id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 9425 Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0 jackieliu0406@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-13.4.1-arm64-arm-64bit ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Segmentation fault Current thread 0x00000001f3bf5e00 (most recent call first): File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py"", line 275 in event_loop File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 892 in init File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py"", line 1043 in File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 87 in _run_code File ""/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py"", line 197 in _run_module_as_main {""app_name"":""ChimeraX"",""timestamp"":""2023-07-21 11:39:40.00 -0400"",""app_version"":""1.6.1"",""slice_uuid"":""a5992708-d5b4-36ec-ac0a-e525f6105b56"",""build_version"":""1.6.1.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":0,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 13.4.1 (22F770820d)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""00EB7021-7389-4404-9C34-226CB81ACA45""} { ""uptime"" : 360000, ""procRole"" : ""Background"", ""version"" : 2, ""userID"" : 503, ""deployVersion"" : 210, ""modelCode"" : ""MacBookPro18,3"", ""coalitionID"" : 1719, ""osVersion"" : { ""train"" : ""macOS 13.4.1"", ""build"" : ""22F770820d"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2023-07-21 11:39:33.9438 -0400"", ""incident"" : ""00EB7021-7389-4404-9C34-226CB81ACA45"", ""pid"" : 64432, ""translated"" : false, ""cpuType"" : ""ARM-64"", ""roots_installed"" : 0, ""bug_type"" : ""309"", ""procLaunch"" : ""2023-07-19 00:11:10.5911 -0400"", ""procStartAbsTime"" : 5083386374047, ""procExitAbsTime"" : 8735516580793, ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.6.1"",""CFBundleVersion"":""1.6.1.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""4009FAF6-E9AB-50BF-9F04-0B89775FDB68"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""99DA3F3A-511F-2832-8536-7AEDB6E711CB"", ""codeSigningID"" : ""edu.ucsf.cgl.ChimeraX"", ""codeSigningTeamID"" : ""LWV8X224YF"", ""codeSigningFlags"" : 570491649, ""codeSigningValidationCategory"" : 6, ""codeSigningTrustLevel"" : 0, ""wakeTime"" : 2208, ""sleepWakeUUID"" : ""6F3D14E0-146B-4B0D-963A-5EEC94580620"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x18 is not in any region. 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""experiments"" : [ { ""treatmentId"" : ""c28e4ee6-1b08-4f90-8e05-2809e78310a3"", ""experimentId"" : ""6317d2003d24842ff850182a"", ""deploymentId"" : 400000013 } ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/TEST/Downloads/cryosparc_P79_J125_007_volume_map.mrc Opened cryosparc_P79_J125_007_volume_map.mrc as #1, grid size 416,416,416, pixel 0.855, shown at level 0.0867, step 2, values float32 > volume #1 step 1 > volume #1 level 0.09256 > volume #1 level 0.1069 > set bgColor white > volume #1 level 0.09509 > volume #1 level 0.1027 > color #1 #797979ff models > color #1 #919191ff models > open 6w77 6w77 title: 30S-Inactivated-high-Mg2+ Class A [more info...] Chain information for 6w77 #2 --- Chain | Description | UniProt A | RNA (1519-MER) | C | 30S ribosomal protein S3 | RS3_ECOLI 0-232 D | 30S ribosomal protein S4 | RS4_ECOLI 1-206 E | 30S ribosomal protein S5 | RS5_ECOLI 1-167 F | 30S ribosomal protein S6 | RS6_ECOLI 1-135 H | 30S ribosomal protein S8 | RS8_ECOLI 1-130 I | 30S ribosomal protein S9 | RS9_ECOLI 0-129 J | 30S ribosomal protein S10 | RS10_ECOLI 1-103 K | 30S ribosomal protein S11 | RS11_ECOLI 1-129 L | 30S ribosomal protein S12 | RS12_ECOLI 1-124 M | 30S ribosomal protein S13 | RS13_ECOLI 0-117 N | 30S ribosomal protein S14 | RS14_ECOLI 0-100 O | 30S ribosomal protein S15 | RS15_ECOLI 1-89 P | 30S ribosomal protein S16 | RS16_ECOLI 1-82 Q | 30S ribosomal protein S17 | RS17_ECOLI 1-84 R | 30S ribosomal protein S18 | RS18_ECOLI 1-75 S | 30S ribosomal protein S19 | RS19_ECOLI 0-91 T | 30S ribosomal protein S20 | RS20_ECOLI 1-87 > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #2,0.55753,-0.7907,-0.25287,236.02,-0.72573,-0.61214,0.31399,317.99,-0.40307,0.0084532,-0.91513,374.82 > view matrix models > #2,0.30082,-0.43277,-0.84983,321.06,-0.9185,-0.37127,-0.13607,386.39,-0.25663,0.8215,-0.50919,161.07 > ui mousemode right ""translate selected models"" > view matrix models > #2,0.30082,-0.43277,-0.84983,331.35,-0.9185,-0.37127,-0.13607,389.65,-0.25663,0.8215,-0.50919,184.5 > fitmap #2 inMap #1 Fit molecule 6w77 (#2) to map cryosparc_P79_J125_007_volume_map.mrc (#1) using 47940 atoms average map value = 0.09668, steps = 276 shifted from previous position = 12.9 rotated from previous position = 20.2 degrees atoms outside contour = 28077, contour level = 0.10268 Position of 6w77 (#2) relative to cryosparc_P79_J125_007_volume_map.mrc (#1) coordinates: Matrix rotation and translation 0.21877371 -0.56054250 -0.79870531 368.21832500 -0.97283055 -0.06174983 -0.22313154 358.14923798 0.07575479 0.82582024 -0.55882211 143.26143892 Axis 0.73532173 -0.61300198 -0.28901649 Axis point 0.00000000 290.89925984 247.83235711 Rotation angle (degrees) 134.49918464 Shift along axis 9.80782540 > select subtract #2 Nothing selected > preset cartoons/nucleotides ribbons/slabs Using preset: Cartoons/Nucleotides / Ribbons/Slabs Changed 47940 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > volume #1 level 0.1035 > undo > color #2 #73fcd6ff > undo > lighting flat > lighting soft > lighting full > lighting soft > lighting simple > lighting soft > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > volume #1 level 0.09509 > show #!2 models > open /Users/TEST/Downloads/cryosparc_P50_J423_class_00_final_volume.mrc Opened cryosparc_P50_J423_class_00_final_volume.mrc as #3, grid size 192,192,192, pixel 1.85, shown at level 0.192, step 1, values float32 > volume flip #3 Opened cryosparc_P50_J423_class_00_final_volume.mrc z flip as #4, grid size 192,192,192, pixel 1.85, shown at step 1, values float32 > hide #!1 models > hide #!2 models > select add #4 2 models selected > view matrix models #4,1,0,0,6.5391,0,1,0,-7.9999,0,0,1,27.644 > ui mousemode right ""rotate selected models"" > select subtract #4 Nothing selected > volume #4 level 0.2139 > volume #4 level 0.1195 > volume #4 level 0.1891 > show #!2 models > select add #4 2 models selected > view matrix models > #4,-0.97988,-0.17419,0.097456,370.42,-0.1434,0.95399,0.26334,-23.635,-0.13884,0.24407,-0.95977,375.37 > ui mousemode right ""translate selected models"" > view matrix models > #4,-0.97988,-0.17419,0.097456,363.74,-0.1434,0.95399,0.26334,-18.504,-0.13884,0.24407,-0.95977,327.1 > fitmap #2 inMap #4 Fit molecule 6w77 (#2) to map cryosparc_P50_J423_class_00_final_volume.mrc z flip (#4) using 47940 atoms average map value = 0.2166, steps = 132 shifted from previous position = 9.64 rotated from previous position = 8.12 degrees atoms outside contour = 24362, contour level = 0.18907 Position of 6w77 (#2) relative to cryosparc_P50_J423_class_00_final_volume.mrc z flip (#4) coordinates: Matrix rotation and translation -0.19521377 0.49394263 0.84729704 -15.02456625 -0.94662006 0.13106531 -0.29450358 347.70157749 -0.25651912 -0.85955952 0.44199025 269.46478478 Axis -0.29727769 0.58072112 -0.75788452 Axis point 105.32072348 283.96607224 0.00000000 Rotation angle (degrees) 108.12427432 Shift along axis 2.16092816 > select subtract #4 Nothing selected > open /Users/TEST/Downloads/cryosparc_P79_J127_008_volume_map.mrc Opened cryosparc_P79_J127_008_volume_map.mrc as #5, grid size 416,416,416, pixel 0.855, shown at level 0.0589, step 2, values float32 > volume #5 step 1 > volume #5 level 0.06216 > select add #5 2 models selected > view matrix models #5,1,0,0,-0.093502,0,1,0,3.1372,0,0,1,-14.095 > hide #!4 models > fitmap #2 inMap #5 Fit molecule 6w77 (#2) to map cryosparc_P79_J127_008_volume_map.mrc (#5) using 47940 atoms average map value = 0.07461, steps = 140 shifted from previous position = 4.5 rotated from previous position = 7.53 degrees atoms outside contour = 24717, contour level = 0.062158 Position of 6w77 (#2) relative to cryosparc_P79_J127_008_volume_map.mrc (#5) coordinates: Matrix rotation and translation 0.24290603 -0.55517505 -0.79547302 364.12324903 -0.96577054 -0.06146516 -0.25201052 363.73182507 0.09101608 0.82945928 -0.55110197 140.38635933 Axis 0.74205181 -0.60826556 -0.28173059 Axis point 0.00000000 289.41894277 246.98332142 Rotation angle (degrees) 133.22228220 Shift along axis 9.40164051 > show #!4 models > hide #!4 models > show #!4 models > hide #!4 models > select subtract #5 Nothing selected > volume #5 level 0.09217 > volume #5 level 0.1125 > fitmap #2 inMap #5 Fit molecule 6w77 (#2) to map cryosparc_P79_J127_008_volume_map.mrc (#5) using 47940 atoms average map value = 0.07461, steps = 40 shifted from previous position = 0.0142 rotated from previous position = 0.00666 degrees atoms outside contour = 33656, contour level = 0.11253 Position of 6w77 (#2) relative to cryosparc_P79_J127_008_volume_map.mrc (#5) coordinates: Matrix rotation and translation 0.24291875 -0.55517841 -0.79546679 364.11914446 -0.96575673 -0.06137711 -0.25208490 363.73838296 0.09112864 0.82946355 -0.55107694 140.35444861 Axis 0.74204559 -0.60828919 -0.28169596 Axis point 0.00000000 289.43202725 246.97358470 Rotation angle (degrees) 133.21733690 Shift along axis 9.39759880 > volume #5 level 0.04286 > open /Users/TEST/Downloads/cryosparc_P50_J434_class_01_00248_volume.mrc Opened cryosparc_P50_J434_class_01_00248_volume.mrc as #6, grid size 128,128,128, pixel 2.78, shown at level 0.299, step 1, values float32 > hide #!5 models > select add #6 2 models selected > view matrix models #6,1,0,0,1.1666,0,1,0,3.9056,0,0,1,-4.7934 > select subtract #6 Nothing selected > volume flip #6 Opened cryosparc_P50_J434_class_01_00248_volume.mrc z flip as #7, grid size 128,128,128, pixel 2.78, shown at step 1, values float32 > select add #7 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #7,-0.97002,-0.13584,0.20151,337.85,-0.107,0.98322,0.14772,-0.93019,-0.21819,0.12173,-0.96828,369.02 > ui mousemode right ""translate selected models"" > view matrix models > #7,-0.97002,-0.13584,0.20151,340.31,-0.107,0.98322,0.14772,-12.236,-0.21819,0.12173,-0.96828,353.9 > fitmap #2 inMap #7 Fit molecule 6w77 (#2) to map cryosparc_P50_J434_class_01_00248_volume.mrc z flip (#7) using 47940 atoms average map value = 0.3369, steps = 128 shifted from previous position = 3.84 rotated from previous position = 9.4 degrees atoms outside contour = 24741, contour level = 0.29876 Position of 6w77 (#2) relative to cryosparc_P50_J434_class_01_00248_volume.mrc z flip (#7) coordinates: Matrix rotation and translation -0.20042099 0.49315277 0.84654106 -14.21111600 -0.94586456 0.12775552 -0.29836013 348.30852109 -0.25528742 -0.86051082 0.44085084 268.18724098 Axis -0.29624609 0.58064926 -0.75834339 Axis point 105.24349246 283.14967932 0.00000000 Rotation angle (degrees) 108.41559635 Shift along axis 3.07705095 > select subtract #7 Nothing selected > volume #7 level 0.3816 > volume #7 level 0.3559 > volume #7 level 0.3958 > volume #7 level 0.3073 > volume #7 level 0.2816 > open /Users/TEST/Downloads/cryosparc_P79_J131_006_volume_map.mrc Opened cryosparc_P79_J131_006_volume_map.mrc as #8, grid size 416,416,416, pixel 0.855, shown at level 0.0595, step 2, values float32 > open /Users/TEST/Downloads/cryosparc_P79_J132_006_volume_map.mrc Opened cryosparc_P79_J132_006_volume_map.mrc as #9, grid size 416,416,416, pixel 0.855, shown at level 0.0622, step 2, values float32 > hide #!7 models > hide #!2 models > show #!2 models > select add #8 2 models selected > select add #9 4 models selected > select subtract #8 2 models selected > select subtract #9 Nothing selected > volume #9 step 1 > volume #8 step 1 > volume #8 level 0.07936 > volume #9 level 0.07921 > hide #!9 models > fitmap #2 inMap #8 Fit molecule 6w77 (#2) to map cryosparc_P79_J131_006_volume_map.mrc (#8) using 47940 atoms average map value = 0.0742, steps = 156 shifted from previous position = 17.4 rotated from previous position = 9.59 degrees atoms outside contour = 27387, contour level = 0.079361 Position of 6w77 (#2) relative to cryosparc_P79_J131_006_volume_map.mrc (#8) coordinates: Matrix rotation and translation 0.24500821 -0.55258225 -0.79663281 363.74173354 -0.96560833 -0.06533433 -0.25165845 363.90868252 0.08701452 0.83089367 -0.54958547 140.60899868 Axis 0.74291446 -0.60641365 -0.28344414 Axis point 0.00000000 288.68907969 247.30931439 Rotation angle (degrees) 133.23213052 Shift along axis 9.69500422 > volume #8 level 0.09627 > show #!9 models > hide #!2 models > fitmap #8 inMap #9 Fit map cryosparc_P79_J131_006_volume_map.mrc in map cryosparc_P79_J132_006_volume_map.mrc using 401218 points correlation = 0.9863, correlation about mean = 0.8446, overlap = 8474 steps = 44, shift = 0.186, angle = 0.0708 degrees Position of cryosparc_P79_J131_006_volume_map.mrc (#8) relative to cryosparc_P79_J132_006_volume_map.mrc (#9) coordinates: Matrix rotation and translation 0.99999949 -0.00023461 -0.00098620 0.13365912 0.00023531 0.99999972 0.00070796 -0.14308619 0.00098603 -0.00070819 0.99999926 0.12109384 Axis -0.57263374 -0.79748656 0.19001524 Axis point -111.00713067 0.00000000 170.76375953 Rotation angle (degrees) 0.07084795 Shift along axis 0.06058126 > fitmap #8 inMap #9 Fit map cryosparc_P79_J131_006_volume_map.mrc in map cryosparc_P79_J132_006_volume_map.mrc using 401218 points correlation = 0.9863, correlation about mean = 0.8446, overlap = 8474 steps = 28, shift = 0.0131, angle = 0.00976 degrees Position of cryosparc_P79_J131_006_volume_map.mrc (#8) relative to cryosparc_P79_J132_006_volume_map.mrc (#9) coordinates: Matrix rotation and translation 0.99999941 -0.00023826 -0.00106002 0.14072122 0.00023885 0.99999982 0.00055458 -0.12867685 0.00105988 -0.00055483 0.99999928 0.08293705 Axis -0.45472228 -0.86889948 0.19555395 Axis point -66.32777785 0.00000000 160.26114959 Rotation angle (degrees) 0.06989376 Shift along axis 0.06403684 > fitmap #8 inMap #9 Fit map cryosparc_P79_J131_006_volume_map.mrc in map cryosparc_P79_J132_006_volume_map.mrc using 401218 points correlation = 0.9863, correlation about mean = 0.8445, overlap = 8471 steps = 40, shift = 0.00693, angle = 0.0055 degrees Position of cryosparc_P79_J131_006_volume_map.mrc (#8) relative to cryosparc_P79_J132_006_volume_map.mrc (#9) coordinates: Matrix rotation and translation 0.99999945 -0.00023551 -0.00102305 0.12876356 0.00023616 0.99999977 0.00064314 -0.13907468 0.00102290 -0.00064338 0.99999927 0.10367319 Axis -0.52245814 -0.83087136 0.19154706 Axis point -88.47787489 0.00000000 160.70654232 Rotation angle (degrees) 0.07054324 Shift along axis 0.06813789 > show #!2 models > volume #9 level 0.1007 > volume #9 level 0.07832 > volume #9 level 0.08458 > volume #9 level 0.08995 > open /Users/TEST/Downloads/cryosparc_P50_J476_006_volume_map.mrc Opened cryosparc_P50_J476_006_volume_map.mrc as #10, grid size 416,416,416, pixel 0.855, shown at level 0.064, step 2, values float32 > volume #10 step 1 > volume flip #10 Opened cryosparc_P50_J476_006_volume_map.mrc z flip as #11, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #11 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #11,-0.93413,-0.17427,0.31151,307.82,-0.17353,0.98436,0.030327,27.205,-0.31192,-0.025725,-0.94976,396.16 > hide #!2 models > fitmap #11 inMap #9 Fit map cryosparc_P50_J476_006_volume_map.mrc z flip in map cryosparc_P79_J132_006_volume_map.mrc using 720349 points correlation = 0.9123, correlation about mean = 0.5603, overlap = 7825 steps = 212, shift = 20.1, angle = 17.2 degrees Position of cryosparc_P50_J476_006_volume_map.mrc z flip (#11) relative to cryosparc_P79_J132_006_volume_map.mrc (#9) coordinates: Matrix rotation and translation -0.99501099 -0.05327031 0.08435287 348.19506360 -0.04061339 0.98856437 0.14522762 -21.26669832 -0.09112456 