 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003469346235.pdb, chain A (#58), sequence alignment score = 260 RMSD between 112 pruned atom pairs is 0.911 angstroms; (across all 214 pairs: 4.268) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #58 models > show #59 models > matchmaker #59 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003580314631.pdb, chain A (#59), sequence alignment score = 308.2 RMSD between 92 pruned atom pairs is 1.075 angstroms; (across all 214 pairs: 5.876) > hide #59 models > show #58 models > hide #58 models > show #59 models > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #59 models > show #96 models > matchmaker #96 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003605169772.ranked_0.pdb, chain A (#96), sequence alignment score = 378.7 RMSD between 133 pruned atom pairs is 1.066 angstroms; (across all 289 pairs: 8.432) > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #96 models > show #60 models > matchmaker #60 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003607098654.pdb, chain A (#60), sequence alignment score = 252.9 RMSD between 84 pruned atom pairs is 0.881 angstroms; (across all 209 pairs: 4.498) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #60 models > show #61 models > save /Users/aho2840/Desktop/image1.png supersample 3 > matchmaker #61 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with MGYP003613210660.pdb, chain A (#61), sequence alignment score = 251.9 RMSD between 96 pruned atom pairs is 1.039 angstroms; (across all 196 pairs: 6.185) > save /Users/aho2840/Desktop/image2.png supersample 3 > hide #61 models > show #73 models > matchmaker #73 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-P55730-F1-model_v4.pdb, chain A (#73), sequence alignment score = 72.4 RMSD between 25 pruned atom pairs is 0.955 angstroms; (across all 190 pairs: 24.079) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #73 models > show #109 models > matchmaker #109 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with C7BKP9.ranked_0.pdb, chain A (#109), sequence alignment score = 292.3 RMSD between 75 pruned atom pairs is 1.064 angstroms; (across all 284 pairs: 10.403) > turn y 180 > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #109 models > show #71 models > matchmaker #71 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327D9-F1-model_v4.pdb, chain A (#71), sequence alignment score = 132.8 RMSD between 7 pruned atom pairs is 0.829 angstroms; (across all 185 pairs: 28.982) > ui mousemode right select Drag select of 210 residues > ui tool show Matchmaker > matchmaker #71 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327D9-F1-model_v4.pdb, chain A (#71), sequence alignment score = 89.5 RMSD between 26 pruned atom pairs is 1.053 angstroms; (across all 175 pairs: 17.568) > select add #71 4321 atoms, 4400 bonds, 549 residues, 1 model selected > select subtract #71 Nothing selected > select clear > ui mousemode right zoom > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #71 models > show #72 models > matchmaker #72 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 126.1 RMSD between 10 pruned atom pairs is 1.365 angstroms; (across all 189 pairs: 18.434) > ui mousemode right select Drag select of 377 residues > ui tool show Matchmaker > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 49.7 RMSD between 5 pruned atom pairs is 1.045 angstroms; (across all 46 pairs: 16.497) Drag select of 193 residues > ui tool show Matchmaker > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 44.7 RMSD between 15 pruned atom pairs is 1.296 angstroms; (across all 168 pairs: 18.337) > matchmaker #72 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q327I5-F1-model_v4.pdb, chain A (#72), sequence alignment score = 44.7 RMSD between 15 pruned atom pairs is 1.296 angstroms; (across all 168 pairs: 18.337) > select add #72 4592 atoms, 4687 bonds, 572 residues, 1 model selected > select subtract #72 Nothing selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #72 models > show #8 models > hide #8 models > show #85 models > matchmaker #85 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q89T99-F1-model_v4.pdb, chain A (#85), sequence alignment score = 83.5 RMSD between 30 pruned atom pairs is 0.963 angstroms; (across all 195 pairs: 24.092) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #85 models > show #83 models > matchmaker #83 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q93RN4-F1-model_v4.pdb, chain A (#83), sequence alignment score = 154.3 RMSD between 61 pruned atom pairs is 1.078 angstroms; (across all 253 pairs: 13.858) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #83 models > show #86 models > matchmaker #86 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q9AMW4-F1-model_v4.pdb, chain A (#86), sequence alignment score = 87.8 RMSD between 30 pruned atom pairs is 0.803 angstroms; (across all 234 pairs: 23.197) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #86 models > show #69 models > matchmaker #69 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-Q9F3T4-F1-model_v4.pdb, chain A (#69), sequence alignment score = 99.5 RMSD between 15 pruned atom pairs is 1.383 