0.14107722 -0.98579589 350.74274165 Axis -0.02358418 0.99713142 0.07192160 Axis point 181.60548878 0.00000000 168.44404353 Rotation angle (degrees) 174.95195174 Shift along axis -4.19161080 > select subtract #11 Nothing selected > hide #!9 models > volume #10 level 0.09411 > volume #11 level 0.0781 > volume #11 level 0.09604 > show #!9 models > volume #9 level 0.09174 > volume #9 level 0.1016 > show #!10 models > hide #!10 models > volume #9 level 0.09532 > volume #9 level 0.05595 > volume #9 level 0.07832 > volume #9 level 0.07295 > volume #9 level 0.09174 > volume #9 level 0.08995 > volume #9 level 0.098 > volume #9 level 0.08547 > volume #9 level 0.09532 > show #!2 models > fitmap #2 inMap #9 Fit molecule 6w77 (#2) to map cryosparc_P79_J132_006_volume_map.mrc (#9) using 47940 atoms average map value = 0.07328, steps = 108 shifted from previous position = 0.321 rotated from previous position = 0.122 degrees atoms outside contour = 30325, contour level = 0.095318 Position of 6w77 (#2) relative to cryosparc_P79_J132_006_volume_map.mrc (#9) coordinates: Matrix rotation and translation 0.24562540 -0.55409602 -0.79539032 363.60744515 -0.96545788 -0.06624090 -0.25199848 364.22850474 0.08694399 0.82981308 -0.55122682 141.34560649 Axis 0.74333341 -0.60626877 -0.28265459 Axis point 0.00000000 288.57808983 247.22322739 Rotation angle (degrees) 133.30809428 Shift along axis 9.50920682 > open /Users/TEST/Downloads/cryosparc_P50_J458_006_volume_map.mrc Opened cryosparc_P50_J458_006_volume_map.mrc as #12, grid size 416,416,416, pixel 0.855, shown at level 0.0852, step 2, values float32 > hide #!2 models > volume #12 step 1 > volume #12 level 0.09266 > volume #12 level 0.1002 > volume #12 level 0.1039 > hide #!12 models > open /Users/TEST/Downloads/cryosparc_P79_J104_006_volume_map.mrc Opened cryosparc_P79_J104_006_volume_map.mrc as #13, grid size 416,416,416, pixel 0.855, shown at level 0.089, step 2, values float32 > volume flip #13 Opened cryosparc_P79_J104_006_volume_map.mrc z flip as #14, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > volume #14 level 0.1033 > show #!2 models > select add #14 2 models selected > view matrix models > #14,0.99959,0.019702,-0.020867,0.57935,0.028683,-0.70972,0.7039,153.12,-0.00094133,-0.70421,-0.70999,430.57 > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 192 shifted from previous position = 23.9 rotated from previous position = 5.61 degrees atoms outside contour = 30907, contour level = 0.10333 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13753133 -0.59911625 -0.78876160 384.36011301 0.65785723 -0.54007107 0.52492581 75.35257186 -0.74047890 -0.59108627 0.31985626 342.84035407 Axis -0.66365874 -0.02871227 0.74748423 Axis point 316.89136793 184.27313237 0.00000000 Rotation angle (degrees) 122.77502361 Shift along axis -0.97973217 > select subtract #14 Nothing selected > volume #14 level 0.1114 > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 76 shifted from previous position = 0.0127 rotated from previous position = 0.00428 degrees atoms outside contour = 33389, contour level = 0.11137 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13751885 -0.59909882 -0.78877701 384.36275068 0.65791248 -0.54004519 0.52488320 75.35172563 -0.74043213 -0.59112757 0.31988820 342.82277881 Axis -0.66364644 -0.02874874 0.74749375 Axis point 316.88001793 184.28199502 0.00000000 Rotation angle (degrees) 122.77347914 Shift along axis -0.98935373 > hide #!2 models > volume #14 color darkgrey > volume #14 color #929292 > volume #14 color darkgrey > show #!2 models > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 48 shifted from previous position = 0.00304 rotated from previous position = 0.00214 degrees atoms outside contour = 33384, contour level = 0.11137 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13752241 -0.59908607 -0.78878607 384.36113735 0.65793879 -0.54003077 0.52486505 75.34928754 -0.74040809 -0.59115366 0.31989563 342.81916095 Axis -0.66364471 -0.02876815 0.74749455 Axis point 316.87750007 184.28642437 0.00000000 Rotation angle (degrees) 122.77261314 Shift along axis -0.99144164 > hide #!2 models > volume #14 level 0.1158 > show #!2 models > sequence chain #2/A Alignment identifier is 2/A > hide #!12 models > select /A:721 23 atoms, 25 bonds, 1 residue, 1 model selected > select /A:721-810 1943 atoms, 2177 bonds, 45 pseudobonds, 90 residues, 2 models selected > select /A:765 23 atoms, 25 bonds, 1 residue, 1 model selected > select /A:721-765 973 atoms, 1089 bonds, 9 pseudobonds, 45 residues, 2 models selected > select /A:770-771 43 atoms, 47 bonds, 2 residues, 1 model selected > select /A:721-771 1105 atoms, 1238 bonds, 9 pseudobonds, 51 residues, 2 models selected > select /A:782-783 42 atoms, 46 bonds, 2 residues, 1 model selected > select /A:676-783 2339 atoms, 2623 bonds, 45 pseudobonds, 108 residues, 2 models selected > select /A:788 20 atoms, 21 bonds, 1 residue, 1 model selected > select /A:721-788 1478 atoms, 1658 bonds, 9 pseudobonds, 68 residues, 2 models selected > select /A:765 23 atoms, 25 bonds, 1 residue, 1 model selected > select /A:676-765 1944 atoms, 2178 bonds, 44 pseudobonds, 90 residues, 2 models selected > select /A:721-769 1062 atoms, 1190 bonds, 9 pseudobonds, 49 residues, 2 models selected > select /A:721-853 2865 atoms, 3208 bonds, 66 pseudobonds, 133 residues, 2 models selected > select /A:855 20 atoms, 21 bonds, 1 residue, 1 model selected > select /A:766-855 1932 atoms, 2162 bonds, 60 pseudobonds, 90 residues, 2 models selected > select /A:811 20 atoms, 21 bonds, 1 residue, 1 model selected > select /A:811-855 962 atoms, 1074 bonds, 22 pseudobonds, 45 residues, 2 models selected > select /A:781 22 atoms, 24 bonds, 1 residue, 1 model selected > select /A:781-855 1601 atoms, 1789 bonds, 34 pseudobonds, 75 residues, 2 models selected > select /A:810 20 atoms, 21 bonds, 1 residue, 1 model selected > select /A:780-810 661 atoms, 739 bonds, 13 pseudobonds, 31 residues, 2 models selected > volume #12 level 0.08892 > volume #14 level 0.07475 > volume #14 level 0.07743 > volume #14 level 0.08815 > volume #14 level 0.08011 > ui tool show ""Color Zone"" > color zone #14 near sel distance 5.13 > color zone #14 near sel distance 5.23 > color zone #14 near sel distance 5.33 > color zone #14 near sel distance 5.43 > color zone #14 near sel distance 5.53 > color zone #14 near sel distance 5.63 > color zone #14 near sel distance 5.73 > color zone #14 near sel distance 5.83 > color zone #14 near sel distance 5.93 > color zone #14 near sel distance 6.03 > color zone #14 near sel distance 6.13 > color zone #14 near sel distance 6.23 > color zone #14 near sel distance 6.13 > color zone #14 near sel distance 5 > color single #14 > hide #* target a > show (#!2 & sel) target ab > undo > select ~sel 47279 atoms, 51317 bonds, 1434 pseudobonds, 3437 residues, 29 models selected > cartoon hide (#!2 & sel) > undo > color (#!2 & sel) magenta > undo > color (#!2 & sel) magenta > view matrix models > #2,-0.90031,-0.37969,0.21276,365.64,-0.43137,0.84347,-0.32011,146.45,-0.057915,-0.37998,-0.92318,386.74 > undo > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > select subtract #2 Nothing selected > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 80 shifted from previous position = 0.00334 rotated from previous position = 0.00534 degrees atoms outside contour = 23078, contour level = 0.080113 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13751872 -0.59911920 -0.78876156 384.36250589 0.65787307 -0.54006316 0.52491411 75.35535585 -0.74046717 -0.59109050 0.31987559 342.82445022 Axis -0.66365058 -0.02871905 0.74749122 Axis point 316.88125817 184.27466370 0.00000000 Rotation angle (degrees) 122.77452494 Shift along axis -0.98826664 > volume #14 level 0.07609 > hide #!2 models > show #!2 models > hide #!14 models > select /A:811 20 atoms, 21 bonds, 1 residue, 1 model selected > select /A:811-822 257 atoms, 287 bonds, 12 residues, 1 model selected > select /A:803-804 43 atoms, 47 bonds, 2 residues, 1 model selected > select /A:803-810 168 atoms, 186 bonds, 8 residues, 1 model selected > select /A:751 20 atoms, 21 bonds, 1 residue, 1 model selected > select /A:751-772 474 atoms, 530 bonds, 1 pseudobond, 22 residues, 2 models selected > select /A:768-769 45 atoms, 50 bonds, 2 residues, 1 model selected > select /A:768-774 154 atoms, 172 bonds, 7 residues, 1 model selected > select /A:768 22 atoms, 24 bonds, 1 residue, 1 model selected > select /A:768-800 716 atoms, 803 bonds, 10 pseudobonds, 33 residues, 2 models selected > color (#!2 & sel) magenta > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > select subtract #2 Nothing selected > open /Users/TEST/Downloads/cryosparc_P79_J105_007_volume_map.mrc Opened cryosparc_P79_J105_007_volume_map.mrc as #15, grid size 416,416,416, pixel 0.855, shown at level 0.0903, step 2, values float32 > volume #15 step 1 > volume #15 level 0.12 > volume flip #15 Opened cryosparc_P79_J105_007_volume_map.mrc z flip as #16, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > close #15 > close #16 > open /Users/TEST/Downloads/cryosparc_P79_J124_006_volume_map.mrc Opened cryosparc_P79_J124_006_volume_map.mrc as #15, grid size 416,416,416, pixel 0.855, shown at level 0.0839, step 2, values float32 > fitmap #2 inMap #15 Fit molecule 6w77 (#2) to map cryosparc_P79_J124_006_volume_map.mrc (#15) using 47940 atoms average map value = 0.08971, steps = 148 shifted from previous position = 22 rotated from previous position = 3.96 degrees atoms outside contour = 23314, contour level = 0.083944 Position of 6w77 (#2) relative to cryosparc_P79_J124_006_volume_map.mrc (#15) coordinates: Matrix rotation and translation 0.21762660 -0.56228857 -0.79779084 368.60451178 -0.97269071 -0.05736753 -0.22490389 357.52905247 0.08069359 0.82494880 -0.55941757 142.53037444 Axis 0.73461992 -0.61470735 -0.28717322 Axis point 0.00000000 291.36904867 247.39296199 Rotation angle (degrees) 134.39325714 Shift along axis 10.07757354 > volume #15 step 1 > volume #15 level 0.0903 > volume #15 level 0.09312 > volume #15 level 0.08959 > volume #15 color silver > fitmap #2 inMap #15 Fit molecule 6w77 (#2) to map cryosparc_P79_J124_006_volume_map.mrc (#15) using 47940 atoms average map value = 0.08971, steps = 40 shifted from previous position = 0.00245 rotated from previous position = 0.0046 degrees atoms outside contour = 25030, contour level = 0.089593 Position of 6w77 (#2) relative to cryosparc_P79_J124_006_volume_map.mrc (#15) coordinates: Matrix rotation and translation 0.21759163 -0.56235066 -0.79775661 368.61296865 -0.97269611 -0.05733953 -0.22488765 357.52173874 0.08072273 0.82490842 -0.55947291 142.54280617 Axis 0.73461166 -0.61473002 -0.28714581 Axis point 0.00000000 291.37495458 247.38753835 Rotation angle (degrees) 134.39575505 Shift along axis 10.07746730 > volume #15 color darkgrey > hide #!15 models > show #!15 models > hide #!15 models > open /Users/TEST/Downloads/cryosparc_P79_J125_007_volume_map.mrc Opened cryosparc_P79_J125_007_volume_map.mrc as #16, grid size 416,416,416, pixel 0.855, shown at level 0.0867, step 2, values float32 > volume #16 step 1 > volume #16 color darkgrey > fitmap #2 inMap #16 Fit molecule 6w77 (#2) to map cryosparc_P79_J125_007_volume_map.mrc (#16) using 47940 atoms average map value = 0.09668, steps = 64 shifted from previous position = 0.248 rotated from previous position = 0.301 degrees atoms outside contour = 22337, contour level = 0.086659 Position of 6w77 (#2) relative to cryosparc_P79_J125_007_volume_map.mrc (#16) coordinates: Matrix rotation and translation 0.21887548 -0.56045413 -0.79873944 368.20733292 -0.97280906 -0.06180082 -0.22321112 358.16341763 0.07573683 0.82587640 -0.55874154 143.24666517 Axis 0.73535036 -0.61295786 -0.28903722 Axis point 0.00000000 290.88425113 247.84036512 Rotation angle (degrees) 134.49390926 Shift along axis 9.81869256 > fitmap #2 inMap #16 Fit molecule 6w77 (#2) to map cryosparc_P79_J125_007_volume_map.mrc (#16) using 47940 atoms average map value = 0.09668, steps = 44 shifted from previous position = 0.016 rotated from previous position = 0.00708 degrees atoms outside contour = 22343, contour level = 0.086659 Position of 6w77 (#2) relative to cryosparc_P79_J125_007_volume_map.mrc (#16) coordinates: Matrix rotation and translation 0.21877653 -0.56052407 -0.79871747 368.21574252 -0.97283084 -0.06175639 -0.22312847 358.14605754 0.07574297 0.82583226 -0.55880595 143.25930980 Axis 0.73532172 -0.61299697 -0.28902714 Axis point 0.00000000 290.89533403 247.83396316 Rotation angle (degrees) 134.49868579 Shift along axis 9.80875409 > select /A:1408-1493 1848 atoms, 2069 bonds, 87 pseudobonds, 86 residues, 2 models selected > color zone #16 near sel distance 5.13 > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > select subtract #2 Nothing selected > open /Users/TEST/Downloads/cryosparc_P79_J106_007_volume_map.mrc Opened cryosparc_P79_J106_007_volume_map.mrc as #17, grid size 416,416,416, pixel 0.855, shown at level 0.093, step 2, values float32 > volume #17 step 1 > volume #17 level 0.1319 > volume #17 level 0.1262 > volume flip #17 Opened cryosparc_P79_J106_007_volume_map.mrc z flip as #18, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > hide #!16 models > select add #18 2 models selected > view matrix models > #18,0.98043,0.1904,0.050023,-37.636,0.1112,-0.74533,0.65736,154.17,0.16244,-0.63893,-0.75192,397.19 > view matrix models > #18,0.92916,0.12004,-0.34964,55.683,0.34365,-0.62906,0.69727,86.978,-0.13625,-0.76803,-0.62575,447.89 > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 240 shifted from previous position = 25.3 rotated from previous position = 17.6 degrees atoms outside contour = 28432, contour level = 0.12619 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14333150 -0.60719554 -0.78151755 383.47487046 0.65416495 -0.53443886 0.53520402 73.10170075 -0.74264683 -0.58795297 0.32060412 341.79232333 Axis -0.66483173 -0.02300879 0.74663871 Axis point 316.98683422 182.75762983 0.00000000 Rotation angle (degrees) 122.36097724 Shift along axis -1.43286649 > select subtract #18 Nothing selected > volume #18 level 0.1101 > volume #18 color darkgrey > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 40 shifted from previous position = 0.0107 rotated from previous position = 0.00632 degrees atoms outside contour = 24248, contour level = 0.11015 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14327624 -0.60727486 -0.78146605 383.48084718 0.65415004 -0.53442631 0.53523478 73.09716427 -0.74267063 -0.58788246 0.32067828 341.76487353 Axis -0.66480036 -0.02296395 0.74666802 Axis point 316.96655197 182.74449758 0.00000000 Rotation angle (degrees) 122.35991057 Shift along axis -1.43190554 > open /Users/TEST/Downloads/cryosparc_P79_J101_005_volume_map.mrc Opened cryosparc_P79_J101_005_volume_map.mrc as #19, grid size 416,416,416, pixel 0.855, shown at level 0.0952, step 2, values float32 > volume #19 step 1 > volume #19 level 0.1361 > hide #!18 models > select add #19 2 models selected > view matrix models > #19,-0.40797,0.39971,-0.82085,334.73,0.85828,0.47447,-0.19553,-31.323,0.31131,-0.78429,-0.53664,352.43 > view matrix models > #19,0.86859,0.34601,-0.35473,27.867,0.49224,-0.51998,0.69808,46.727,0.057092,-0.78096,-0.62197,413.47 > select subtract #19 Nothing selected > hide #!2 models > open 7NAR 7nar title: Complete Bacterial 30S ribosomal subunit assembly complex state F (+RsgA)(Consensus Refinement) [more info...] Chain information for 7nar #20 --- Chain | Description | UniProt A | 16S rRNA | B | 30S ribosomal protein S2 | RS2_ECOLI 1-241 C | 30S ribosomal protein S3 | RS3_ECOLI 1-233 D | 30S ribosomal protein S4 | RS4_ECOLI 1-206 E | 30S ribosomal protein S5 | RS5_ECOLI 1-167 F | 30S ribosomal protein S6 | RS6_ECOLI 1-135 G | 30S ribosomal protein S7 | RS7_ECOLI 1-179 H | 30S ribosomal protein S8 | RS8_ECOLI 1-130 I | 30S ribosomal protein S9 | RS9_ECOLI 1-130 J | 30S ribosomal