angstroms; (across all 244 pairs: 24.018) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #69 models > show #98 models > matchmaker #98 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_095034161.1.ranked_0.pdb, chain A (#98), sequence alignment score = 189.7 RMSD between 60 pruned atom pairs is 1.387 angstroms; (across all 312 pairs: 13.944) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #98 models > show #99 models > matchmaker #99 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_095034189.1.ranked_0.pdb, chain A (#99), sequence alignment score = 201 RMSD between 46 pruned atom pairs is 0.814 angstroms; (across all 293 pairs: 22.670) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #99 models > show #100 models > matchmaker #100 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_148121377.1.ranked_0.pdb, chain A (#100), sequence alignment score = 196.6 RMSD between 63 pruned atom pairs is 1.204 angstroms; (across all 298 pairs: 14.062) > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > save /Users/aho2840/Desktop/image1.png supersample 3 > turn y 180 > ui mousemode right select Drag select of 355 residues > ui tool show Matchmaker > matchmaker #100 & sel to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_148121377.1.ranked_0.pdb, chain A (#100), sequence alignment score = 177.3 RMSD between 56 pruned atom pairs is 0.910 angstroms; (across all 272 pairs: 24.833) > select add #100 31107 atoms, 31455 bonds, 1953 residues, 1 model selected > select subtract #100 Nothing selected > select clear > ui mousemode right ""translate selected models"" > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #100 models > show #101 models > matchmaker #101 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with WP_231937687.1.ranked_0.pdb, chain A (#101), sequence alignment score = 205.8 RMSD between 73 pruned atom pairs is 0.941 angstroms; (across all 296 pairs: 20.392) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #101 models > show #82 models > matchmaker #82 to #9 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker 6ii6, chain A (#9) with AF-O68703-F1-model_v4.pdb, chain A (#82), sequence alignment score = 155.7 RMSD between 60 pruned atom pairs is 1.095 angstroms; (across all 245 pairs: 14.853) > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #82 models > show #60 models > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #60 models > show #61 models > save /Users/aho2840/Desktop/image1.png supersample 3 > hide #61 models > show #104 models > hide #!9 models > hide #104 models > show #105 models > show #104 models > hide #105 models > log metadata #104 The model has no metadata > log chains #104 Chain information for GMGC10.011_528_202.ranked_0.1.2000.ranked_0.pdb #104 --- Chain | Description A | No description available > sequence chain #104/A Alignment identifier is 104/A > ui mousemode right select Drag select of 1999 residues > select add #104 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #104 Nothing selected > hide #104 models > show #105 models Drag select of 1401 residues > log metadata #105 The model has no metadata > log chains #105 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.pdb #105 --- Chain | Description A | No description available > sequence chain #105/A Alignment identifier is 105/A > select add #105 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #105 Nothing selected > hide #105 models > show #110 models > log metadata #110 The model has no metadata > log chains #110 Chain information for GMGC10.011_528_202.ranked_0.3247.4160.pdb #110 --- Chain | Description A | No description available > sequence chain #110/A Alignment identifier is 110/A Drag select of 658 residues > select add #110 13993 atoms, 14133 bonds, 913 residues, 1 model selected > select subtract #110 Nothing selected Drag select of 660 residues > select add #110 13993 atoms, 14133 bonds, 913 residues, 1 model selected > select subtract #110 Nothing selected > hide #110 models > show #111 models > log metadata #111 The model has no metadata > log chains #111 Chain information for GMGC10.011_528_202.ranked_0.4000.5243.pdb #111 --- Chain | Description A | No description available > sequence chain #111/A Alignment identifier is 111/A Drag select of 1084 residues > select add #111 18385 atoms, 18537 bonds, 1244 residues, 1 model selected > select subtract #111 Nothing selected > hide #111 models > show #105 models > log metadata #105 The model has no metadata > log chains #105 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.pdb #105 --- Chain | Description A | No description available > sequence chain #105/A Alignment identifier is 105/A Drag select of 1401 residues > select #105/A:1999 14 atoms, 13 bonds, 1 residue, 1 model selected > select #105/A:1800-1999 3067 atoms, 3094 bonds, 200 residues, 1 model selected > delete atoms sel > delete bonds sel > select > #105/A:2000-2009,2020-2028,2030-2044,2058-2088,2100-2102,2115-2127,2133-2153,2160-2178,2182-2184,2193-2202,2246-2257,2268-2271,2286-2291,2293-2304,2310-2317,2329-2334,2346-2354,2360-2362,2367-2375,2380-2396,2402-2404,2423-2434,2445-2469,2473-2488,2494-2503,2509-2525,2531-2539,2542-2551,2565-2574,2577-2589,2592-2603,2608-2620,2627-2632,2635-2654,2658-2668,2678-2695,2714-2726,2734-2757,2774-2776,2783-2790,2794-2817,2819-2821,2825-2837,2842-2881,3130-3132,3193-3195,3233-3241,3345-3347 