protein S10 | RS10_ECOLI 1-103 K | 30S ribosomal protein S11 | RS11_ECOLI 1-129 L | 30S ribosomal protein S12 | RS12_ECOLI 1-124 M | 30S ribosomal protein S13 | RS13_ECOLI 1-118 N | 30S ribosomal protein S14 | RS14_ECOLI 1-101 O | 30S ribosomal protein S15 | RS15_ECOLI 1-89 P | 30S ribosomal protein S16 | RS16_ECOLI 1-82 Q | 30S ribosomal protein S17 | RS17_ECOLI 1-84 R | 30S ribosomal protein S18 | RS18_ECOLI 1-75 S | 30S ribosomal protein S19 | RS19_ECOLI 1-92 T | 30S ribosomal protein S20 | RS20_ECOLI 1-87 U | 30S ribosomal protein S21 | RS21_ECOLI 1-71 W | Small ribosomal subunit biogenesis GTPase RsgA | RSGA_ECOLI 1-350 Non-standard residues in 7nar #20 --- GNP — phosphoaminophosphonic acid-guanylate ester MG — magnesium ion ZN — zinc ion > preset cartoons/nucleotides ribbons/slabs Using preset: Cartoons/Nucleotides / Ribbons/Slabs Changed 54321 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > select add #20 54452 atoms, 58616 bonds, 1682 pseudobonds, 4352 residues, 3 models selected > view matrix models > #20,0.87934,-0.04085,0.47443,-68.174,0.44743,-0.27012,-0.85255,334.36,0.16298,0.96196,-0.21925,40.103 > select subtract #20 Nothing selected > select add #19 2 models selected > select subtract #19 Nothing selected > fitmap #20 inMap #19 Fit molecule 7nar (#20) to map cryosparc_P79_J101_005_volume_map.mrc (#19) using 54452 atoms average map value = 0.09083, steps = 384 shifted from previous position = 62.9 rotated from previous position = 13.3 degrees atoms outside contour = 41842, contour level = 0.13612 Position of 7nar (#20) relative to cryosparc_P79_J101_005_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.96480978 -0.22097515 0.14252030 -1.37576825 -0.23637655 -0.49143276 0.83822428 156.15422996 -0.11518759 -0.84241546 -0.52637248 481.73856722 Axis -0.98840634 0.15156140 -0.00905776 Axis point 0.00000000 213.74905241 197.76314372 Rotation angle (degrees) 121.76912497 Shift along axis 20.66329902 > volume #19 color darkgrey > volume #19 level 0.0974 > sequence chain #20/A Alignment identifier is 20/A > select #20/A:1401 23 atoms, 25 bonds, 1 residue, 1 model selected > select #20/A:1401-1500 2148 atoms, 2403 bonds, 101 pseudobonds, 100 residues, 2 models selected > volume #16 level 0.09291 > hide #!19 models > hide #!16 models > color (#!20 & sel) orange red > show #!19 models > color zone #19 near sel distance 5.13 > select add #20 54452 atoms, 58616 bonds, 1682 pseudobonds, 4352 residues, 3 models selected > select subtract #20 Nothing selected > volume #19 level 0.104 > fitmap #20 inMap #19 Fit molecule 7nar (#20) to map cryosparc_P79_J101_005_volume_map.mrc (#19) using 54452 atoms average map value = 0.09083, steps = 28 shifted from previous position = 0.0173 rotated from previous position = 0.028 degrees atoms outside contour = 33652, contour level = 0.10404 Position of 7nar (#20) relative to cryosparc_P79_J101_005_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.96468409 -0.22132936 0.14282114 -1.35399347 -0.23680681 -0.49126170 0.83820311 156.21690007 -0.11535640 -0.84242224 -0.52632465 481.76470931 Axis -0.98836433 0.15183246 -0.00910218 Axis point 0.00000000 213.80403948 197.75582205 Rotation angle (degrees) 121.76598428 Shift along axis 20.67192477 > sequence chain #20/W Alignment identifier is 20/W > sequence chain #20/W Destroying pre-existing alignment with identifier 20/W Alignment identifier is 20/W > select #20/W:296-297 14 atoms, 13 bonds, 2 residues, 1 model selected > select #20/W:34-297 2045 atoms, 2083 bonds, 264 residues, 1 model selected > color zone #19 near sel distance 5.13 > undo > color sel orange > select add #20 54452 atoms, 58616 bonds, 1682 pseudobonds, 4352 residues, 3 models selected > select subtract #20 Nothing selected > volume #19 level 0.1162 > volume #19 level 0.1107 > hide #!20 models > show #!20 models > volume #19 level 0.1074 > volume #19 level 0.09408 > volume #19 level 0.09851 > select #2/A:1408-1493 1848 atoms, 2069 bonds, 87 pseudobonds, 86 residues, 2 models selected > color zone #19 near sel distance 5.1 > color zone #19 near sel distance 5 > hide #!19 models > show #!19 models > undo > select #20/A:1450-1500 1092 atoms, 1220 bonds, 1 pseudobond, 51 residues, 2 models selected > select #20/A:1401-1500 2148 atoms, 2403 bonds, 101 pseudobonds, 100 residues, 2 models selected > select #20/A:1405-1406 43 atoms, 47 bonds, 2 residues, 1 model selected > select #20/A:1405-1500 2063 atoms, 2309 bonds, 96 pseudobonds, 96 residues, 2 models selected > color zone #19 near sel distance 5 > color zone #19 near sel distance 4.9 > color zone #19 near sel distance 4.8 > color zone #19 near sel distance 4.7 > color zone #19 near sel distance 4.6 > color zone #19 near sel distance 4.5 > color zone #19 near sel distance 4.4 > color zone #19 near sel distance 4 > color zone #19 near sel distance 1 > color zone #19 near sel distance 10 > color zone #19 near sel distance 1 > color zone #19 near sel distance 3 > color zone #19 near sel distance 5 > volume splitbyzone #19 Opened cryosparc_P79_J101_005_volume_map.mrc 0 as #21.1, grid size 416,416,416, pixel 0.855, shown at level 0.0985, step 1, values float32 Opened cryosparc_P79_J101_005_volume_map.mrc 1 as #21.2, grid size 416,416,416, pixel 0.855, shown at level 0.0985, step 1, values float32 > select #20/W:300-347 390 atoms, 395 bonds, 48 residues, 1 model selected > select #20/W:34-347 2456 atoms, 2501 bonds, 314 residues, 1 model selected > color zone #21.1 near sel distance 5.13 > color zone #21.1 near sel distance 6 > select add #20 54452 atoms, 58616 bonds, 1682 pseudobonds, 4352 residues, 3 models selected > select subtract #20 Nothing selected No atoms selected for color zoning > select #20/W:186 11 atoms, 10 bonds, 1 residue, 1 model selected > select #20/W:131-186 453 atoms, 458 bonds, 56 residues, 1 model selected > select #20/W:296-347 425 atoms, 431 bonds, 52 residues, 1 model selected > select #20/W:34-347 2456 atoms, 2501 bonds, 314 residues, 1 model selected > color zone #21.1 near sel distance 6.12 > color zone #21.1 near sel distance 6.22 > color zone #21.1 near sel distance 6.32 > color zone #21.1 near sel distance 6.42 > color zone #21.1 near sel distance 6.52 > color zone #21.1 near sel distance 6.62 > color zone #21.1 near sel distance 1 > color zone #21.1 near sel distance 10 > color zone #21.1 near sel distance 9.9 > color zone #21.1 near sel distance 5 > select #20/W:34-347 2456 atoms, 2501 bonds, 314 residues, 1 model selected > select add #20 54452 atoms, 58616 bonds, 1682 pseudobonds, 4352 residues, 3 models selected > select subtract #20 Nothing selected > volume #19 level 0.1251 > volume #21.1 level 0.1162 > volume #21.1 level 0.09298 > open /Users/TEST/Downloads/cryosparc_P79_J110_006_volume_map.mrc Opened cryosparc_P79_J110_006_volume_map.mrc as #22, grid size 416,416,416, pixel 0.855, shown at level 0.0715, step 2, values float32 > volume #22 step 1 > volume #22 level 0.08996 > hide #!19 models > hide #!21.1 models > hide #!21.2 models > hide #!22 models > show #!22 models > hide #!21 models > hide #!20 models > show #!2 models > fitmap #2 inMap #22 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#22) using 47940 atoms average map value = 0.07276, steps = 256 shifted from previous position = 25.1 rotated from previous position = 17.4 degrees atoms outside contour = 31954, contour level = 0.08996 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#22) coordinates: Matrix rotation and translation 0.23046062 -0.55889787 -0.79656831 366.65949052 -0.96857520 -0.05306244 -0.24299479 360.46416458 0.09354141 0.82753704 -0.55356342 139.27037395 Axis 0.73765443 -0.61333382 -0.28228987 Axis point 0.00000000 291.25745439 246.61944340 Rotation angle (degrees) 133.47852259 Shift along axis 10.06851678 > volume #22 level 0.1091 > volume #22 color darkgrey > fitmap #2 inMap #22 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#22) using 47940 atoms average map value = 0.07276, steps = 64 shifted from previous position = 0.017 rotated from previous position = 0.0114 degrees atoms outside contour = 36777, contour level = 0.1091 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#22) coordinates: Matrix rotation and translation 0.23042960 -0.55884372 -0.79661527 366.66792275 -0.96860112 -0.05319178 -0.24286313 360.45329203 0.09334915 0.82756530 -0.55355362 139.30287512 Axis 0.73765575 -0.61329404 -0.28237283 Axis point 0.00000000 291.24107128 246.64029812 Rotation angle (degrees) 133.48446683 Shift along axis 10.07549894 > volume #22 level 0.09143 > hide #!22 models > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 248 shifted from previous position = 25.1 rotated from previous position = 17.4 degrees atoms outside contour = 24236, contour level = 0.11015 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14335813 -0.60720353 -0.78150646 383.47104128 0.65418759 -0.53440103 0.53521413 73.09250336 -0.74262175 -0.58797911 0.32061428 341.77975729 Axis -0.66483458 -0.02301643 0.74663594 Axis point 316.98250539 182.75882761 0.00000000 Rotation angle (degrees) 122.35844623 Shift along axis -1.44208974 > volume #18 level 0.1147 > open /Users/TEST/Downloads/cryosparc_P50_J463_007_volume_map.mrc Opened cryosparc_P50_J463_007_volume_map.mrc as #23, grid size 416,416,416, pixel 0.855, shown at level 0.061, step 2, values float32 > volume #23 step 1 > volume #23 level 0.1013 > open /Users/TEST/Downloads/cryosparc_P50_J456_006_volume_map.mrc Opened cryosparc_P50_J456_006_volume_map.mrc as #24, grid size 416,416,416, pixel 0.855, shown at level 0.0844, step 2, values float32 > volume #24 step 1 > flip volume #23 Unknown command: flip volume #23 > volume flip #24 Opened cryosparc_P50_J456_006_volume_map.mrc z flip as #25, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #25 2 models selected > view matrix models > #25,-0.94463,-0.32808,0.0063999,392.54,-0.29267,0.85116,0.43574,1.0039,-0.14841,0.40974,-0.90005,283.82 > hide #!18 models > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 236 shifted from previous position = 10.3 rotated from previous position = 11.4 degrees atoms outside contour = 21895, contour level = 0.084412 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20194603 0.49699803 0.84392582 -13.67562315 -0.94685570 0.12119851 -0.29795174 349.10507307 -0.25036398 -0.85924612 0.44610986 268.13729461 Axis -0.29594178 0.57696296 -0.76127012 Axis point 105.74042880 282.44069285 -0.00000000 Rotation angle (degrees) 108.50085597 Shift along axis 1.34297476 > volume #25 level 0.09098 > select subtract #25 Nothing selected > volume #25 level 0.09756 > volume #25 level 0.0877 > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 176 shifted from previous position = 0.011 rotated from previous position = 0.00473 degrees atoms outside contour = 22682, contour level = 0.087698 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20191598 0.49704967 0.84390259 -13.68305238 -0.94684578 0.12125071 -0.29796201 349.09833612 -0.25042571 -0.85920889 0.44614692 268.14579263 Axis -0.29591050 0.57697112 -0.76127610 Axis point 105.74942374 282.44611116 -0.00000000 Rotation angle (degrees) 108.49725185 Shift along axis 1.33563584 > volume #25 level 0.09427 > volume #25 level 0.09975 > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 124 shifted from previous position = 0.0136 rotated from previous position = 0.00208 degrees atoms outside contour = 25551, contour level = 0.099747 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20192204 0.49706338 0.84389307 -13.68120424 -0.94685164 0.12121844 -0.29795654 349.10132697 -0.25039868 -0.85920551 0.44616860 268.12399508 Axis -0.29591248 0.57695354 -0.76128865 Axis point 105.75001574 282.43237732 0.00000000 Rotation angle (degrees) 108.49775520 Shift along axis 1.34393236 > volume #25 level 0.1096 > open /Users/TEST/Downloads/cryosparc_P79_J131_006_volume_map.mrc Opened cryosparc_P79_J131_006_volume_map.mrc as #26, grid size 416,416,416, pixel 0.855, shown at level 0.0595, step 2, values float32 > volume #26 step 1 > volume #26 color darkgrey > volume #26 level 0.06663 > fitmap #2 inMap #26 Fit molecule 6w77 (#2) to map cryosparc_P79_J131_006_volume_map.mrc (#26) using 47940 atoms average map value = 0.0742, steps = 324 shifted from previous position = 20.7 rotated from previous position = 21.6 degrees atoms outside contour = 25198, contour level = 0.066631 Position of 6w77 (#2) relative to cryosparc_P79_J131_006_volume_map.mrc (#26) coordinates: Matrix rotation and translation 0.24497997 -0.55262997 -0.79660839 363.74767916 -0.96560699 -0.06525145 -0.25168511 363.90360489 0.08710888 0.83086844 -0.54960866 140.60207436 Axis 0.74290037 -0.60644934 -0.28340472 Axis point 0.00000000 288.70087711 247.30195436 Rotation angle (degrees) 133.23089401 Shift along axis 9.69189203 > volume #26 level 0.08722 > volume #26 level 0.0917 > open /Users/TEST/Downloads/cryosparc_P79_J132_006_volume_map.mrc Opened cryosparc_P79_J132_006_volume_map.mrc as #27, grid size 416,416,416, pixel 0.855, shown at level 0.0622, step 2, values float32 > volume #27 step 1 > volume #27 color darkgrey > volume #27 level 0.06785 > volume #27 level 0.07832 > select #2/A:1408-1493 1848 atoms, 2069 bonds, 87 pseudobonds, 86 residues, 2 models selected > color zone #27 near sel distance 5.13 > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > select subtract #2 Nothing selected > hide #!2 models > hide #!27 models > show #!17 models > hide #!17 models > show #!18 models > show #!2 models > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 236 shifted from previous position = 26.5 rotated from previous position = 16.5 degrees atoms outside contour = 25490, contour level = 0.11473 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14332511 -0.60719840 -0.78151650 383.47637249 0.65423555 -0.53438447 0.53517204 73.09049814 -0.74258587 -0.58799945 0.32066007 341.76501243 Axis -0.66481440 -0.02304335 0.74665308 Axis point 316.97133504 182.76457002 0.00000000 Rotation angle (degrees) 122.35745172 Shift along axis -1.44496474 > volume #18 level 0.1331 > volume #18 level 0.1594 > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 40 shifted from previous position = 0.011 rotated from previous position = 0.00654 degrees atoms outside contour = 35697, contour level = 0.15942 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14329126 -0.60724682 -0.78148508 383.47723636 0.65416395 -0.53442635 0.53521774 73.09885832 -0.74265548 -0.58791138 0.32066035 341.76962431 Axis -0.66480813 -0.02298421 0.74666049 Axis point 316.96935325 182.74962838 0.00000000 Rotation angle (degrees) 122.36001047 Shift along axis -1.43302911 > volume #18 level 0.1159 > volume #18 level 0.1228 > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 28 shifted from previous position = 0.0152 rotated from previous position = 0.00995 degrees atoms outside contour = 27562, contour level = 0.12275 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14336602 -0.60715190 -0.78154512 383.47218167 0.65424991 -0.53438276 0.53515619 73.09184276 -0.74256533 -0.58804903 0.32061674 341.77735671 Axis -0.66483454 -0.02307247 0.74663425 Axis point 316.98207353 182.77310227 0.00000000 Rotation angle (degrees) 122.35747561 Shift along axis -1.44927971 > hide #!18 models > show #!14 models > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 296 shifted from previous position = 4.6 rotated from previous position = 20.8 degrees atoms outside contour = 21680, contour level = 0.076093 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13750705 -0.59910039 -0.78877788 384.36456926 0.65792597 -0.54003965 0.52487199 75.35112772 -0.74042234 -0.59113105 0.31990444 342.81782318 Axis -0.66363931 -0.02875498 0.74749984 Axis point 316.87610750 184.28336212 0.00000000 Rotation angle (degrees) 122.77313849 Shift along axis -0.98988795 > volume #14 level 0.1171 > hide #!2 models > show #!2 models > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 44 