8794 atoms, 8805 bonds, 571 residues, 1 model selected > select #105/A:2159-2215 853 atoms, 856 bonds, 57 residues, 1 model selected > select #105/A:2159-2215 853 atoms, 856 bonds, 57 residues, 1 model selected > select > #105/A:2000-2009,2020-2028,2030-2044,2058-2088,2100-2102,2115-2127,2133-2153,2160-2178,2182-2184,2193-2202,2246-2257,2268-2271,2286-2291,2293-2304,2310-2317,2329-2334,2346-2354,2360-2362,2367-2375,2380-2396,2402-2404,2423-2434,2445-2469,2473-2488,2494-2503,2509-2525,2531-2539,2542-2551,2565-2574,2577-2589,2592-2603,2608-2620,2627-2632,2635-2654,2658-2668,2678-2695,2714-2726,2734-2757,2774-2776,2783-2790,2794-2817,2819-2821,2825-2837,2842-2881,3130-3132,3193-3195,3233-3241,3345-3347 8794 atoms, 8805 bonds, 571 residues, 1 model selected > select add #105 21077 atoms, 21241 bonds, 1401 residues, 1 model selected > select subtract #105 Nothing selected > hide #105 models > show #110 models > log metadata #110 The model has no metadata > log chains #110 Chain information for GMGC10.011_528_202.ranked_0.3247.4160.pdb #110 --- Chain | Description A | No description available > sequence chain #110/A Alignment identifier is 110/A Drag select of 660 residues > select #110/A:3499 17 atoms, 16 bonds, 1 residue, 1 model selected > select #110/A:3247-3499 3894 atoms, 3931 bonds, 253 residues, 1 model selected > select #110/A:3596-3597 33 atoms, 32 bonds, 2 residues, 1 model selected > select #110/A:3596-3767 2572 atoms, 2590 bonds, 172 residues, 1 model selected > select #110/A:3498-3499 33 atoms, 32 bonds, 2 residues, 1 model selected > select #110/A:3247-3499 3894 atoms, 3931 bonds, 253 residues, 1 model selected > delete atoms sel > delete bonds sel > hide #110 models > show #111 models > log metadata #111 The model has no metadata > log chains #111 Chain information for GMGC10.011_528_202.ranked_0.4000.5243.pdb #111 --- Chain | Description A | No description available > sequence chain #111/A Alignment identifier is 111/A Drag select of 1084 residues > select #111/A:4159 21 atoms, 21 bonds, 1 residue, 1 model selected > select #111/A:4000-4159 2425 atoms, 2448 bonds, 160 residues, 1 model selected > delete atoms sel > delete bonds sel > hide #111 models > select #111/A:4583 12 atoms, 11 bonds, 1 residue, 1 model selected > select #111/A:4583-4640 794 atoms, 797 bonds, 58 residues, 1 model selected > select add #111 15960 atoms, 16088 bonds, 1084 residues, 1 model selected > select subtract #111 Nothing selected > show #111 models > show #110 models > select clear > ui mousemode right ""translate selected models"" > hide #111 models > show #105 models > hide #105 models > show #105 models > show #104 models > hide #110 models > hide #105 models > hide #104 models > show #104 models > show #105 models > toolshed show QGestureManager::deliverEvent: could not find the target for gesture > combine #104,#105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105 close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105 close false name GMGC10.011_528_202.1.3500 Expected a keyword > select > #111/A:4160-4171,4176-4187,4194-4196,4200-4202,4205-4213,4218-4226,4231-4239,4247-4254,4263-4273,4277-4290,4295-4303,4309-4318,4322-4337,4411-4413,4820-4822,4839-4841,4855-4865,4884-4891,5150-5156,5170-5176 2584 atoms, 2582 bonds, 167 residues, 1 model selected > combine #104, #105, close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105 close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105, close false name GMGC10.011_528_202.1.3500 Expected a keyword > combine #104, #105 close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > select add #111 15960 atoms, 16088 bonds, 1084 residues, 1 model selected > select subtract #111 Nothing selected > combine #104, #105 close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105 close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine # 104, # 105 close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > ui tool show ""Build Structure"" No atoms selected > toolshed show > combine # 104, # 105, close false name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine # 104, # 105, close false, name ""GMGC10.011_528_202.1.3500"" Expected a keyword > ui tool show ""Build Structure"" No atoms selected > select add #104 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select add #105 51441 atoms, 51879 bonds, 3400 residues, 2 models selected > build join peptide sel length 1.33 omega 180 phi -120 move small Multiple N- and C-terminii in atoms > combine # 104, # 105 close false retainIds false name > ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine # 104, # 105 close false retainIds false name ""Combine"" Expected a keyword > combine # 104, # 105 close false retainIds false name model-name ""Combine"" Expected a keyword > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" close false Expected a keyword > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" close false Expected a keyword > select subtract #104 21077 atoms, 21241 bonds, 1401 