shifted from previous position = 0.0181 rotated from previous position = 0.0104 degrees atoms outside contour = 34942, contour level = 0.11709 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13749817 -0.59916732 -0.78872859 384.36573515 0.65779888 -0.54010127 0.52496787 75.35760429 -0.74053690 -0.59100690 0.31986865 342.83775160 Axis -0.66364950 -0.02865870 0.74749449 Axis point 316.88827470 184.25959080 0.00000000 Rotation angle (degrees) 122.77676005 Shift along axis -0.97445064 > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 40 shifted from previous position = 0.00518 rotated from previous position = 0.00395 degrees atoms outside contour = 34935, contour level = 0.11709 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13751807 -0.59913195 -0.78875198 384.36015614 0.65783882 -0.54008235 0.52493727 75.35660831 -0.74049771 -0.59106004 0.31986117 342.83755702 Axis -0.66365495 -0.02869558 0.74748824 Axis point 316.88749205 184.26900588 0.00000000 Rotation angle (degrees) 122.77569223 Shift along axis -0.97787676 > fitmap #2 inMap #14 Fit molecule 6w77 (#2) to map cryosparc_P79_J104_006_volume_map.mrc z flip (#14) using 47940 atoms average map value = 0.08563, steps = 76 shifted from previous position = 0.0112 rotated from previous position = 0.00336 degrees atoms outside contour = 34926, contour level = 0.11709 Position of 6w77 (#2) relative to cryosparc_P79_J104_006_volume_map.mrc z flip (#14) coordinates: Matrix rotation and translation 0.13748912 -0.59913562 -0.78875424 384.36684766 0.65787894 -0.54006327 0.52490664 75.35564360 -0.74046745 -0.59107375 0.31990588 342.81701120 Axis -0.66363603 -0.02871453 0.74750431 Axis point 316.87446939 184.27318357 0.00000000 Rotation angle (degrees) 122.77450544 Shift along axis -0.98629804 > volume #14 level 0.1042 > fitmap #2 inMap #15 Fit molecule 6w77 (#2) to map cryosparc_P79_J124_006_volume_map.mrc (#15) using 47940 atoms average map value = 0.08971, steps = 152 shifted from previous position = 22 rotated from previous position = 3.96 degrees atoms outside contour = 25027, contour level = 0.089593 Position of 6w77 (#2) relative to cryosparc_P79_J124_006_volume_map.mrc (#15) coordinates: Matrix rotation and translation 0.21759727 -0.56234335 -0.79776023 368.61307115 -0.97269441 -0.05733633 -0.22489583 357.52362749 0.08072803 0.82491364 -0.55946446 142.53955971 Axis 0.73461232 -0.61472898 -0.28714634 Axis point 0.00000000 291.37576893 247.38827685 Rotation angle (degrees) 134.39506156 Shift along axis 10.07785636 > volume #15 level 0.09595 > volume #15 level 0.1002 > open /Users/TEST/Downloads/cryosparc_P79_J110_006_volume_map.mrc Opened cryosparc_P79_J110_006_volume_map.mrc as #28, grid size 416,416,416, pixel 0.855, shown at level 0.0715, step 2, values float32 > volume #28 step 1 > volume #28 level 0.1245 > fitmap #2 inMap #28 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#28) using 47940 atoms average map value = 0.07276, steps = 116 shifted from previous position = 1.61 rotated from previous position = 1.1 degrees atoms outside contour = 39794, contour level = 0.12447 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#28) coordinates: Matrix rotation and translation 0.23042654 -0.55890370 -0.79657408 366.66717620 -0.96858735 -0.05307979 -0.24294255 360.45903099 0.09349951 0.82753199 -0.55357805 139.28029531 Axis 0.73764679 -0.61333539 -0.28230641 Axis point 0.00000000 291.25925261 246.62368883 Rotation angle (degrees) 133.48113046 Shift along axis 10.06886304 > hide #!2 models > volume #28 level 0.1031 > show #!2 models > fitmap #2 inMap #28 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#28) using 47940 atoms average map value = 0.07276, steps = 64 shifted from previous position = 0.00917 rotated from previous position = 0.00485 degrees atoms outside contour = 35454, contour level = 0.10312 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#28) coordinates: Matrix rotation and translation 0.23038944 -0.55890926 -0.79658091 366.67094499 -0.96860314 -0.05312110 -0.24287057 360.44880944 0.09342736 0.82752558 -0.55359980 139.29917871 Axis 0.73764106 -0.61333053 -0.28233194 Axis point 0.00000000 291.25374020 246.62838446 Rotation angle (degrees) 133.48508525 Shift along axis 10.06867799 > volume #28 level 0.134 > hide #!2 models > show #!2 models > volume #28 level 0.1201 > volume #28 color silver > volume #28 color darkgrey > fitmap #2 inMap #28 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#28) using 47940 atoms average map value = 0.07276, steps = 140 shifted from previous position = 0.0112 rotated from previous position = 0.00558 degrees atoms outside contour = 38989, contour level = 0.12005 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#28) coordinates: Matrix rotation and translation 0.23044313 -0.55884313 -0.79661178 366.66539219 -0.96859542 -0.05317763 -0.24288896 360.45514096 0.09337490 0.82756661 -0.55354732 139.29734910 Axis 0.73765807 -0.61329576 -0.28236304 Axis point 0.00000000 291.24130988 246.63807857 Rotation angle (degrees) 133.48312533 Shift along axis 10.07565601 > hide #!2 models > volume #28 level 0.09944 > show #!2 models > fitmap #2 inMap #28 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#28) using 47940 atoms average map value = 0.07276, steps = 44 shifted from previous position = 0.0104 rotated from previous position = 0.00804 degrees atoms outside contour = 34541, contour level = 0.099442 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#28) coordinates: Matrix rotation and translation 0.23054568 -0.55876512 -0.79663683 366.64010850 -0.96856833 -0.05319091 -0.24299407 360.47795500 0.09340277 0.82761843 -0.55346513 139.26394116 Axis 0.73768356 -0.61326351 -0.28236649 Axis point 0.00000000 291.23356209 246.63473746 Rotation angle (degrees) 133.47635598 Shift along axis 10.07293533 > volume #28 color #919191 > volume #28 level 0.1156 > volume #28 level 0.09723 > volume #28 level 0.1017 > show #!25 models > hide #!25 models > show #!25 models > hide #!28 models > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 328 shifted from previous position = 19.4 rotated from previous position = 22.3 degrees atoms outside contour = 27809, contour level = 0.1096 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20193315 0.49702891 0.84391071 -13.67866802 -0.94684928 0.12122522 -0.29796125 349.10177004 -0.25039862 -0.85922450 0.44613207 268.13410024 Axis -0.29592214 0.57696697 -0.76127472 Axis point 105.74603895 282.43936787 0.00000000 Rotation angle (degrees) 108.49898941 Shift along axis 1.34430037 > volume #25 level 0.1206 > volume #25 level 0.09756 > volume #25 level 0.1151 > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 76 shifted from previous position = 0.0123 rotated from previous position = 0.00146 degrees atoms outside contour = 29011, contour level = 0.11508 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20193227 0.49702648 0.84391235 -13.67796443 -0.94684329 0.12124772 -0.29797115 349.10037916 -0.25042200 -0.85922273 0.44612235 268.15137099 Axis -0.29591527 0.57697878 -0.76126844 Axis point 105.74806360 282.44908691 0.00000000 Rotation angle (degrees) 108.49857634 Shift along axis 1.33585099 > hide #!2 models > show #!2 models > volume #19 level 0.1228 > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 64 shifted from previous position = 0.0038 rotated from previous position = 0.00467 degrees atoms outside contour = 29008, contour level = 0.11508 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20190538 0.49708151 0.84388637 -13.68447638 -0.94683376 0.12129355 -0.29798278 349.09551348 -0.25047971 -0.85918442 0.44616373 268.14931369 Axis -0.29588299 0.57698389 -0.76127711 Axis point 105.75783461 282.44908598 0.00000000 Rotation angle (degrees) 108.49512979 Shift along axis 1.33555622 > volume #25 level 0.1238 > hide #!2 models > show #!2 models > fitmap #2 inMap #25 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#25) using 47940 atoms average map value = 0.1036, steps = 84 shifted from previous position = 0.00526 rotated from previous position = 0.00487 degrees atoms outside contour = 30835, contour level = 0.12384 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.20190589 0.49704387 0.84390842 -13.68368393 -0.94685419 0.12123613 -0.29794123 349.09662521 -0.25040205 -0.85921430 0.44614977 268.14257307 Axis -0.29592440 0.57696189 -0.76127769 Axis point 105.74659076 282.44272093 0.00000000 Rotation angle (degrees) 108.49730131 Shift along axis 1.33382583 > volume #25 level 0.114 > volume #25 level 0.07565 > volume #25 level 0.1096 > hide #!2 models > fitmap #15 inMap #25 Fit map cryosparc_P79_J124_006_volume_map.mrc in map cryosparc_P50_J456_006_volume_map.mrc z flip using 494383 points correlation = 0.8874, correlation about mean = 0.4811, overlap = 8315 steps = 308, shift = 19.3, angle = 21.7 degrees Position of cryosparc_P79_J124_006_volume_map.mrc (#15) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#25) coordinates: Matrix rotation and translation -0.99502822 -0.03807587 -0.09202768 377.40554352 -0.05487723 0.98071459 0.18758304 -11.97676673 0.08311050 0.19170065 -0.97792818 310.44227861 Axis 0.02339674 -0.99515755 -0.09546751 Axis point 181.70484957 0.00000000 164.15930572 Rotation angle (degrees) 174.95171678 Shift along axis -8.88832249 > volume #15 level 0.1072 > show #!2 models > hide #!2 models > open /Users/TEST/Downloads/cryosparc_P79_J60_class_04_00143_volume.mrc Opened cryosparc_P79_J60_class_04_00143_volume.mrc as #29, grid size 128,128,128, pixel 2.78, shown at level 0.314, step 1, values float32 > hide #!25 models > open /Users/TEST/Downloads/cryosparc_P79_J60_class_05_00143_volume.mrc Opened cryosparc_P79_J60_class_05_00143_volume.mrc as #30, grid size 128,128,128, pixel 2.78, shown at level 0.305, step 1, values float32 > volume #30 level 0.3509 > show #!2 models > select add #30 2 models selected > view matrix models > #30,-0.46427,-0.84971,-0.2499,459,-0.76448,0.24197,0.59751,170.45,-0.44724,0.46845,-0.76192,300.39 > fitmap #2 inMap #30 Fit molecule 6w77 (#2) to map cryosparc_P79_J60_class_05_00143_volume.mrc (#30) using 47940 atoms average map value = 0.322, steps = 180 shifted from previous position = 20.8 rotated from previous position = 46.4 degrees atoms outside contour = 28119, contour level = 0.35095 Position of 6w77 (#2) relative to cryosparc_P79_J60_class_05_00143_volume.mrc (#30) coordinates: Matrix rotation and translation -0.17419701 0.63105817 0.75592393 -22.25346723 -0.74243746 0.42011856 -0.52181128 310.85525313 -0.64687094 -0.65212421 0.39533783 313.01605405 Axis -0.06623062 0.71296049 -0.69806937 Axis point 188.30118548 0.00000000 321.52952448 Rotation angle (degrees) 100.33308414 Shift along axis 4.59445717 > select subtract #30 Nothing selected No atoms selected for color zoning > open /Users/TEST/Downloads/cryosparc_P79_J59_011_volume_map.mrc Opened cryosparc_P79_J59_011_volume_map.mrc as #31, grid size 416,416,416, pixel 0.855, shown at level 0.0677, step 2, values float32 > hide #!30 models > show #!30 models > hide #!2 models > hide #!30 models > volume #31 step 1 > volume #31 level 0.08503 > volume #31 level 0.09476 > volume #31 level 0.1056 > open /Users/TEST/Downloads/cryosparc_P50_J425_010_volume_map.mrc Opened cryosparc_P50_J425_010_volume_map.mrc as #32, grid size 416,416,416, pixel 0.855, shown at level 0.0632, step 2, values float32 > volume #32 step 1 > select add #32 2 models selected > view matrix models > #32,-0.96805,-0.025733,0.24942,303.83,0.062806,0.93813,0.34055,-62.789,-0.24275,0.34534,-0.90654,332.61 > select subtract #32 Nothing selected > volume flip #32 Opened cryosparc_P50_J425_010_volume_map.mrc z flip as #33, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #33 2 models selected > view matrix models > #33,0.9668,-0.03728,-0.25279,53.469,0.096187,0.96963,0.22487,-53.786,0.23673,-0.24172,0.94103,25.071 > view matrix models > #33,0.99866,0.015443,-0.049476,4.0727,-0.033549,0.92023,-0.38993,83.417,0.039508,0.39107,0.91951,-40.292 > fitmap #33 inMap #31 Fit map cryosparc_P50_J425_010_volume_map.mrc z flip in map cryosparc_P79_J59_011_volume_map.mrc using 718267 points correlation = 0.8744, correlation about mean = 0.5228, overlap = 9790 steps = 156, shift = 14.2, angle = 8.03 degrees Position of cryosparc_P50_J425_010_volume_map.mrc z flip (#33) relative to cryosparc_P79_J59_011_volume_map.mrc (#31) coordinates: Matrix rotation and translation 0.98226173 0.03402963 -0.18440133 31.27559674 -0.10785359 0.90697750 -0.40713558 107.38100696 0.15339319 0.41980204 0.89455953 -73.94285358 Axis 0.91428099 -0.37347329 -0.15686931 Axis point 0.00000000 229.21529944 211.45900350 Rotation angle (degrees) 26.88709655 Shift along axis 0.09010996 > select subtract #33 Nothing selected > volume #32 level 0.09087 > volume #33 level 0.113 > volume #33 level 0.08533 > volume #33 level 0.1172 > fitmap #31 inMap #33 Fit map cryosparc_P79_J59_011_volume_map.mrc in map cryosparc_P50_J425_010_volume_map.mrc z flip using 335508 points correlation = 0.8778, correlation about mean = 0.444, overlap = 7382 steps = 52, shift = 0.0937, angle = 0.156 degrees Position of cryosparc_P79_J59_011_volume_map.mrc (#31) relative to cryosparc_P50_J425_010_volume_map.mrc z flip (#33) coordinates: Matrix rotation and translation 0.98232127 -0.10759543 0.15319326 -7.81000948 0.03338291 0.90589136 0.42219244 -67.66332757 -0.18420243 -0.40961457 0.89346818 116.30275355 Axis -0.91544898 0.37132236 0.15515435 Axis point 0.00000000 228.93600134 211.35870162 Rotation angle (degrees) 27.02095974 Shift along axis 0.06963740 > volume #31 level 0.1218 > volume #33 level 0.1297 > fitmap #31 inMap #33 Fit map cryosparc_P79_J59_011_volume_map.mrc in map cryosparc_P50_J425_010_volume_map.mrc z flip using 248134 points correlation = 0.8855, correlation about mean = 0.4179, overlap = 6420 steps = 48, shift = 0.0324, angle = 0.0421 degrees Position of cryosparc_P79_J59_011_volume_map.mrc (#31) relative to cryosparc_P50_J425_010_volume_map.mrc z flip (#33) coordinates: Matrix rotation and translation 0.98221884 -0.10810884 0.15348827 -7.75721421 0.03364261 0.90568087 0.42262320 -67.73629084 -0.18470069 -0.40994472 0.89321386 116.47807710 Axis -0.91516701 0.37174071 0.15581461 Axis point 0.00000000 229.02542117 211.44834713 Rotation angle (degrees) 27.05670591 Shift along axis 0.06779603 > volume #33 level 0.1047 > volume #31 level 0.138 > volume #33 level 0.1158 > volume #33 color #ff7e79 > volume #31 color #fffb00 > volume #33 color silver > ui mousemode right zoom > volume #31 level 0.1542 > fitmap #31 inMap #33 Fit map cryosparc_P79_J59_011_volume_map.mrc in map cryosparc_P50_J425_010_volume_map.mrc z flip using 132805 points correlation = 0.9004, correlation about mean = 0.3727, overlap = 4587 steps = 48, shift = 0.0997, angle = 0.149 degrees Position of cryosparc_P79_J59_011_volume_map.mrc (#31) relative to cryosparc_P50_J425_010_volume_map.mrc z flip (#33) coordinates: Matrix rotation and translation 0.98182200 -0.10982022 0.15480671 -7.66886781 0.03437369 0.90500634 0.42400710 -68.00409155 -0.18666561 -0.41097821 0.89233003 117.09916029 Axis -0.91398857 0.37378118 0.15783702 Axis point 0.00000000 229.40013999 211.84318474 Rotation angle (degrees) 27.17958797 Shift along axis 0.07318992 > movie record > turn y 2 180 > wait 180 > movie encode /Users/TEST/Desktop/movie1.mp4 Movie saved to /Users/TEST/Desktop/movie1.mp4 > fitmap #31 inMap #33 Fit map cryosparc_P79_J59_011_volume_map.mrc in map cryosparc_P50_J425_010_volume_map.mrc z flip using 132805 points correlation = 0.9004, correlation about mean = 0.3727, overlap = 4587 steps = 40, shift = 0.00214, angle = 0.00403 degrees Position of cryosparc_P79_J59_011_volume_map.mrc (#31) relative to cryosparc_P50_J425_010_volume_map.mrc z flip (#33) coordinates: Matrix rotation and translation 0.98182563 -0.10979936 0.15479847 -7.67272001 0.03437090 0.90503541 0.42394528 -67.99770752 -0.18664701 -0.41091976 0.89236084 