residues, 1 model selected > select subtract #105 Nothing selected > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" close false Expected a keyword > combine #104, #105 name ""Combine"" close false Expected a keyword > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine modelId close false Invalid ""modelId"" argument: Expected an integer > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > combine #104, #105 Expected a keyword > combine modelId #104, #105 Invalid ""modelId"" argument: Expected an integer > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > close false Expected a models specifier or a keyword > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > close false Expected a models specifier or a keyword > combine #104, #105 Expected a keyword > help combine > hide #104 models > hide #105 models > combine #104, #105 name ""GMGC10.011_528_202.1.3500"" Expected a keyword > close false Expected a models specifier or a keyword > combine #104, #105 Expected a keyword > log metadata #104 The model has no metadata > log chains #104 Chain information for GMGC10.011_528_202.ranked_0.1.2000.ranked_0.pdb #104 --- Chain | Description A | No description available > sequence chain #104/A Alignment identifier is 104/A > log metadata #105 The model has no metadata > log chains #105 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.pdb #105 --- Chain | Description A | No description available > sequence chain #105/A Alignment identifier is 105/A > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > ui tool show ""Build Structure"" > build join peptide sel length 1.33 omega 180 phi -120 move small No chain-terminal carbons in atoms > show #104 models > show #105 models > select add #105 21077 atoms, 21241 bonds, 1401 residues, 1 model selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > ui tool show ""Build Structure"" > build join peptide sel length 1.33 omega 180 phi -120 move small No chain-initial nitrogens in atoms > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > ui tool show ""Build Structure"" > build join peptide sel length 1.33 omega 180 phi -120 move small No chain-terminal carbons in atoms > select add #104 30378 atoms, 30652 bonds, 2000 residues, 2 models selected > select subtract #104 14 atoms, 14 bonds, 1 residue, 1 model selected > select add #104 30378 atoms, 30652 bonds, 2000 residues, 2 models selected > select add #105 51441 atoms, 51879 bonds, 3400 residues, 2 models selected > select subtract #105 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #104 Nothing selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > ui tool show ""Build Structure"" > build join peptide sel length 1.33 omega 180 phi -120 move small No chain-terminal carbons in atoms > select add #105 21077 atoms, 21241 bonds, 1401 residues, 1 model selected > select subtract #105 Nothing selected > select #104/A:1999 18 atoms, 17 bonds, 1 residue, 1 model selected > select #105/A:2000 14 atoms, 14 bonds, 1 residue, 1 model selected > view matrix models > #105,0.070652,0.61953,-0.78179,102.78,-0.84869,0.44916,0.27924,15.837,0.52415,0.64377,0.55752,337.8 > undo > select add #105 21077 atoms, 21241 bonds, 1401 residues, 1 model selected > select subtract #105 Nothing selected > open /Users/aho2840/Downloads/GMGC10.011_528_202.ranked_0.1.2000.pdb Chain information for GMGC10.011_528_202.ranked_0.1.2000.pdb #113 --- Chain | Description A | No description available > open > /Users/aho2840/Downloads/GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb Chain information for GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb #114 --- Chain | Description A | No description available > hide #105 models > hide #104 models > select clear > select #105/A:2000-2009 158 atoms, 160 bonds, 10 residues, 1 model selected > log metadata #113 The model has no metadata > log chains #113 Chain information for GMGC10.011_528_202.ranked_0.1.2000.pdb #113 --- Chain | Description A | No description available > sequence chain #113/A Alignment identifier is 113/A > log metadata #114 The model has no metadata > log chains #114 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb #114 --- Chain | Description A | No description available > sequence chain #114/A Alignment identifier is 114/A > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:1-220 3369 atoms, 3404 bonds, 220 residues, 1 model selected > ui tool show Matchmaker No reference and/or match structure/chain chosen > matchmaker #114 & sel to #113 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker GMGC10.011_528_202.ranked_0.1.2000.pdb, chain A (#113) with GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb, chain A (#114), sequence alignment score = 104.4 RMSD between 7 pruned atom pairs is 1.517 angstroms; (across all 188 pairs: 20.322) > undo > select add #105 21077 atoms, 21241 bonds, 1401 residues, 1 model selected > select subtract #105 Nothing selected > ui tool show ""Build Structure"" > log metadata #113 The model has no metadata > log chains #113 Chain information for GMGC10.011_528_202.ranked_0.1.2000.pdb #113 --- Chain | Description A | No description available > sequence chain #113/A Alignment identifier is 113/A > log metadata #114 The model has no metadata > log chains #114 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb #114 --- Chain | Description A | No description available > sequence chain #114/A Alignment identifier is 114/A > select sequence #113:1 Nothing selected > select #113/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > select #113/A:1 16 atoms, 15 bonds, 1 residue, 1 model selected > color sel purple > view matrix models #113,1,0,0,42.424,0,1,0,100.81,0,0,1,51.661 > select > #113/A:10-18,30-42,46-68,70-76,109-128,144-152,159-161,182-190,196-198,201-210,221-229,231-245,259-289,301-303,316-328,334-354,361-379,383-385,394-403,447-458,469-472,487-492,494-505,511-518,530-535,547-555,561-563,568-576,581-597,603-605,624-635,646-670,674-689,695-704,710-726,732-740,743-752,766-775,778-790,793-804,809-821,828-833,836-855,859-869,879-896,915-927,935-958,975-977,984-991,995-1018,1020-1022,1026-1038,1043-1082,1331-1333,1394-1396,1434-1442,1546-1548 10303 atoms, 10318 bonds, 667 residues, 1 model selected > select sequence #113:1601 Nothing selected > color #113-114 blue > select sequence #113:1601 Nothing selected > select sequence #113:1601 Nothing selected > select sequence #113:1601 Nothing selected > color #113-114 red > select sequence #113:1601 Nothing selected > color #113-114 blue > select #113/A:1601 18 atoms, 17 bonds, 1 residue, 1 model selected > select #113/A:1601 18 atoms, 17 bonds, 1 residue, 1 model selected > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #113 Nothing selected > select sequence #113:1600 Nothing selected > select sequence #113:1 Nothing selected > select sequence #113:1 Nothing selected > ui tool show ""Build Structure"" > select sequence #113:1 Nothing selected > select sequence #114:1 Nothing selected > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > color sel light sea green > select subtract #114 Nothing selected > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #114 Nothing selected > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #113 Nothing selected > select clear > select sequence #113:1601 Nothing selected > help help:user/findseq.html > select sequence #113:1601.a Nothing selected Already setting window visible! > select sequence #113:500 Nothing selected > select sequence #113/A:1 Nothing selected > select #113/A:1551-1601 811 atoms, 818 bonds, 51 residues, 1 model selected > select #113/A:1551-1601 811 atoms, 818 bonds, 51 residues, 1 model selected > select #113/A:1551-1601 811 atoms, 818 bonds, 51 residues, 1 model selected > select #113/A:1328 14 atoms, 14 bonds, 1 residue, 1 model selected > select #113/A:1328 14 atoms, 14 bonds, 1 residue, 1 model selected > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #113 Nothing selected > select backbone 430695 atoms, 430577 bonds, 4 pseudobonds, 89407 residues, 119 models selected > select add #114 448950 atoms, 449107 bonds, 4 pseudobonds, 89407 residues, 121 models selected > select subtract #114 418586 atoms, 418469 bonds, 4 pseudobonds, 87408 residues, 120 models selected > view matrix models > #1,0.087933,-0.86706,0.49039,1.006,-0.86483,0.17784,0.4695,53.036,-0.4943,-0.46539,-0.73422,146.35,#2,-0.89897,0.39225,-0.19491,63.905,-0.10755,0.23369,0.96634,-53.218,0.4246,0.88968,-0.16789,47.925,#3,0.99749,0.064305,0.029603,-5.2612,-0.065447,0.99708,0.03939,-1.2343,-0.026983,-0.041229,0.99879,11.051,#4.1,0.99749,0.064305,0.029603,-5.2612,-0.065447,0.99708,0.03939,-1.2343,-0.026983,-0.041229,0.99879,11.051,#4.2,0.99758,0.051631,0.046527,-6.0417,-0.056688,0.99176,0.1149,-5.4915,-0.040211,-0.11726,0.99229,14.197,#5,0.57409,0.66965,0.47116,-6.3931,0.64527,-0.015795,-0.76379,44.265,-0.50403,0.74251,-0.44117,63.42,#6,0.27579,-0.2359,-0.93182,15.69,0.21074,-0.93099,0.29806,93.81,-0.93783,-0.27858,-0.20705,132.23,#7.2,0.9977,0.050561,0.045126,-5.5269,-0.051034,0.99865,0.0093772,0.25557,-0.044591,-0.011659,0.99894,10.103,#8,0.97723,0.10994,0.18147,1.3897,-0.19053,0.078401,0.97855,89.443,0.093351,-0.99084,0.097562,96.294,#10,0.11463,-0.3217,-0.93988,5.3259,0.030004,-0.94456,0.32696,40.351,-0.99296,-0.065679,-0.098622,62.78,#11,-0.2331,0.032389,-0.97191,2.1901,-0.20023,-0.97963,0.015376,39.12,-0.95162,0.19819,0.23483,61.761,#12,0.85337,0.39166,-0.34405,6.346,-0.22223,0.87031,0.43952,37.852,0.47157,-0.29861,0.82973,65.706,#13,0.41258,0.75582,-0.50845,4.3415,-0.74726,-0.03839,-0.66342,31.8,-0.52095,0.65366,0.54895,64.505,#15,0.35313,0.44633,0.82224,-6.2361,0.81687,0.28136,-0.50355,66.733,-0.45609,0.84949,-0.26524,61.735,#14.1,1,-1.2846e-06,-6.2151e-06,-0.67295,1.2846e-06,1,-2.3385e-06,0.67241,6.2151e-06,2.3385e-06,1,9.4751,#14.2,0.95879,0.014013,-0.28376,18.907,-0.28299,-0.041547,-0.95822,89.834,-0.025217,0.99904,-0.035869,22.354,#16,0.83991,0.53959,-0.05829,7.9682,-0.36606,0.48393,-0.79487,31.87,-0.40069,0.68896,0.60398,63.592,#17,-0.84748,-0.5294,0.038979,2.7278,0.52772,-0.84818,-0.045853,76.536,0.057336,-0.018289,0.99819,93.945,#18,-0.30534,0.40056,-0.8639,18.008,-0.66358,-0.74017,-0.10866,71.39,-0.68296,0.54009,0.4918,77.538,#20,-0.83713,0.23992,0.49158,3.8168,-0.52546,-0.60244,-0.60079,76.409,0.15201,-0.76125,0.63039,92.209,#21,-0.83174,-0.086289,0.54841,17.43,-0.083165,-0.95733,-0.27676