117.07798843 Axis -0.91398067 0.37380242 0.15783248 Axis point 0.00000000 229.39695876 211.84304888 Rotation angle (degrees) 27.17560465 Shift along axis 0.07372008 > volume #31 level 0.1402 > graphics silhouettes false > graphics silhouettes true > lighting soft > lighting simple > lighting soft > lighting full > lighting soft > volume #31 level 0.1477 > fitmap #31 inMap #33 Fit map cryosparc_P79_J59_011_volume_map.mrc in map cryosparc_P50_J425_010_volume_map.mrc z flip using 151143 points correlation = 0.8973, correlation about mean = 0.381, overlap = 4941 steps = 48, shift = 0.0298, angle = 0.0363 degrees Position of cryosparc_P79_J59_011_volume_map.mrc (#31) relative to cryosparc_P50_J425_010_volume_map.mrc z flip (#33) coordinates: Matrix rotation and translation 0.98192922 -0.10936728 0.15444686 -7.68868686 0.03418280 0.90517929 0.42365319 -67.95231899 -0.18613590 -0.41071801 0.89256046 116.92875944 Axis -0.91431226 0.37321397 0.15730361 Axis point 0.00000000 229.27373731 211.76642152 Rotation angle (degrees) 27.14754671 Shift along axis 0.06242105 > movie record > turn y 2 180 > wait 180 > movie encode /Users/TEST/Desktop/movie1.mp4 Movie saved to /Users/TEST/Desktop/movie1.mp4 > open /Users/TEST/Downloads/cryosparc_P50_J447_class_01_00100_volume.mrc Opened cryosparc_P50_J447_class_01_00100_volume.mrc as #34, grid size 128,128,128, pixel 2.78, shown at level 0.244, step 1, values float32 > open /Users/TEST/Downloads/cryosparc_P50_J447_class_00_00100_volume.mrc Opened cryosparc_P50_J447_class_00_00100_volume.mrc as #35, grid size 128,128,128, pixel 2.78, shown at level 0.236, step 1, values float32 > volume #35 level 0.2424 > volume #34 level 0.3064 > volume #34 level 0.3662 > volume #35 level 0.2786 > volume #35 level 0.3269 > volume #35 level 0.3419 > volume #35 level 0.4203 > open /Users/TEST/Downloads/cryosparc_P50_J449_006_volume_map.mrc Opened cryosparc_P50_J449_006_volume_map.mrc as #36, grid size 416,416,416, pixel 0.855, shown at level 0.0609, step 2, values float32 > volume #36 step 1 > volume #36 level 0.07953 > volume #36 level 0.09316 > open /Users/TEST/Downloads/cryosparc_P79_J106_007_volume_map.mrc Opened cryosparc_P79_J106_007_volume_map.mrc as #37, grid size 416,416,416, pixel 0.855, shown at level 0.093, step 2, values float32 > volume #37 step 1 > volume #37 level 0.1376 > show #!2 models > fitmap #2 inMap #18 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#18) using 47940 atoms average map value = 0.1162, steps = 568 shifted from previous position = 18.5 rotated from previous position = 53.6 degrees atoms outside contour = 27567, contour level = 0.12275 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#18) coordinates: Matrix rotation and translation 0.14337212 -0.60717494 -0.78152610 383.46988459 0.65418994 -0.53441116 0.53520114 73.09860027 -0.74261698 -0.58799943 0.32058807 341.78452266 Axis -0.66484449 -0.02303108 0.74662666 Axis point 316.98608713 182.76353586 0.00000000 Rotation angle (degrees) 122.35920408 Shift along axis -1.44594186 > volume #18 level 0.1079 > volume #18 level 0.1159 > open /Users/TEST/Downloads/cryosparc_P50_J498_006_volume_map.mrc Opened cryosparc_P50_J498_006_volume_map.mrc as #38, grid size 416,416,416, pixel 0.855, shown at level 0.0597, step 2, values float32 > open /Users/TEST/Downloads/cryosparc_P50_J497_007_volume_map.mrc Opened cryosparc_P50_J497_007_volume_map.mrc as #39, grid size 416,416,416, pixel 0.855, shown at level 0.0592, step 2, values float32 > hide #!2 models > hide #!18 models > volume #39 step 1 > volume #39 level 0.09368 > volume #38 step 1 > volume #38 level 0.07816 > volume #38 level 0.07976 > fitmap #38 inMap #39 Fit map cryosparc_P50_J498_006_volume_map.mrc in map cryosparc_P50_J497_007_volume_map.mrc using 525715 points correlation = 0.9683, correlation about mean = 0.8031, overlap = 1.107e+04 steps = 60, shift = 0.542, angle = 0.865 degrees Position of cryosparc_P50_J498_006_volume_map.mrc (#38) relative to cryosparc_P50_J497_007_volume_map.mrc (#39) coordinates: Matrix rotation and translation 0.99989503 0.00403146 -0.01391676 2.42233167 -0.00397214 0.99998292 0.00428792 -0.35647707 0.01393381 -0.00423219 0.99989396 -1.45325608 Axis -0.28208236 -0.92207068 -0.26498151 Axis point 105.04065287 0.00000000 173.88427917 Rotation angle (degrees) 0.86532427 Shift along axis 0.03048601 > volume #38 level 0.08699 > show #!2 models > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #2,-0.30928,0.69084,0.65352,33.253,-0.88293,0.046655,-0.46717,375.3,-0.35323,-0.7215,0.59553,238.14 > select subtract #2 Nothing selected > hide #!39 models > fitmap #2 inMap #38 Fit molecule 6w77 (#2) to map cryosparc_P50_J498_006_volume_map.mrc (#38) using 47940 atoms average map value = 0.07566, steps = 448 shifted from previous position = 29.7 rotated from previous position = 16.4 degrees atoms outside contour = 29810, contour level = 0.086993 Position of 6w77 (#2) relative to cryosparc_P50_J498_006_volume_map.mrc (#38) coordinates: Matrix rotation and translation -0.20358118 0.49470540 0.84487945 -13.67596762 -0.94675851 0.12035499 -0.29860174 349.65628459 -0.24940535 -0.86068650 0.44386453 268.93878374 Axis -0.29660673 0.57744358 -0.76064667 Axis point 105.37180188 283.16951983 0.00000000 Rotation angle (degrees) 108.64362358 Shift along axis 1.39577288 > show #!39 models Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps, got 1 atomic models, 2 maps. > hide #!38 models > fitmap #2 inMap #39 Fit molecule 6w77 (#2) to map cryosparc_P50_J497_007_volume_map.mrc (#39) using 47940 atoms average map value = 0.07962, steps = 112 shifted from previous position = 0.159 rotated from previous position = 0.141 degrees atoms outside contour = 30760, contour level = 0.093684 Position of 6w77 (#2) relative to cryosparc_P50_J497_007_volume_map.mrc (#39) coordinates: Matrix rotation and translation -0.20393384 0.50501983 0.83866917 -13.55115912 -0.94720446 0.11471803 -0.29940521 350.42005620 -0.24741604 -0.85545003 0.45496214 266.05265388 Axis -0.29315410 0.57259833 -0.76563165 Axis point 106.81740219 280.94206979 0.00000000 Rotation angle (degrees) 108.48925649 Shift along axis 0.92418671 > show #!38 models > volume #39 level 0.1101 > ui mousemode right zoom > volume #38 level 0.09984 > volume #39 level 0.1159 > open /Users/TEST/Downloads/cryosparc_P79_J83_009_volume_map.mrc Opened cryosparc_P79_J83_009_volume_map.mrc as #40, grid size 416,416,416, pixel 0.855, shown at level 0.0758, step 2, values float32 > volume flip #40 Opened cryosparc_P79_J83_009_volume_map.mrc z flip as #41, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > volume #41 level 0.1005 > volume #41 level 0.2588 > open /Users/TEST/Downloads/cryosparc_P79_J63_010_volume_map.mrc Opened cryosparc_P79_J63_010_volume_map.mrc as #42, grid size 416,416,416, pixel 0.855, shown at level 0.0602, step 2, values float32 > volume #42 step 1 > volume #42 level 0.1067 > open /Users/TEST/Downloads/cryosparc_P79_J62_009_volume_map.mrc Opened cryosparc_P79_J62_009_volume_map.mrc as #43, grid size 416,416,416, pixel 0.855, shown at level 0.09, step 2, values float32 > volume flip #43 Opened cryosparc_P79_J62_009_volume_map.mrc z flip as #44, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > volume #44 level 0.1284 > hide #!2 models > volume #44 level 0.1375 > volume #44 level 0.1239 > show #!2 models > hide #!2 models > show #!2 models > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > ui mousemode right ""rotate selected models"" > select subtract #2 Nothing selected > select add #44 2 models selected > view matrix models > #44,0.56552,0.3624,0.74085,-120.38,0.82237,-0.17974,-0.53982,154.14,-0.062469,0.91453,-0.39967,111.43 > view matrix models > #44,0.57346,0.81923,0.0023673,-64.374,0.70142,-0.4895,-0.51807,223.43,-0.42326,0.29875,-0.85533,360.9 > fitmap #2 inMap #44 Fit molecule 6w77 (#2) to map cryosparc_P79_J62_009_volume_map.mrc z flip (#44) using 47940 atoms average map value = 0.03992, steps = 140 shifted from previous position = 11.3 rotated from previous position = 1.2 degrees atoms outside contour = 42877, contour level = 0.12391 Position of 6w77 (#2) relative to cryosparc_P79_J62_009_volume_map.mrc z flip (#44) coordinates: Matrix rotation and translation -0.67025051 0.73578274 0.09689218 153.68472764 0.24050956 0.09184167 0.96629206 -41.42818389 0.70208224 0.67096121 -0.23851970 9.02222878 Axis -0.35329820 -0.72397638 -0.59248509 Axis point 88.24312531 0.00000000 43.12369199 Rotation angle (degrees) 155.29397777 Shift along axis -29.64904753 > show #!44 models > view matrix models > #44,-0.88159,0.4661,0.074468,235.03,-0.26952,-0.6266,0.73125,187.99,0.3875,0.6246,0.67803,-114.07 > fitmap #2 inMap #44 Fit molecule 6w77 (#2) to map cryosparc_P79_J62_009_volume_map.mrc z flip (#44) using 47940 atoms average map value = 0.1074, steps = 316 shifted from previous position = 21.3 rotated from previous position = 27.1 degrees atoms outside contour = 31196, contour level = 0.12391 Position of 6w77 (#2) relative to cryosparc_P79_J62_009_volume_map.mrc z flip (#44) coordinates: Matrix rotation and translation 0.13920317 -0.60098225 -0.78704694 384.10304242 0.65463305 -0.54049911 0.52850389 75.18144254 -0.74301960 -0.58879633 0.31818363 342.09334581 Axis -0.66453387 -0.02618603 0.74679919 Axis point 316.82296897 183.40717081 0.00000000 Rotation angle (degrees) 122.78963468 Shift along axis -1.74315210 > select subtract #44 Nothing selected > fitmap #2 inMap #44 Fit molecule 6w77 (#2) to map cryosparc_P79_J62_009_volume_map.mrc z flip (#44) using 47940 atoms average map value = 0.1074, steps = 40 shifted from previous position = 0.00451 rotated from previous position = 0.00577 degrees atoms outside contour = 31185, contour level = 0.12391 Position of 6w77 (#2) relative to cryosparc_P79_J62_009_volume_map.mrc z flip (#44) coordinates: Matrix rotation and translation 0.13915802 -0.60105654 -0.78699820 384.11124757 0.65461689 -0.54048607 0.52853725 75.17392206 -0.74304230 -0.58873248 0.31824877 342.07773054 Axis -0.66450733 -0.02614321 0.74682430 Axis point 316.81187870 183.39594010 0.00000000 Rotation angle (degrees) 122.78850918 Shift along axis -1.73806398 > volume #44 level 0.133 > volume #44 level 0.1443 > hide #!2 models > show #!2 models > volume #44 level 0.09338 > volume #44 level 0.1103 > volume #44 level 0.1262 > volume #44 step 2 > volume #44 level 0.03907 > volume #44 step 1 > volume #44 level 0.07752 > volume #44 level 0.1035 > volume #43 level 0.1015 > volume #44 level 0.1092 > volume #44 color darkgrey > ui mousemode right zoom > select add #42 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #42,-0.39067,-0.60736,-0.69173,476.59,-0.72937,0.66268,-0.16993,218.25,0.5616,0.43814,-0.70188,133.3 > volume #42 color darkgrey > ui mousemode right ""translate selected models"" > view matrix models > #42,-0.39067,-0.60736,-0.69173,479.15,-0.72937,0.66268,-0.16993,236.53,0.5616,0.43814,-0.70188,157.74 > fitmap #2 inMap #42 Fit molecule 6w77 (#2) to map cryosparc_P79_J63_010_volume_map.mrc (#42) using 47940 atoms average map value = 0.07948, steps = 440 shifted from previous position = 17.3 rotated from previous position = 39.1 degrees atoms outside contour = 33086, contour level = 0.10672 Position of 6w77 (#2) relative to cryosparc_P79_J63_010_volume_map.mrc (#42) coordinates: Matrix rotation and translation 0.22795926 -0.56189747 -0.79517662 366.36640059 -0.96984461 -0.05870789 -0.23654776 361.39135628 0.08623244 0.82512100 -0.55833623 141.89822885 Axis 0.73783179 -0.61255605 -0.28351251 Axis point 0.00000000 291.23935339 246.85081779 Rotation angle (degrees) 133.99076515 Shift along axis 8.71439197 > select subtract #42 Nothing selected > volume #42 level 0.1108 > hide #!42 models > open /Users/TEST/Downloads/cryosparc_P50_J449_006_volume_map(1).mrc Opened cryosparc_P50_J449_006_volume_map(1).mrc as #45, grid size 416,416,416, pixel 0.855, shown at level 0.0609, step 2, values float32 > select add #45 2 models selected > view matrix models #45,1,0,0,-25.201,0,1,0,21.425,0,0,1,22.672 > ui mousemode right ""rotate selected models"" > view matrix models > #45,-0.92491,-0.0029299,-0.38016,383.17,-0.13165,0.94057,0.31306,-5.3843,0.35665,0.3396,-0.87033,260.34 > view matrix models > #45,0.016487,-0.88718,0.46113,214.85,0.99369,0.065709,0.090893,-2.6142,-0.11094,0.45672,0.88267,-16.706 > view matrix models > #45,0.80387,-0.53746,0.25483,55.455,0.46328,0.83444,0.29847,-87.128,-0.37305,-0.12187,0.91977,124.66 > view matrix models > #45,0.023464,-0.92435,0.38083,235.71,0.92071,0.16841,0.35204,-58.475,-0.38954,0.34237,0.85501,57.399 > ui mousemode right ""translate selected models"" > view matrix models > #45,0.023464,-0.92435,0.38083,270.11,0.92071,0.16841,0.35204,-68.331,-0.38954,0.34237,0.85501,58.988 > fitmap #2 inMap #45 Fit molecule 6w77 (#2) to map cryosparc_P50_J449_006_volume_map(1).mrc (#45) using 47940 atoms average map value = 0.08267, steps = 724 shifted from previous position = 5.72 rotated from previous position = 30.9 degrees atoms outside contour = 25140, contour level = 0.06093 Position of 6w77 (#2) relative to cryosparc_P50_J449_006_volume_map(1).mrc (#45) coordinates: Matrix rotation and translation -0.20522334 0.50407414 0.83892352 -13.21087530 -0.94631935 0.11651357 -0.30150340 350.76149169 -0.24972603 -0.85576508 0.45310381 266.18195374 Axis -0.29228377 0.57408731 -0.76484898 Axis point 107.07330503 281.26568992 -0.00000000 Rotation angle (degrees) 108.53011031 Shift along axis 1.64004932 > select subtract #45 Nothing selected > color #45 darkgrey models > volume #45 step 1 > volume #45 level 0.1118 > fitmap #2 inMap #45 Fit molecule 6w77 (#2) to map cryosparc_P50_J449_006_volume_map(1).mrc (#45) using 47940 atoms average map value = 0.08267, steps = 380 shifted from previous position = 0.0117 rotated from previous position = 0.0084 degrees atoms outside contour = 32796, contour level = 0.11176 Position of 6w77 (#2) relative to cryosparc_P50_J449_006_volume_map(1).mrc (#45) coordinates: Matrix rotation and translation -0.20522168 0.50403538 0.83894722 -13.21079107 -0.94635685 0.11640101 -0.30142917 350.76232586 -0.24958526 -0.85580323 0.45310932 266.16564042 Axis -0.29234848 0.57403627 -0.76486256 Axis point 107.05606241 281.24984651 0.00000000 Rotation angle (degrees) 108.53329432 Shift along axis 1.63231797 > volume #45 level 0.1105 > volume #45 level 0.1155 > fitmap #2 inMap #45 Fit molecule 6w77 (#2) to map cryosparc_P50_J449_006_volume_map(1).mrc (#45) using 47940 atoms average map value = 0.08267, steps = 588 shifted from previous position = 0.0129 rotated from previous position = 0.0113 degrees atoms outside contour = 33279, contour level = 0.11548 Position of 6w77 (#2) relative to cryosparc_P50_J449_006_volume_map(1).mrc (#45) coordinates: Matrix rotation and translation -0.20522003 0.50415135 0.83887793 -13.21219515 -0.94631434 0.11650707 -0.30152163 350.76380778 -0.24974774 -0.85572048 0.45317607 266.16360398 Axis -0.29224707 0.57406771 -0.76487771 Axis point 107.08549151 281.25335053 -0.00000000 Rotation angle (degrees) 108.52802321 Shift along axis 1.64079099 > select add #38 2 models selected > select add #39 4 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #38,-0.12373,-0.98131,0.14738,342.67,0.88644,-0.042552,0.46088,-60.603,-0.446,0.18768,0.87514,70.081,#39,-0.12973,-0.98017,0.1498,342.85,0.87976,-0.044096,0.47337,-62.062,-0.45737,0.1932,0.86804,72.519 > ui mousemode right ""translate selected models"" > view matrix models > #38,-0.12373,-0.98131,0.14738,353.77,0.88644,-0.042552,0.46088,-47.803,-0.446,0.18768,0.87514,91.278,#39,-0.12973,-0.98017,0.1498,353.95,0.87976,-0.044096,0.47337,-49.262,-0.45737,0.1932,0.86804,93.716 > select subtract #38 2 models selected > select subtract #39 Nothing selected > hide #!45 models > hide #!39 models > fitmap #2 inMap #38 Fit molecule 6w77 (#2) to map cryosparc_P50_J498_006_volume_map.mrc (#38) using 47940 atoms average map value = 0.07566, steps = 660 shifted from previous position = 11.9 rotated from previous position = 16.7 degrees atoms outside contour = 31583, contour level = 0.099845 Position of 6w77 (#2) relative to cryosparc_P50_J498_006_volume_map.mrc (#38) coordinates: Matrix rotation and translation -0.20358204 0.49472998 0.84486485 -13.67204776 -0.94674299 0.12039884 -0.29863330 349.65483166 -0.24946359 -0.86066624 0.44387110 268.95453884 Axis -0.29657677 0.57746152 -0.76064474 Axis point 105.38219114 283.17762613 0.00000000 Rotation angle (degrees) 108.64212548 Shift along axis 1.38816733 > show #!39 models > vop subtract #38 #39 minrms True Opened volume difference as #46, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 Minimum RMS scale factor for ""cryosparc_P50_J497_007_volume_map.mrc #39"" above level 0.11588 is 0.90118 > show #!38 models > show #!39 models > hide #!39 models > hide #!38 models > show #!39 models > hide #!39 models > show #!37 models > hide #!37 models > show #!38 models > show #!39 models > hide #!39 models Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps, got 1 atomic models, 2 maps. > volume #38 color silver > volume #38 color darkgrey > open /Users/TEST/Downloads/cryosparc_P50_J451_003_volume_map.mrc Opened cryosparc_P50_J451_003_volume_map.mrc as #47, grid size 416,416,416, pixel 0.855, shown at level 0.089, step 2, values float32 > volume #47 step 1 > volume #47 level 0.124 > volume #46 level 0.05387 > close #46 > fitmap #2 inMap #39 Fit molecule 6w77 (#2) to map cryosparc_P50_J497_007_volume_map.mrc (#39) using 47940 atoms average map value = 0.07962, steps = 80 shifted from previous position = 0.176 rotated from previous position = 0.144 degrees atoms outside contour = 33481, contour level = 0.11588 Position of 6w77 (#2) relative to cryosparc_P50_J497_007_volume_map.mrc (#39) coordinates: Matrix rotation and translation -0.20392622 0.50501384 0.83867463 -13.55412019 -0.94721300 0.11470009 -0.29938511 350.41753898 -0.24738967 -0.85545598 0.45496531 266.04420583 Axis -0.29316820 0.57258803 -0.76563395 Axis point 106.81241166 280.93664845 0.00000000 Rotation angle (degrees) 108.48947269 Shift along axis 0.92604914 > volume #39 color #929292 > open /Users/TEST/Downloads/cryosparc_P50_J473_005_volume_map.mrc Opened cryosparc_P50_J473_005_volume_map.mrc as #46, grid size 416,416,416, pixel 0.855, shown at level 0.0906, step 2, values float32 > volume #46 step 1 > select add #46 2 models selected > view matrix models #46,1,0,0,7.4835,0,1,0,29.679,0,0,1,35.757 > ui mousemode right ""rotate selected models"" > view matrix models > #46,-0.2319,-0.97261,0.016179,383.71,0.77399,-0.17442,0.6087,-25.381,-0.5892,0.15368,0.79324,152.85 > fitmap #2 inMap #46 Fit molecule 6w77 (#2) to map cryosparc_P50_J473_005_volume_map.mrc (#46) using 47940 atoms average map value = 0.1305, steps = 256 shifted from previous position = 20.5 rotated from previous position = 13.4 degrees atoms outside contour = 17533, contour level = 0.090591 Position of 6w77 (#2) relative to cryosparc_P50_J473_005_volume_map.mrc (#46) coordinates: Matrix rotation and translation -0.20105148 0.49385320 0.84598307 -13.75441338 -0.94766413 0.12059702 -0.29561644 348.75078875 -0.24801415 -0.86114191 0.44376075 269.18805601 Axis -0.29828101 0.57701839 -0.76031455 Axis point 105.05132626 282.93105149 0.00000000 Rotation angle (degrees) 108.56297880 Shift along axis 0.67070062 > hide #!46 models > show #!46 models > select subtract #46 Nothing selected > volume #46 level 0.1026 > volume #46 color darkgrey > volume #46 level 0.1107 > fitmap #2 inMap #46 Fit molecule 6w77 (#2) to map cryosparc_P50_J473_005_volume_map.mrc (#46) using 47940 atoms average map value = 0.1305, steps = 116 shifted from previous position = 0.00473 rotated from previous position = 0.00462 degrees atoms outside contour = 23141, contour level = 0.11068 Position of 6w77 (#2) relative to cryosparc_P50_J473_005_volume_map.mrc (#46) coordinates: Matrix rotation and translation -0.20104783 0.49384026 0.84599149 -13.75336666 -0.94768523 0.12053273 -0.29557504 348.75346662 -0.24793650 -0.86115833 0.44377227 269.17756856 Axis -0.29831410 0.57698689 -0.76032547 Axis point 105.04437720 282.92119830 0.00000000 Rotation angle (degrees) 108.56446348 Shift along axis 0.66644195 > select #2/A:1408-1493 1848 atoms, 2069 bonds, 87 pseudobonds, 86 residues, 2 models selected > color zone #46 near sel distance 5 > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > select subtract #2 Nothing selected > volume #46 level 0.09863 > open /Users/TEST/Downloads/cryosparc_P50_J475_006_volume_map.mrc Opened cryosparc_P50_J475_006_volume_map.mrc as #48, grid size 416,416,416, pixel 0.855, shown at level 0.0914, step 2, values float32 > select add #48 2 models selected > view matrix models > #48,-0.4466,-0.3772,0.81134,176.98,-0.79048,-0.25846,-0.55528,440.19,0.41915,-0.88934,-0.18274,274.67 > view matrix models > #48,-0.39019,-0.842,0.37255,318.24,0.60079,0.073781,0.796,-96.688,-0.69771,0.53441,0.47707,129.42 > view matrix models > #48,-0.77504,-0.57886,0.25345,365.2,0.51434,-0.34486,0.78519,-12.013,-0.36711,0.73891,0.56501,22.28 > ui mousemode right ""translate selected models"" > view matrix models > #48,-0.77504,-0.57886,0.25345,350.47,0.51434,-0.34486,0.78519,26.532,-0.36711,0.73891,0.56501,70.766 > hide #!46 models > view matrix models > #48,-0.77504,-0.57886,0.25345,373,0.51434,-0.34486,0.78519,28.184,-0.36711,0.73891,0.56501,54.124 > fitmap #2 inMap #48 Fit molecule 6w77 (#2) to map cryosparc_P50_J475_006_volume_map.mrc (#48) using 47940 atoms average map value = 0.1193, steps = 560 shifted from previous position = 8.82 rotated from previous position = 43.3 degrees atoms outside contour = 18938, contour level = 0.091353 Position of 6w77 (#2) relative to cryosparc_P50_J475_006_volume_map.mrc (#48) coordinates: Matrix rotation and translation -0.19840262 0.49226895 0.84753038 -14.23755100 -0.94798485 0.12323080 -0.29349435 347.96718822 -0.24891999 -0.86167598 0.44221418 269.80250254 Axis -0.29948444 0.57793107 -0.75914738 Axis point 104.65263747 283.36196069 0.00000000 Rotation angle (degrees) 108.45011139 Shift along axis 0.54511296 > select subtract #48 Nothing selected > volume #48 step 1 > volume #48 level 0.09956 > volume #48 level 0.1119 > volume #48 color darkgrey > volume #48 color #929292 > volume #48 color darkgrey > fitmap #2 inMap #48 Fit molecule 6w77 (#2) to map cryosparc_P50_J475_006_volume_map.mrc (#48) using 47940 atoms average map value = 0.1193, steps = 48 shifted from previous position = 0.0162 rotated from previous position = 0.0107 degrees atoms outside contour = 24133, contour level = 0.11188 Position of 6w77 (#2) relative to cryosparc_P50_J475_006_volume_map.mrc (#48) coordinates: Matrix rotation and translation -0.19851935 0.49214111 0.84757728 -14.22088772 -0.94795636 0.12323376 -0.29358513 347.98072945 -0.24893544 -0.86174858 0.44206400 269.83853059 Axis -0.29948876 0.57799077 -0.75910022 Axis point 104.63976763 283.38967769 0.00000000 Rotation angle (degrees) 108.45808308 Shift along axis 0.55415802 > volume #48 level 0.1057 > open /Users/TEST/Downloads/cryosparc_P50_J455_007_volume_map.mrc Opened cryosparc_P50_J455_007_volume_map.mrc as #49, grid size 416,416,416, pixel 0.855, shown at level 0.0631, step 2, values float32 > volume #49 step 1 > select add #49 2 models selected > view matrix models #49,1,0,0,-6.557,0,1,0,19.7,0,0,1,63.097 > ui mousemode right ""rotate selected models"" > view matrix models > #49,0.86832,-0.43541,0.23757,45.809,-0.3241,-0.86064,-0.39276,460.9,0.37548,0.26404,-0.88843,300.71 > select subtract #49 Nothing selected > volume flip #49 Opened cryosparc_P50_J455_007_volume_map.mrc z flip as #50, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #50 2 models selected > view matrix models > #50,-0.94114,-0.326,0.089339,365.54,0.24812,-0.4868,0.83753,88.581,-0.22954,0.8104,0.53903,69.125 > ui mousemode right ""translate selected models"" > view matrix models > #50,-0.94114,-0.326,0.089339,374.3,0.24812,-0.4868,0.83753,89.862,-0.22954,0.8104,0.53903,19.017 > select subtract #50 Nothing selected > fitmap #2 inMap #50 Fit molecule 6w77 (#2) to map cryosparc_P50_J455_007_volume_map.mrc z flip (#50) using 47940 atoms average map value = 0.09446, steps = 308 shifted from previous position = 12.8 rotated from previous position = 19.7 degrees atoms outside contour = 23095, contour level = 0.063068 Position of 6w77 (#2) relative to cryosparc_P50_J455_007_volume_map.mrc z flip (#50) coordinates: Matrix rotation and translation -0.19676605 0.49589665 0.84579531 -14.80131493 -0.94898258 0.12047476 -0.29140689 348.25319422 -0.24640468 -0.85998395 0.44689192 267.36583400 Axis -0.29950604 0.57533184 -0.76111064 Axis point 104.81407070 282.01461224 0.00000000 Rotation angle (degrees) 108.34268447 Shift along axis 1.29925409 > volume #50 level 0.1145 > volume #50 level 0.1157 > volume #50 level 0.1238 > volume #50 level 0.1051 > volume #50 level 0.08995 > hide #!50 models > show #!50 models > hide #!2 models > volume #50 level 0.1016 > show #!2 models > fitmap #2 inMap #50 Fit molecule 6w77 (#2) to map cryosparc_P50_J455_007_volume_map.mrc z flip (#50) using 47940 atoms average map value = 0.09446, steps = 64 shifted from previous position = 0.00698 rotated from previous position = 0.00295 degrees atoms outside contour = 29343, contour level = 0.10163 Position of 6w77 (#2) relative to cryosparc_P50_J455_007_volume_map.mrc z flip (#50) coordinates: Matrix rotation and translation -0.19673467 0.49593461 0.84578035 -14.80334458 -0.94898702 0.12048390 -0.29138864 348.24788375 -0.24641262 -0.85996078 0.44693212 267.35645951 Axis -0.29949922 0.57532004 -0.76112224 Axis point 104.81997473 282.00634183 -0.00000000 Rotation angle (degrees) 108.34024824 Shift along axis 1.29662708 > volume #50 level 0.04904 > volume #50 level 0.1215 > volume #50 level 0.09579 > volume #50 level 0.1157 > volume #50 level 0.1262 > fitmap #2 inMap #50 Fit molecule 6w77 (#2) to map cryosparc_P50_J455_007_volume_map.mrc z flip (#50) using 47940 atoms average map value = 0.09446, steps = 64 shifted from previous position = 0.00439 rotated from previous position = 0.000938 degrees atoms outside contour = 32705, contour level = 0.12617 Position of 6w77 (#2) relative to cryosparc_P50_J455_007_volume_map.mrc z flip (#50) coordinates: Matrix rotation and translation -0.19674198 0.49592278 0.84578559 -14.80397016 -0.94898794 0.12047598 -0.29138892 348.25217769 -0.24640324 -0.85996871 0.44692204 267.35612746 Axis -0.29950458 0.57532040 -0.76111986 Axis point 104.81783586 282.00842892 0.00000000 Rotation angle (degrees) 108.34101196 Shift along axis 1.30037996 > volume #50 level 0.1063 > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > volume #50 level 0.1203 > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > fitmap #2 inMap #50 Fit molecule 6w77 (#2) to map cryosparc_P50_J455_007_volume_map.mrc z flip (#50) using 47940 atoms average map value = 0.09446, steps = 120 shifted from previous position = 0.00132 rotated from previous position = 0.00278 degrees atoms outside contour = 31925, contour level = 0.12033 Position of 6w77 (#2) relative to cryosparc_P50_J455_007_volume_map.mrc z flip (#50) coordinates: Matrix rotation and translation -0.19674422 0.49593325 0.84577893 -14.80386294 -0.94897533 0.12051369 -0.29141439 348.24694585 -0.24645002 -0.85995739 0.44691803 267.36213730 Axis -0.29948355 0.57533837 -0.76111455 Axis point 104.82163556 282.01211039 0.00000000 Rotation angle (degrees) 108.34006267 Shift along axis 1.30013053 > open /Users/TEST/Downloads/cryosparc_P50_J456_006_volume_map.mrc Opened cryosparc_P50_J456_006_volume_map.mrc as #51, grid size 416,416,416, pixel 0.855, shown at level 0.0844, step 2, values float32 > hide #!50 models > select add #51 2 models selected > view matrix models #51,1,0,0,-11.416,0,1,0,15.044,0,0,1,56.6 > view matrix models #51,1,0,0,-7.0929,0,1,0,4.5604,0,0,1,31.689 > ui mousemode right ""rotate selected models"" > view matrix models > #51,-0.96704,-0.039266,0.25158,297.11,-0.058685,0.99581,-0.070154,28.436,-0.24777,-0.082606,-0.96529,450.59 > select subtract #51 Nothing selected > volume flip #51 Opened cryosparc_P50_J456_006_volume_map.mrc z flip as #52, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #52 2 models selected > view matrix models > #52,-0.86334,-0.50409,-0.023218,401.5,0.33986,-0.61485,0.71165,87.159,-0.37301,0.60651,0.70215,75.65 > ui mousemode right ""translate selected models"" > view matrix models > #52,-0.86334,-0.50409,-0.023218,413.33,0.33986,-0.61485,0.71165,109.78,-0.37301,0.60651,0.70215,44.742 > fitmap #2 inMap #52 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#52) using 47940 atoms average map value = 0.1036, steps = 304 shifted from previous position = 9.9 rotated from previous position = 17.3 degrees atoms outside contour = 21892, contour level = 0.084412 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#52) coordinates: Matrix rotation and translation -0.20191408 0.49707416 0.84388868 -13.68313983 -0.94684893 0.12123372 -0.29795905 349.09877827 -0.25041549 -0.85919717 0.44617531 268.12434440 Axis -0.29590518 0.57695703 -0.76128885 Axis point 105.75180251 282.43285882 -0.00000000 Rotation angle (degrees) 108.49684928 Shift along axis 1.34383034 > select subtract #52 Nothing selected > volume #52 color silver > volume #52 level 0.09098 > volume #52 level 0.1019 > fitmap #2 inMap #52 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#52) using 47940 atoms average map value = 0.1036, steps = 100 shifted from previous position = 0.00563 rotated from previous position = 0.00554 degrees atoms outside contour = 26060, contour level = 0.10194 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#52) coordinates: Matrix rotation and translation -0.20195900 0.49699617 0.84392386 -13.67347836 -0.94684517 0.12121970 -0.29797668 349.10593941 -0.25039345 -0.85924426 0.44609699 268.14334044 Axis -0.29592788 0.57697792 -0.76126419 Axis point 105.74311296 282.44560757 0.00000000 Rotation angle (degrees) 108.50099598 Shift along axis 1.34486154 > volume #52 color darkgrey > fitmap #2 inMap #52 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#52) using 47940 atoms average map value = 0.1036, steps = 116 shifted from previous position = 0.00355 rotated from previous position = 0.00285 degrees atoms outside contour = 26059, contour level = 0.10194 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#52) coordinates: Matrix rotation and translation -0.20194211 0.49699040 0.84393130 -13.67506866 -0.94686046 0.12118975 -0.29794028 349.10470106 -0.25034926 -0.85925182 0.44610722 268.13381133 Axis -0.29595121 0.57695884 -0.76126959 Axis point 105.73864451 282.43808738 0.00000000 Rotation angle (degrees) 108.50108145 Shift along axis 1.34408004 > volume #52 level 0.1052 > fitmap #2 inMap #52 Fit molecule 6w77 (#2) to map cryosparc_P50_J456_006_volume_map.mrc z flip (#52) using 47940 atoms average map value = 0.1036, steps = 172 shifted from previous position = 0.0108 rotated from previous position = 0.00694 degrees atoms outside contour = 26824, contour level = 0.10522 Position of 6w77 (#2) relative to cryosparc_P50_J456_006_volume_map.mrc z flip (#52) coordinates: Matrix rotation and translation -0.20191597 0.49705804 0.84389772 -13.68263094 -0.94683899 0.12127123 -0.29797538 349.09733732 -0.25045155 -0.85920119 0.44614731 268.14548072 Axis -0.29589830 0.57698003 -0.76127409 Axis point 105.75275827 282.44680569 0.00000000 Rotation angle (degrees) 108.49661921 Shift along axis 1.33865167 > open /Users/TEST/Downloads/cryosparc_P50_J457_007_volume_map.mrc Opened cryosparc_P50_J457_007_volume_map.mrc as #53, grid size 416,416,416, pixel 0.855, shown at level 0.0789, step 2, values float32 > volume #53 step 1 > volume flip #53 Opened cryosparc_P50_J457_007_volume_map.mrc z flip as #54, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #54 