,73.562,0.54889,-0.2758,0.78908,97.779,#22,0.092029,0.77872,-0.62058,-2.7618,0.77893,-0.44455,-0.44232,32.265,-0.62033,-0.44268,-0.64748,67.724,#23,-0.65444,-0.15282,0.74051,49.396,0.69832,-0.49769,0.51444,70.74,0.28993,0.85378,0.43243,98.775,#24,-0.85369,0.081819,0.51432,58.321,0.45281,-0.37123,0.81065,96.651,0.25725,0.92493,0.27986,100.57,#25,-0.54328,-0.72097,0.43018,6.2198,0.83602,-0.41763,0.35589,76.603,-0.07693,0.55299,0.82963,95.916,#26,-0.04848,-0.75452,-0.65448,0.68405,-0.1903,-0.63627,0.74762,50.425,-0.98053,0.16079,-0.11274,57.978,#27,-0.2312,-0.97003,-0.074728,55.046,0.96915,-0.22288,-0.10521,47.584,0.085402,-0.096747,0.99164,56.559,#28,-0.78826,0.57458,0.22024,-9.7602,0.58249,0.81213,-0.033949,0.17477,-0.19837,0.10152,-0.97486,57.251,#29,-0.17783,-0.56814,-0.80349,1.528,-0.96315,-0.06694,0.2605,-7.7462,-0.20179,0.82021,-0.5353,55.288,#30,-0.94944,-0.094865,-0.29927,24.199,0.31384,-0.31133,-0.89698,16.86,-0.0080808,-0.94555,0.32537,25.059,#31,0.29011,0.90143,-0.32133,8.6584,-0.76381,0.015807,-0.64525,25.138,-0.57657,0.43263,0.69311,70.069,#32,0.21892,-0.1697,-0.96087,5.2658,-0.58693,-0.80958,0.0092521,37.912,-0.77948,0.56194,-0.27684,61.873,#33,0.55912,-0.82856,0.029672,2.4374,0.38431,0.22729,-0.89479,16.02,0.73464,0.5117,0.4455,66.582,#34,0.10824,-0.41674,-0.90256,7.7073,0.95036,-0.22304,0.21695,46.278,-0.29172,-0.88124,0.37191,75.003,#35,-0.64903,-0.42808,-0.62889,39.17,-0.60028,0.79601,0.077671,53.867,0.46735,0.42793,-0.7736,106.89,#36,-0.0049215,-0.99879,0.048959,25.183,0.4139,-0.046604,-0.90913,33.499,0.91031,0.01579,0.41363,0.97237,#37,0.52715,-0.7629,0.3743,4.724,0.72072,0.63474,0.27869,37.28,-0.4502,0.12285,0.88444,57.718,#38,0.84732,0.1896,0.49608,1.3571,0.49773,0.042271,-0.8663,71.685,-0.18522,0.98095,-0.058554,86.275,#39,0.50824,0.56983,-0.64575,22.934,-0.011138,0.7541,0.65667,59.812,0.86115,-0.32655,0.38961,88.719,#40,-0.11307,0.50125,-0.85788,25.317,-0.40072,0.76708,0.50101,51.026,0.9092,0.40042,0.11413,103.41,#41,-0.25773,0.30444,0.917,33.098,0.23234,0.94074,-0.24702,61.843,-0.93787,0.1494,-0.31319,90.781,#42,-0.086963,-0.38639,0.91823,21.93,0.72242,-0.65913,-0.20894,20.511,0.68596,0.64518,0.33645,69.822,#43,-0.2917,-0.95611,-0.027749,-5.0221,-0.54266,0.14153,0.82794,66.218,-0.78767,0.25657,-0.56013,80.175,#44,0.22053,-0.96205,0.16069,-0.15813,-0.7065,-0.043973,0.70634,72.015,-0.67247,-0.2693,-0.68939,84.824,#45.2,0.99967,0.0066633,0.024669,-2.3563,-0.0048116,0.99722,-0.074375,5.0077,-0.025096,0.074232,0.99693,6.9686,#46,0.093944,-0.18137,0.97892,-10.788,-0.082168,0.9785,0.18918,45.599,-0.99218,-0.098208,0.077021,93.768,#47,-0.74537,0.41033,-0.52541,119.36,-0.45766,0.25812,0.85084,-17.586,0.48474,0.87464,-0.0046032,-41.354,#48,0.17057,-0.96514,0.19851,-1.2679,-0.90401,-0.073135,0.42121,79.069,-0.39201,-0.2513,-0.88497,85.059,#49,0.049236,-0.99871,0.01255,0.3041,-0.97362,-0.045189,0.22364,77.973,-0.22278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> ui mousemode right select > select clear > select sequence #113/A:1601 Nothing selected > select sequence #113:1601 Nothing selected > select sequence #113/M:1601 Nothing selected > select sequence #113:1601 Nothing selected > select sequence ""#113: 1601"" Nothing selected > select sequence ""#113: 1"" Nothing selected > select sequence #113:1 Nothing selected > select sequence #114:1 Nothing selected Drag select of 6 residues > select clear > ui mousemode right select > ui mousemode right ""translate selected models"" > select #113/A:1328-1389 953 atoms, 961 bonds, 62 residues, 1 model selected > select #113/A:1328-1453 1904 atoms, 1921 bonds, 126 residues, 1 model selected > view matrix models #113,1,0,0,22.022,0,1,0,112.04,0,0,1,61.437 > view matrix models #113,1,0,0,24.063,0,1,0,110.97,0,0,1,61.129 > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #113 Nothing selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > color sel red > view matrix models > #114,0.46432,0.27628,0.84147,47.474,0.84179,0.15767,-0.51627,1.4006,-0.27531,0.94806,-0.15936,-37.274 > view matrix models > #114,0.46432,0.27628,0.84147,58.356,0.84179,0.15767,-0.51627,23.459,-0.27531,0.94806,-0.15936,-40.269 > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > view matrix models > #114,0.46432,0.27628,0.84147,93.568,0.84179,0.15767,-0.51627,-5.0543,-0.27531,0.94806,-0.15936,-49.126 > view matrix models > #114,0.46432,0.27628,0.84147,104.47,0.84179,0.15767,-0.51627,20.736,-0.27531,0.94806,-0.15936,-52.157 > select subtract #114 Nothing selected > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > view matrix models #113,1,0,0,12.507,0,1,0,55.885,0,0,1,64.573 > select #113/A:1601 18 atoms, 17 bonds, 1 residue, 1 model selected > select #113/A:1601 18 atoms, 17 bonds, 1 residue, 1 model selected > color sel lime > view matrix models #113,1,0,0,8.1859,0,1,0,37.47,0,0,1,57.072 > ui mousemode right ""rotate selected models"" > view matrix models > #113,0.98482,-0.048637,-0.16663,8.0868,0.16349,-0.062719,0.98455,42.791,-0.058336,-0.99685,-0.053815,58.863 > view matrix models > #113,0.99064,0.053136,-0.1257,7.8474,0.12547,-0.71686,0.68584,44.296,-0.053665,-0.69519,-0.71682,57.407 > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #113 Nothing