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #54,-0.93255,-0.28401,-0.22291,425.3,0.011858,-0.64117,0.76731,135.76,-0.36085,0.71291,0.60129,14.904 > ui mousemode right ""translate selected models"" > view matrix models > #54,-0.93255,-0.28401,-0.22291,416.61,0.011858,-0.64117,0.76731,168.23,-0.36085,0.71291,0.60129,49.743 > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 376 shifted from previous position = 11.3 rotated from previous position = 19.3 degrees atoms outside contour = 22884, contour level = 0.078909 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20433783 0.49602770 0.84392096 -13.45296857 -0.94645531 0.12000763 -0.29970073 349.53984996 -0.24993681 -0.85997367 0.44494595 268.32855584 Axis -0.29565184 0.57722057 -0.76118750 Axis point 105.60810871 282.64570506 0.00000000 Rotation angle (degrees) 108.64430713 Shift along axis 1.49064459 > volume #53 level 0.08575 > volume #54 level 0.1014 > select subtract #54 Nothing selected > color #54 darkgrey models > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 160 shifted from previous position = 0.0161 rotated from previous position = 0.00633 degrees atoms outside contour = 28510, contour level = 0.10139 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20431217 0.49607276 0.84390069 -13.45878315 -0.94643407 0.12009602 -0.29973238 349.53049145 -0.25003818 -0.85993533 0.44496308 268.35149619 Axis -0.29560801 0.57724988 -0.76118229 Axis point 105.61956848 282.66025690 -0.00000000 Rotation angle (degrees) 108.64034091 Shift along axis 1.48055107 > hide #!2 models > volume #54 level 0.06523 > volume #54 level 0.1102 > volume #54 level 0.0965 > show #!2 models > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 104 shifted from previous position = 0.0127 rotated from previous position = 0.00865 degrees atoms outside contour = 27373, contour level = 0.0965 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20434818 0.49598381 0.84394425 -13.44775174 -0.94645898 0.11999793 -0.29969302 349.53688619 -0.24991445 -0.86000033 0.44490697 268.34099354 Axis -0.29567309 0.57722712 -0.76117428 Axis point 105.60149552 282.65021047 0.00000000 Rotation angle (degrees) 108.64609173 Shift along axis 1.48404725 > volume #54 level 0.1121 > hide #!2 models > volume #54 level 0.1033 > show #!2 models > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 136 shifted from previous position = 0.00854 rotated from previous position = 0.00575 degrees atoms outside contour = 28942, contour level = 0.10334 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20436315 0.49601064 0.84392485 -13.44580407 -0.94643086 0.12006684 -0.29975420 349.53676985 -0.25000866 -0.85997524 0.44490254 268.34654160 Axis -0.29562495 0.57726152 -0.76116689 Axis point 105.61310996 282.65746644 0.00000000 Rotation angle (degrees) 108.64459488 Shift along axis 1.49253917 > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 124 shifted from previous position = 0.0187 rotated from previous position = 0.00461 degrees atoms outside contour = 28952, contour level = 0.10334 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20435456 0.49603915 0.84391018 -13.45241970 -0.94644926 0.12000394 -0.29972131 349.54415848 -0.24994605 -0.85996757 0.44495253 268.34534891 Axis -0.29563849 0.57722117 -0.76119222 Axis point 105.61072599 282.65499703 0.00000000 Rotation angle (degrees) 108.64472513 Shift along axis 1.47894998 > volume #54 level 0.0623 > volume #54 level 0.08868 > volume #54 level 0.09552 > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 140 shifted from previous position = 0.00535 rotated from previous position = 0.0029 degrees atoms outside contour = 27143, contour level = 0.095522 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20435471 0.49605470 0.84390100 -13.45383790 -0.94643644 0.12004231 -0.29974640 349.54441269 -0.24999444 -0.85995325 0.44495303 268.34788337 Axis -0.29561565 0.57723789 -0.76118842 Axis point 105.61635262 282.65966356 0.00000000 Rotation angle (degrees) 108.64355444 Shift along axis 1.48414249 > volume #54 level 0.09064 > fitmap #2 inMap #54 Fit molecule 6w77 (#2) to map cryosparc_P50_J457_007_volume_map.mrc z flip (#54) using 47940 atoms average map value = 0.09551, steps = 104 shifted from previous position = 0.00558 rotated from previous position = 0.00314 degrees atoms outside contour = 25936, contour level = 0.090636 Position of 6w77 (#2) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation -0.20431051 0.49607257 0.84390120 -13.45920520 -0.94643782 0.12008523 -0.29972487 349.53117939 -0.25002536 -0.85993695 0.44496717 268.34755956 Axis -0.29561309 0.57724390 -0.76118485 Axis point 105.61849586 282.65775664 -0.00000000 Rotation angle (degrees) 108.64049304 Shift along axis 1.48136064 > hide #!2 models > fitmap #52 inMap #54 Fit map cryosparc_P50_J456_006_volume_map.mrc z flip in map cryosparc_P50_J457_007_volume_map.mrc z flip using 498959 points correlation = 0.958, correlation about mean = 0.7545, overlap = 1.107e+04 steps = 296, shift = 11.2, angle = 19.4 degrees Position of cryosparc_P50_J456_006_volume_map.mrc z flip (#52) relative to cryosparc_P50_J457_007_volume_map.mrc z flip (#54) coordinates: Matrix rotation and translation 0.99999445 -0.00258221 -0.00208286 0.82109354 0.00258209 0.99999662 -0.00005745 -0.55742574 0.00208300 0.00005207 0.99999779 -0.50966943 Axis 0.01650493 -0.62776851 0.77822509 Axis point 224.35177668 317.71534559 0.00000000 Rotation angle (degrees) 0.19010751 Shift along axis -0.03315112 > hide #!52 models > show #!2 models > hide #!54 models > open /Users/TEST/Downloads/cryosparc_P50_J458_006_volume_map.mrc Opened cryosparc_P50_J458_006_volume_map.mrc as #55, grid size 416,416,416, pixel 0.855, shown at level 0.0852, step 2, values float32 > volume #55 step 1 > select add #55 2 models selected > view matrix models #55,1,0,0,-11.694,0,1,0,22.903,0,0,1,16.412 > ui mousemode right ""move picked models"" > ui mousemode right ""rotate selected models"" > view matrix models > #55,-0.94265,-0.073201,0.32566,290.1,-0.035687,0.99217,0.11972,8.4985,-0.33188,0.10123,-0.93788,417.61 > volume flip #55 Opened cryosparc_P50_J458_006_volume_map.mrc z flip as #56, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > view matrix models > #55,-0.94265,-0.073201,0.32566,290.1,-0.035687,0.99217,0.11972,8.4985,-0.33188,0.10123,-0.93788,417.61 > select subtract #55 Nothing selected > select add #56 2 models selected > view matrix models > #56,-0.89083,-0.19623,-0.40977,425.76,-0.20154,-0.63764,0.7435,194.31,-0.40718,0.74492,0.52848,78.003 > fitmap #2 inMap #56 Fit molecule 6w77 (#2) to map cryosparc_P50_J458_006_volume_map.mrc z flip (#56) using 47940 atoms average map value = 0.1054, steps = 248 shifted from previous position = 19.6 rotated from previous position = 12.6 degrees atoms outside contour = 22481, contour level = 0.085174 Position of 6w77 (#2) relative to cryosparc_P50_J458_006_volume_map.mrc z flip (#56) coordinates: Matrix rotation and translation -0.19821813 0.50003767 0.84301361 -14.28069023 -0.94756668 0.12218519 -0.29527648 348.48873744 -0.25065314 -0.85734075 0.44959971 267.20707654 Axis -0.29592244 0.57580698 -0.76215236 Axis point 105.98022819 281.78366075 0.00000000 Rotation angle (degrees) 108.25318560 Shift along axis 1.23572115 > volume #56 color darkgrey > volume #56 level 0.09753 > volume #56 level 0.03686 > volume #56 level 0.05821 > volume #56 level 0.09416 > select subtract #56 Nothing selected > volume #56 level 0.05147 > volume #56 level 0.08854 > fitmap #2 inMap #56 Fit molecule 6w77 (#2) to map cryosparc_P50_J458_006_volume_map.mrc z flip (#56) using 47940 atoms average map value = 0.1054, steps = 144 shifted from previous position = 0.00531 rotated from previous position = 0.00174 degrees atoms outside contour = 23347, contour level = 0.088545 Position of 6w77 (#2) relative to cryosparc_P50_J458_006_volume_map.mrc z flip (#56) coordinates: Matrix rotation and translation -0.19824046 0.50004322 0.84300507 -14.27463785 -0.94755740 0.12218822 -0.29530500 348.49483709 -0.25067055 -0.85733708 0.44959699 267.20615704 Axis -0.29590662 0.57581386 -0.76215331 Axis point 105.98575569 281.78388214 0.00000000 Rotation angle (degrees) 108.25384978 Shift along axis 1.24005801 > open /Users/TEST/Downloads/cryosparc_P50_J461_006_volume_map.mrc Opened cryosparc_P50_J461_006_volume_map.mrc as #57, grid size 416,416,416, pixel 0.855, shown at level 0.0754, step 2, values float32 > hide #!56 models > select add #57 2 models selected > view matrix models > #57,-0.82503,0.082081,0.55909,193.31,0.13085,0.99025,0.047712,-28.984,-0.54973,0.11252,-0.82773,402.08 > select subtract #57 Nothing selected > volume flip #57 Opened cryosparc_P50_J461_006_volume_map.mrc z flip as #58, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #58 2 models selected > view matrix models > #58,-0.39985,-0.47788,0.78214,173.53,0.84952,0.12717,0.512,-91.112,-0.34414,0.86917,0.35512,38.955 > view matrix models > #58,-0.83778,-0.078607,-0.54032,413.66,-0.10571,-0.94751,0.30174,278.16,-0.53568,0.30991,0.7855,85.702 > ui mousemode right ""translate selected models"" > view matrix models > #58,-0.83778,-0.078607,-0.54032,392.54,-0.10571,-0.94751,0.30174,295.58,-0.53568,0.30991,0.7855,117.86 > volume #58 color darkgrey > fitmap #2 inMap #58 Fit molecule 6w77 (#2) to map cryosparc_P50_J461_006_volume_map.mrc z flip (#58) using 47940 atoms average map value = 0.09453, steps = 452 shifted from previous position = 28.6 rotated from previous position = 32.2 degrees atoms outside contour = 22887, contour level = 0.075428 Position of 6w77 (#2) relative to cryosparc_P50_J461_006_volume_map.mrc z flip (#58) coordinates: Matrix rotation and translation -0.20240011 0.49772132 0.84339056 -13.84118250 -0.94782520 0.11703503 -0.29653017 349.47791942 -0.24629564 -0.85940459 0.44806492 267.33246110 Axis -0.29691465 0.57480637 -0.76252168 Axis point 105.44591909 281.86335767 0.00000000 Rotation angle (degrees) 108.58130726 Shift along axis 1.14498717 > volume #58 level 0.1002 > select subtract #58 Nothing selected > volume #58 level 0.06949 > volume #58 level 0.09719 > fitmap #2 inMap #58 Fit molecule 6w77 (#2) to map cryosparc_P50_J461_006_volume_map.mrc z flip (#58) using 47940 atoms average map value = 0.09453, steps = 140 shifted from previous position = 0.00393 rotated from previous position = 0.00668 degrees atoms outside contour = 28222, contour level = 0.097193 Position of 6w77 (#2) relative to cryosparc_P50_J461_006_volume_map.mrc z flip (#58) coordinates: Matrix rotation and translation -0.20239870 0.49769629 0.84340567 -13.84016152 -0.94785476 0.11694240 -0.29647224 349.48441578 -0.24618303 -0.85943169 0.44807482 267.31707971 Axis -0.29696379 0.57476323 -0.76253507 Axis point 105.43524550 281.85096429 0.00000000 Rotation angle (degrees) 108.58376517 Shift along axis 1.14217083 > hide #!2 models > show #!2 models > fitmap #2 inMap #58 Fit molecule 6w77 (#2) to map cryosparc_P50_J461_006_volume_map.mrc z flip (#58) using 47940 atoms average map value = 0.09453, steps = 120 shifted from previous position = 0.00638 rotated from previous position = 0.00463 degrees atoms outside contour = 28213, contour level = 0.097193 Position of 6w77 (#2) relative to cryosparc_P50_J461_006_volume_map.mrc z flip (#58) coordinates: Matrix rotation and translation -0.20233351 0.49774074 0.84339509 -13.85345701 -0.94786213 0.11698105 -0.29643343 349.46718037 -0.24620825 -0.85940069 0.44812042 267.30831234 Axis -0.29696005 0.57475572 -0.76254219 Axis point 105.43651060 281.84406286 -0.00000000 Rotation angle (degrees) 108.57924845 Shift along axis 1.13831750 > open /Users/TEST/Downloads/cryosparc_P50_J462_006_volume_map.mrc Opened cryosparc_P50_J462_006_volume_map.mrc as #59, grid size 416,416,416, pixel 0.855, shown at level 0.0849, step 2, values float32 > volume flip #59 Opened cryosparc_P50_J462_006_volume_map.mrc z flip as #60, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #60 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #60,-0.95392,-0.21656,-0.20772,415.5,0.13255,-0.92513,0.35577,226.83,-0.26921,0.31184,0.9112,12.328 > ui mousemode right ""translate selected models"" > view matrix models > #60,-0.95392,-0.21656,-0.20772,394.5,0.13255,-0.92513,0.35577,235.1,-0.26921,0.31184,0.9112,56.61 > ui mousemode right ""rotate selected models"" > view matrix models > #60,-0.82077,-0.2969,-0.48804,432.28,0.12592,-0.92734,0.35239,237.21,-0.5572,0.22778,0.79853,140.42 > view matrix models > #60,-0.81985,-0.29549,-0.49044,432.3,0.12426,-0.92795,0.35138,237.77,-0.55894,0.22714,0.79749,141 > view matrix models > #60,-0.81969,-0.29118,-0.49328,432.06,0.11821,-0.92861,0.35173,238.89,-0.56048,0.23,0.79559,141.14 > ui mousemode right zoom > ui mousemode right ""translate selected models"" > view matrix models > #60,-0.81969,-0.29118,-0.49328,414.13,0.11821,-0.92861,0.35173,260.61,-0.56048,0.23,0.79559,138.72 > view matrix models > #60,-0.81969,-0.29118,-0.49328,420.57,0.11821,-0.92861,0.35173,253.09,-0.56048,0.23,0.79559,139.32 > fitmap #2 inMap #60 Fit molecule 6w77 (#2) to map cryosparc_P50_J462_006_volume_map.mrc z flip (#60) using 47940 atoms average map value = 0.105, steps = 220 shifted from previous position = 9.55 rotated from previous position = 13.4 degrees atoms outside contour = 21670, contour level = 0.084943 Position of 6w77 (#2) relative to cryosparc_P50_J462_006_volume_map.mrc z flip (#60) coordinates: Matrix rotation and translation -0.20377121 0.49574999 0.84422110 -13.21980785 -0.94650123 0.12063965 -0.29930169 349.35024028 -0.25022534 -0.86004537 0.44464508 268.41349512 Axis -0.29585299 0.57743898 -0.76094365 Axis point 105.72819286 282.56285162 -0.00000000 Rotation angle (degrees) 108.61716539 Shift along axis 1.39202033 > select subtract #60 Nothing selected > volume #60 level 0.06132 > volume #60 level 0.07098 > volume #60 level 0.09461 > volume #60 level 0.0989 > hide #!2 models > fitmap #58 inMap #60 Fit map cryosparc_P50_J461_006_volume_map.mrc z flip in map cryosparc_P50_J462_006_volume_map.mrc z flip using 456567 points correlation = 0.9679, correlation about mean = 0.7999, overlap = 1.074e+04 steps = 216, shift = 11, angle = 13.5 degrees Position of cryosparc_P50_J461_006_volume_map.mrc z flip (#58) relative to cryosparc_P50_J462_006_volume_map.mrc z flip (#60) coordinates: Matrix rotation and translation 0.99999841 0.00177735 -0.00026117 -0.04048959 -0.00177831 0.99999147 -0.00373508 1.13552987 0.00025452 0.00373554 0.99999302 -0.78339123 Axis 0.90119510 -0.06220808 -0.42892604 Axis point 0.00000000 184.00809828 307.40800695 Rotation angle (degrees) 0.23748263 Shift along axis 0.22888874 > volume #58 color #941751 > fitmap #58 inMap #60 Fit map cryosparc_P50_J461_006_volume_map.mrc z flip in map cryosparc_P50_J462_006_volume_map.mrc z flip using 456567 points correlation = 0.9679, correlation about mean = 0.7998, overlap = 1.074e+04 steps = 28, shift = 0.0181, angle = 0.00791 degrees Position of cryosparc_P50_J461_006_volume_map.mrc z flip (#58) relative to cryosparc_P50_J462_006_volume_map.mrc z flip (#60) coordinates: Matrix rotation and translation 0.99999844 0.00177258 -0.00015674 -0.06698095 -0.00177314 0.99999181 -0.00364487 1.11110482 0.00015027 0.00364513 0.99999337 -0.76332727 Axis 0.89862781 -0.03784489 -0.43707644 Axis point 0.00000000 182.22455868 306.83311669 Rotation angle (degrees) 0.23240287 Shift along axis 0.23139179 > show #!2 models > hide #!58 models > fitmap #2 inMap #60 Fit molecule 6w77 (#2) to map cryosparc_P50_J462_006_volume_map.mrc z flip (#60) using 47940 atoms average map value = 0.105, steps = 164 shifted from previous position = 0.00136 rotated from previous position = 0.00152 degrees atoms outside contour = 25099, contour level = 0.098904 Position of 6w77 (#2) relative to cryosparc_P50_J462_006_volume_map.mrc z flip (#60) coordinates: Matrix rotation and translation -0.20377805 0.49573848 0.84422620 -13.21858125 -0.94650611 0.12061863 -0.29929474 349.35311813 -0.25020133 -0.86005495 0.44464007 268.41297293 Axis -0.29586344 0.57743237 -0.76094460 Axis point 105.72547530 282.56219846 0.00000000 Rotation angle (degrees) 108.61815887 Shift along axis 1.39129333 > hide #!2 models > show #!2 models > fitmap #2 inMap #60 Fit molecule 6w77 (#2) to map cryosparc_P50_J462_006_volume_map.mrc z flip (#60) using 47940 atoms average map value = 0.105, steps = 100 shifted from previous position = 0.00212 rotated from previous position = 0.00163 degrees atoms outside contour = 25099, contour level = 0.098904 Position of 6w77 (#2) relative to cryosparc_P50_J462_006_volume_map.mrc z flip (#60) coordinates: Matrix rotation and translation -0.20377775 0.49574340 0.84422339 -13.21735740 -0.94649890 0.12064203 -0.29930811 349.34999075 -0.25022884 -0.86004883 0.44463642 268.41837274 Axis -0.29585211 0.57744335 -0.76094068 Axis point 105.72838832 282.56488728 0.00000000 Rotation angle (degrees) 108.61755284 Shift along axis 1.38975262 > open /Users/TEST/Downloads/cryosparc_P50_J463_007_volume_map.mrc Opened cryosparc_P50_J463_007_volume_map.mrc as #61, grid size 416,416,416, pixel 0.855, shown at level 0.061, step 2, values float32 > volume flip #61 Opened cryosparc_P50_J463_007_volume_map.mrc z flip as #62, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > select add #62 2 models selected > view matrix models #62,1,0,0,-13.233,0,1,0,-7.7622,0,0,1,34.271 > ui mousemode right ""rotate selected models"" > view matrix models > #62,-0.57856,-0.5129,-0.63419,461.54,0.34995,-0.85844,0.375,198.91,-0.73675,-0.0049709,0.67615,218.78 > ui mousemode right ""translate selected models"" > view matrix models > #62,-0.57856,-0.5129,-0.63419,452.49,0.34995,-0.85844,0.375,197.06,-0.73675,-0.0049709,0.67615,242.09 > fitmap #2 inMap #62 Fit molecule 6w77 (#2) to map cryosparc_P50_J463_007_volume_map.mrc z flip (#62) using 47940 atoms average map value = 0.09843, steps = 288 shifted from previous position = 20.5 rotated from previous position = 21.7 degrees atoms outside contour = 22401, contour level = 0.061035 Position of 6w77 (#2) relative to cryosparc_P50_J463_007_volume_map.mrc z flip (#62) coordinates: Matrix rotation and translation -0.19943688 0.49027253 0.84844432 -14.27084447 -0.94813597 0.12215312 -0.29345661 348.43116055 -0.24751384 -0.86296666 0.44048319 268.95479702 Axis -0.30038833 0.57806362 -0.75868920 Axis point 104.27562724 283.20476342 0.00000000 Rotation angle (degrees) 108.56620868 Shift along axis 1.64907279 > volume #62 level 0.1321 > volume #62 level 0.1096 > volume #62 color darkgrey > select subtract #62 Nothing selected > fitmap #2 inMap #62 Fit molecule 6w77 (#2) to map cryosparc_P50_J463_007_volume_map.mrc z flip (#62) using 47940 atoms average map value = 0.09843, steps = 80 shifted from previous position = 0.00761 rotated from previous position = 0.00829 degrees atoms outside contour = 28877, contour level = 0.10962 Position of 6w77 (#2) relative to cryosparc_P50_J463_007_volume_map.mrc z flip (#62) coordinates: Matrix rotation and translation -0.19932754 0.49036095 0.84841892 -14.29146851 -0.94814739 0.12221456 -0.29339412 348.41314688 -0.24755816 -0.86290772 0.44057374 268.93572057 Axis -0.30037630 0.57804684 -0.75870675 Axis point 104.28419660 283.19379648 0.00000000 Rotation angle (degrees) 108.55831134 Shift along axis 1.64859221 > volume #62 level 0.0954 > volume #62 level 0.112 > fitmap #2 inMap #60 Fit molecule 6w77 (#2) to map cryosparc_P50_J462_006_volume_map.mrc z flip (#60) using 47940 atoms average map value = 0.105, steps = 416 shifted from previous position = 20.5 rotated from previous position = 21.7 degrees atoms outside contour = 25110, contour level = 0.098904 Position of 6w77 (#2) relative to cryosparc_P50_J462_006_volume_map.mrc z flip (#60) coordinates: Matrix rotation and translation -0.20375572 0.49582890 0.84417849 -13.22695894 -0.94646641 0.12075019 -0.29936723 349.34266283 -0.25036964 -0.85998437 0.44468185 268.43092728 Axis -0.29577767 0.57747592 -0.76094489 Axis point 105.74671739 282.57654154 0.00000000 Rotation angle (degrees) 108.61224397 Shift along axis 1.38807202 > volume #60 level 0.115 > volume #58 color darkgrey > volume #58 level 0.04476 > volume #54 level 0.04861 > volume #54 level 0.07598 > volume #53 level 0.08966 > volume #52 level 0.04279 > volume #50 level 0.1379 > select add #50 2 models selected > view matrix models > #50,-0.94114,-0.326,0.089339,343.99,0.24812,-0.4868,0.83753,70.364,-0.22954,0.8104,0.53903,56.799 > ui mousemode right ""rotate selected models"" > view matrix models > #50,-0.65098,0.082913,-0.75455,384.84,-0.17991,-0.98255,0.047254,388.95,-0.73746,0.16652,0.65454,238.77 > fitmap #2 inMap #50 Fit molecule 6w77 (#2) to map cryosparc_P50_J455_007_volume_map.mrc z flip (#50) using 47940 atoms average map value = 0.09446, steps = 484 shifted from previous position = 46.5 rotated from previous position = 28.6 degrees atoms outside contour = 34173, contour level = 0.13786 Position of 6w77 (#2) relative to cryosparc_P50_J455_007_volume_map.mrc z flip (#50) coordinates: Matrix rotation and translation -0.19673678 0.49591801 0.84578960 -14.80965001 -0.94899775 0.12044967 -0.29136787 348.25212158 -0.24636965 -0.85997515 0.44692817 267.33737970 Axis -0.29951984 0.57530632 -0.76112450 Axis point 104.81119874 281.99938851 0.00000000 Rotation angle (degrees) 108.34146396 Shift along axis 1.31039864 > select subtract #50 Nothing selected > volume #50 level 0.08761 > open /Users/TEST/Downloads/cryosparc_P79_J106_007_volume_map.mrc Opened cryosparc_P79_J106_007_volume_map.mrc as #63, grid size 416,416,416, pixel 0.855, shown at level 0.093, step 2, values float32 > hide #!50 models > hide #!2 models > select add #63 2 models selected > select subtract #63 Nothing selected > volume #63 step 1 > volume #63 level 0.1296 > volume flip #63 Opened cryosparc_P79_J106_007_volume_map.mrc z flip as #64, grid size 416,416,416, pixel 0.855, shown at step 1, values float32 > show #!2 models > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > view matrix models > #2,0.50035,-0.4037,-0.76595,265.96,0.86066,0.13542,0.49084,-34.381,-0.09443,-0.90481,0.41521,340.01 > ui mousemode right ""translate selected models"" > view matrix models > #2,0.50035,-0.4037,-0.76595,264.44,0.86066,0.13542,0.49084,-66.101,-0.09443,-0.90481,0.41521,262.22 > ui mousemode right ""rotate selected models"" > view matrix models > #2,0.68749,-0.47961,-0.54528,208.6,0.46868,-0.28051,0.83765,7.7935,-0.5547,-0.83144,0.031937,391.28 > select subtract #2 Nothing selected > fitmap #2 inMap #64 Fit molecule 6w77 (#2) to map cryosparc_P79_J106_007_volume_map.mrc z flip (#64) using 47940 atoms average map value = 0.1162, steps = 432 shifted from previous position = 28.1 rotated from previous position = 35.3 degrees atoms outside contour = 29290, contour level = 0.12963 Position of 6w77 (#2) relative to cryosparc_P79_J106_007_volume_map.mrc z flip (#64) coordinates: Matrix rotation and translation 0.14336168 -0.60717582 -0.78152729 383.47312864 0.65421736 -0.53439446 0.53518424 73.09329536 -0.74259480 -0.58801364 0.32061328 341.77788057 Axis -0.66483508 -0.02304463 0.74663463 Axis point 316.98264460 182.76622533 0.00000000 Rotation angle (degrees) 122.35813779 Shift along axis -1.44759565 > volume #64 color #929292 > volume #64 level 0.1388 > open /Users/TEST/Downloads/cryosparc_P79_J132_006_volume_map.mrc Opened cryosparc_P79_J132_006_volume_map.mrc as #65, grid size 416,416,416, pixel 0.855, shown at level 0.0622, step 2, values float32 > hide #!2 models > show #!2 models > select add #2 47940 atoms, 52058 bonds, 1470 pseudobonds, 3468 residues, 3 models selected > view matrix models > #2,0.19571,-0.72855,-0.65644,373.58,-0.97852,-0.10089,-0.17977,400.02,0.064747,0.67752,-0.73265,182.94 > ui mousemode right ""translate selected models"" > view matrix models > #2,0.19571,-0.72855,-0.65644,365.16,-0.97852,-0.10089,-0.17977,360.77,0.064747,0.67752,-0.73265,205.07 > fitmap #2 inMap #65 Fit molecule 6w77 (#2) to map cryosparc_P79_J132_006_volume_map.mrc (#65) using 47940 atoms average map value = 0.07328, steps = 216 shifted from previous position = 13.3 rotated from previous position = 13.8 degrees atoms outside contour = 23573, contour level = 0.062209 Position of 6w77 (#2) relative to cryosparc_P79_J132_006_volume_map.mrc (#65) coordinates: Matrix rotation and translation 0.24562380 -0.55410386 -0.79538534 363.60690906 -0.96545782 -0.06623818 -0.25199934 364.22571018 0.08694893 0.82980804 -0.55123358 141.34638320 Axis 0.74333327 -0.60627098 -0.28265022 Axis point 0.00000000 288.57697305 247.22124339 Rotation angle (degrees) 133.30831716 Shift along axis 9.51005072 > volume #65 step 1 > volume #65 level 0.07374 > volume #65 level 0.09387 > select subtract #2 Nothing selected > volume #65 level 0.0979 > volume #65 level 0.07696 > open /Users/TEST/Downloads/cryosparc_P79_J110_006_volume_map.mrc Opened cryosparc_P79_J110_006_volume_map.mrc as #66, grid size 416,416,416, pixel 0.855, shown at level 0.0715, step 2, values float32 > volume #66 step 1 > volume #66 level 0.09502 > fitmap #2 inMap #66 Fit molecule 6w77 (#2) to map cryosparc_P79_J110_006_volume_map.mrc (#66) using 47940 atoms average map value = 0.07276, steps = 84 shifted from previous position = 1.91 rotated from previous position = 0.969 degrees atoms outside contour = 33352, contour level = 0.095024 Position of 6w77 (#2) relative to cryosparc_P79_J110_006_volume_map.mrc (#66) coordinates: Matrix rotation and translation 0.23042604 -0.55887494 -0.79659439 366.66906763 -0.96859605 -0.05314686 -0.24289312 360.45131346 0.09341039 0.82754709 -0.55357049 139.29850007 Axis 0.73765208 -0.61331204 -0.28234331 Axis point 0.00000000 291.24601890 246.63375606 Rotation angle (degrees) 133.48350064 Shift along axis 10.07506909 > hide #!2 models > volume #66 level 0.07883 > open /Users/TEST/Downloads/cryosparc_P79_J132_006_volume_map.mrc Opened cryosparc_P79_J132_006_volume_map.mrc as #67, grid size 416,416,416, pixel 0.855, shown at level 0.0622, step 2, values float32 > hide #!66 models > volume #67 step 1 > volume #67 level 0.07429 > show #!2 models > fitmap #2 inMap #67 Fit molecule 6w77 (#2) to map cryosparc_P79_J132_006_volume_map.mrc (#67) using 47940 atoms average map value = 0.07328, steps = 56 shifted from previous position = 1.91 rotated from previous position = 0.967 degrees atoms outside contour = 25970, contour level = 0.074292 Position of 6w77 (#2) relative to cryosparc_P79_J132_006_volume_map.mrc (#67) coordinates: Matrix rotation and translation 0.24558885 -0.55413608 -0.79537368 363.61485389 -0.96546960 -0.06625514 -0.25194975 364.22176350 0.08691685 0.82978517 -0.55127307 141.36351477 Axis 0.74332749 -0.60627682 -0.28265290 Axis point 0.00000000 288.57921974 247.22274732 Rotation angle (degrees) 133.31191566 Shift along axis 9.50889631 > volume #67 level 0.09685 > volume #67 level 0.08557 > volume #67 level 0.1057 Unsupported scale factor (0.000000) detected on Display0 QPainter::begin: Paint device returned engine == 0, type: 3 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/TEST/Downloads/cryosparc_P79_J111_007_volume_map.mrc Opened cryosparc_P79_J111_007_volume_map.mrc as #1, grid size 416,416,416, pixel 0.855, shown at level 0.0103, step 2, values float32 OpenGL version: 4.1 Metal - 83.1 OpenGL renderer: Apple M1 Pro OpenGL vendor: Apple Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.4.2, Qt 6.4.2 Qt runtime version: 6.4.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro18,3 Model Number: MKGP3LL/A Chip: Apple M1 Pro Total Number of Cores: 8 (6 performance and 2 efficiency) Memory: 16 GB System Firmware Version: 8422.121.1 OS Loader Version: 8422.121.1 Software: System Software Overview: System Version: macOS 13.4.1 (c) (22F770820d) Kernel Version: Darwin 22.5.0 Time since boot: 5 days, 18 hours, 53 minutes Graphics/Displays: Apple M1 Pro: Chipset Model: Apple M1 Pro Type: GPU Bus: Built-In Total Number of Cores: 14 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal DELL U2410: Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array) UI Looks like: 1920 x 1200 @ 60.00Hz Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 0.7.13 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.2.1 Babel: 2.12.1 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 build: 0.10.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 3.1.0 ChimeraX-AddCharge: 1.5.9.1 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.3.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.9.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.43.10 ChimeraX-AtomicLibrary: 10.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3.2 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.8 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: 1.3.2 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3.1 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.3 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.6.1 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.4.2 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 ChimeraX-DockPrep: 1.1.1 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: 1.2.1 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-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 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: 2.0.12 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.9 ChimeraX-ModelPanel: 1.3.7 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.0 ChimeraX-NRRD: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.10.1 ChimeraX-PDB: 2.7.2 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 3.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.1 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.8.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10.3 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Topography: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.28.4 ChimeraX-uniprot: 2.2.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.1 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.1.3 contourpy: 1.0.7 cxservices: 1.2.2 cycler: 0.11.0 Cython: 0.29.33 debugpy: 1.6.7 decorator: 5.1.1 docutils: 0.19 executing: 1.2.0 filelock: 3.9.0 fonttools: 4.39.3 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.8.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.35 imagecodecs: 2022.2.22 imagesize: 1.4.1 importlib-metadata: 6.6.0 ipykernel: 6.21.1 ipython: 8.10.0 ipython-genutils: 0.2.0 ipywidgets: 8.0.6 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.0.2 jupyter-core: 5.3.0 jupyterlab-widgets: 3.0.7 kiwisolver: 1.4.4 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.2 matplotlib: 3.6.3 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.2 networkx: 2.8.8 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.4 numpy: 1.23.5 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.3.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 3.5.0 prompt-toolkit: 3.0.38 psutil: 5.9.4 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.14.0 pynrrd: 1.0.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.4.2 PyQt6-Qt6: 6.4.3 PyQt6-sip: 13.4.1 PyQt6-WebEngine-commercial: 6.4.0 PyQt6-WebEngine-Qt6: 6.4.3 python-dateutil: 2.8.2 pytz: 2023.3 pyzmq: 25.0.2 qtconsole: 5.4.0 QtPy: 2.3.1 RandomWords: 0.4.0 requests: 2.28.2 scipy: 1.9.3 setuptools: 67.4.0 setuptools-scm: 7.0.5 sfftk-rw: 0.7.3 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.4.1 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.4 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.1 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tcia-utils: 1.2.0 tifffile: 2022.10.10 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.3.1 traitlets: 5.9.0 typing-extensions: 4.5.0 tzdata: 2023.3 urllib3: 1.26.15 wcwidth: 0.2.6 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.7 zipp: 3.15.0 }}} " defect closed normal Window Toolkit duplicate Tom Goddard all ChimeraX