selected > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > select subtract #113 Nothing selected > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > view matrix models > #114,0.31496,0.52687,0.78944,100.53,0.43207,-0.82017,0.37501,21.258,0.84506,0.22298,-0.48596,-30.471 > view matrix models > #114,0.33794,0.48758,0.80502,101,-0.0026174,-0.85485,0.51886,18.665,0.94116,-0.17745,-0.28761,-26.645 > ui mousemode right ""translate selected models"" > view matrix models > #114,0.33794,0.48758,0.80502,108.85,-0.0026174,-0.85485,0.51886,35.154,0.94116,-0.17745,-0.28761,-18.01 > ui mousemode right ""rotate selected models"" > view matrix models > #114,0.28427,0.57713,0.76558,107.87,0.017549,-0.80152,0.59771,32.511,0.95858,-0.15648,-0.23797,-19.425 > view matrix models > #114,0.13603,0.53223,0.8356,107.2,0.20108,-0.84072,0.50275,35.359,0.97009,0.099631,-0.22138,-24.759 > select subtract #114 Nothing selected > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #114 Nothing selected > select add #113 24144 atoms, 24336 bonds, 1601 residues, 1 model selected > view matrix models > #113,0.38071,0.92446,0.020559,0.79506,-0.39119,0.14087,0.90947,38.033,0.83787,-0.35429,0.41527,63.822 > view matrix models > #113,0.091164,0.83199,0.54725,-0.59859,-0.99583,0.077897,0.047464,33.082,-0.0031402,-0.5493,0.83562,58.619 > ui mousemode right ""translate selected models"" > view matrix models > #113,0.091164,0.83199,0.54725,28.726,-0.99583,0.077897,0.047464,35.39,-0.0031402,-0.5493,0.83562,56.768 > view matrix models > #113,0.091164,0.83199,0.54725,33.333,-0.99583,0.077897,0.047464,30.744,-0.0031402,-0.5493,0.83562,53.596 > select subtract #113 Nothing selected > ui mousemode right select Drag select of 2 residues > ui tool show ""Build Structure"" > build join peptide sel length 1.33 omega 180 phi -120 move small > select add #114 54505 atoms, 54972 bonds, 3600 residues, 1 model selected > select subtract #114 Nothing selected > select add #114 54505 atoms, 54972 bonds, 3600 residues, 1 model selected > select subtract #114 Nothing selected > select #114/A:1602 17 atoms, 16 bonds, 1 residue, 1 model selected > select #114/A:1602-1610 152 atoms, 152 bonds, 9 residues, 1 model selected > log metadata #104 The model has no metadata > log chains #104 Chain information for GMGC10.011_528_202.ranked_0.1.2000.ranked_0.pdb #104 --- Chain | Description A | No description available > sequence chain #104/A Alignment identifier is 104/A > select add #114 54505 atoms, 54972 bonds, 3600 residues, 1 model selected > select subtract #114 Nothing selected > log metadata #114 The model has no metadata > log chains #114 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb #114 --- Chain | Description A | No description available > sequence chain #114/A Alignment identifier is 114/A Drag select of 259 residues > undo Undo failed, probably because structures have been modified. > select add #114 54505 atoms, 54972 bonds, 3600 residues, 1 model selected > select subtract #114 Nothing selected > close #114 > open /Users/aho2840/Downloads/GMGC10.011_528_202.ranked_0.1.2000.pdb Chain information for GMGC10.011_528_202.ranked_0.1.2000.pdb #113 --- Chain | Description A | No description available > open > /Users/aho2840/Downloads/GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb Chain information for GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb #114 --- Chain | Description A | No description available > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected Drag select of 187 residues > ui mousemode right ""translate selected models"" > select add #113 26356 atoms, 24336 bonds, 1742 residues, 2 models selected > select subtract #113 2212 atoms, 141 residues, 1 model selected > view matrix models #114,1,0,0,-78.219,0,1,0,37.594,0,0,1,-98.102 > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #114 Nothing selected > log metadata #113 The model has no metadata > log chains #113 Chain information for GMGC10.011_528_202.ranked_0.1.2000.pdb #113 --- Chain | Description A | No description available > sequence chain #113/A Alignment identifier is 113/A > select #113/A:1601 18 atoms, 17 bonds, 1 residue, 1 model selected > select #113/A:1601 18 atoms, 17 bonds, 1 residue, 1 model selected > color sel lime > log metadata #113 The model has no metadata > log chains #113 Chain information for GMGC10.011_528_202.ranked_0.1.2000.pdb #113 --- Chain | Description A | No description available > log metadata #114 The model has no metadata > log chains #114 Chain information for GMGC10.011_528_202.ranked_0.1800.3500.ranked_0.pdb #114 --- Chain | Description A | No description available > sequence chain #114/A Alignment identifier is 114/A > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:113-170 872 atoms, 877 bonds, 58 residues, 1 model selected > select #114/A:113-170 872 atoms, 877 bonds, 58 residues, 1 model selected > select #114/A:115-116 28 atoms, 28 bonds, 2 residues, 1 model selected > select #114/A:115-357 3627 atoms, 3657 bonds, 243 residues, 1 model selected > select #114/A:340-396 827 atoms, 830 bonds, 57 residues, 1 model selected > select #114/A:340-584 3675 atoms, 3701 bonds, 245 residues, 1 model selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:3 14 atoms, 13 bonds, 1 residue, 1 model selected > select #114/A:3-302 4580 atoms, 4624 bonds, 300 residues, 1 model selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > select #114/A:1 19 atoms, 18 bonds, 1 residue, 1 model selected > view matrix models #114,1,0,0,-56.047,0,1,0,65.157,0,0,1,-25.546 > view matrix models #114,1,0,0,-34.375,0,1,0,59.469,0,0,1,-7.3837 > color sel red > ui mousemode right ""rotate selected models"" > view matrix models > #114,-0.27005,0.020461,-0.96263,-15.976,-0.72402,0.65474,0.21703,61.228,0.63472,0.75557,-0.162,2.1519 > ui mousemode right ""translate selected models"" > view matrix models > #114,-0.27005,0.020461,-0.96263,-1.4491,-0.72402,0.65474,0.21703,36.958,0.63472,0.75557,-0.162,-2.3183 > ui mousemode right select > select add #114 30364 atoms, 30638 bonds, 1999 residues, 1 model selected > select subtract #114 Nothing selected Drag select of 2 residues > ui tool show ""Build Structure"" > build join peptide sel length 1.33 omega 180 phi -120 move small ===== Log before crash end ===== Log: You can double click a model's Name or ID in the model panel to edit those fields UCSF ChimeraX version: 1.8.dev202403210048 (2024-03-21) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX Compositor returned null texture OpenGL version: 4.1 Metal - 88.1 OpenGL renderer: Apple M2 OpenGL vendor: Apple Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Air Model Identifier: Mac14,2 Model Number: Z160000B1LL/A Chip: Apple M2 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 11881.101.1 OS Loader Version: 10151.140.19.700.2 Software: System Software Overview: System Version: macOS 14.7.5 (23H527) Kernel Version: Darwin 23.6.0 Time since boot: 28 days, 14 hours, 57 minutes Graphics/Displays: Apple M2: Chipset Model: Apple M2 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina Display Resolution: 2560 x 1664 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No Connection Type: Internal Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.14.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.1.1 certifi: 2023.11.17 cftime: 1.6.3 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.16 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.4.3 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.5 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.56 ChimeraX-AtomicLibrary: 14.0.2 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.2 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: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.5 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.8.dev202403210048 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 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: 1.1.9 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.1.4 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 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.15 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: 1.1 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.1 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.3 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: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.3 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: 1.0 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: 1.16.3 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.2 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: 1.37.1 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.3.2 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: 1.1.3 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.2.0 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.9 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.1 fonttools: 4.50.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 grako: 3.16.5 h5py: 3.10.0 html2text: 2024.2.26 idna: 3.6 ihm: 0.43 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.2 jedi: 0.19.1 Jinja2: 3.1.3 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.10 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.1.0 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.3 matplotlib-inline: 0.1.6 msgpack: 1.0.8 ndindex: 1.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.2.1 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.9.0 numpy: 1.26.4 openvr: 1.26.701 packaging: 23.2 ParmEd: 4.2.2 parso: 0.8.3 pep517: 0.13.1 pexpect: 4.9.0 pillow: 10.2.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.0 prompt-toolkit: 3.0.43 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.3.0 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3302 pyparsing: 3.1.2 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.2 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.2 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 25.1.2 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.12.0 setuptools: 69.2.0 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: 2.0.0 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: 0.6.1 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4 traitlets: 5.14.1 typing-extensions: 4.10.0 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.10 }}} " defect new normal Unassigned