The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.3rc202111250017 (2021-11-25 00:17:48 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x000070000af7c000 (most recent call first):
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 316 in wait
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 574 in wait
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 1284 in run
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Current thread 0x00000001132ab600 (most recent call first):
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 867 in init
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1018 in
File "/Applications/ChimeraX-1.3-rc2021.11.25.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX-1.3-rc2021.11.25.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":"2022-02-16 15:11:14.00 +0000","app_version":"1.3.0","slice_uuid":"9596eff5-d2be-396c-9c4e-6177235c3dae","build_version":"1.3.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 12.1 (21C52)","incident_id":"604F5A95-09CE-41DD-BB5B-25993E1A0147","name":"ChimeraX"}
{
"uptime" : 1100000,
"procLaunch" : "2022-02-16 13:40:10.4226 +0000",
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookPro16,1",
"procStartAbsTime" : 1161315648839832,
"coalitionID" : 16410,
"osVersion" : {
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"build" : "21C52",
"releaseType" : "User"
},
"captureTime" : "2022-02-16 15:10:54.4265 +0000",
"incident" : "604F5A95-09CE-41DD-BB5B-25993E1A0147",
"bug_type" : "309",
"pid" : 53083,
"procExitAbsTime" : 1166759522475529,
"cpuType" : "X86-64",
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.3-rc2021.11.25.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.3.0","CFBundleVersion":"1.3.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"C47A3751-C6C7-51DE-A718-122F5F62355D","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "6F32448C-DD15-E36D-8532-9AD0522B4C55",
"wakeTime" : 194880,
"bridgeVersion" : {"build":"19P647","train":"6.1"},
"sleepWakeUUID" : "2E84B6BE-E602-48B6-A154-1318B5E9FFE9",
"sip" : "enabled",
"vmRegionInfo" : "0x20 is not in any region. Bytes before following region: 4369276896\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1046de000-1046df000 [ 4K] r-x\/r-x SM=COW ...acOS\/ChimeraX",
"isCorpse" : 1,
"exception" : {"codes":"0x0000000000000001, 0x0000000000000020","rawCodes":[1,32],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000020"},
"ktriageinfo" : "VM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\n",
"vmregioninfo" : "0x20 is not in any region. Bytes before following region: 4369276896\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1046de000-1046df000 [ 4K] r-x\/r-x SM=COW ...acOS\/ChimeraX",
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"faultingThread" : 0,
"threads" : 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}
===== Log before crash start =====
UCSF ChimeraX version: 1.3rc202111250017 (2021-11-25)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/sacosta/MICROSCOPY/FERRITIN/NEW-
> RECONSTRUCTIONS/RELION/relion.cxs
Opened MD_Oct_BPA_9Aresolution.mrc as #1, grid size 250,250,250, pixel 0.832,
shown at level 0.0287, step 1, values float32
Opened relion_locres.mrc as #2, grid size 250,250,250, pixel 0.832, shown at
level 14.3, step 1, values float32
Opened relion_locres_filtered.mrc as #3, grid size 250,250,250, pixel 0.832,
shown at level 0.0559, step 1, values float32
Map values for surface "surface": minimum 0.04954, mean 0.05342, maximum
0.05526
opened ChimeraX session
> open /Users/sacosta/MICROSCOPY/FERRITIN/map/md-20-snapshots.pdb
Chain information for md-20-snapshots.pdb
---
Chain | Description
6.1/A 6.2/A 6.3/A 6.4/A 6.5/A 6.6/A 6.7/A 6.8/A 6.9/A 6.10/A 6.11/A 6.12/A
6.13/A 6.14/A 6.15/A 6.16/A 6.17/A 6.18/A 6.19/A 6.20/A | No description
available
6.1/B 6.2/B 6.3/B 6.4/B 6.5/B 6.6/B 6.7/B 6.8/B 6.9/B 6.10/B 6.11/B 6.12/B
6.13/B 6.14/B 6.15/B 6.16/B 6.17/B 6.18/B 6.19/B 6.20/B 6.1/C 6.2/C 6.3/C
6.4/C 6.5/C 6.6/C 6.7/C 6.8/C 6.9/C 6.10/C 6.11/C 6.12/C 6.13/C 6.14/C 6.15/C
6.16/C 6.17/C 6.18/C 6.19/C 6.20/C 6.1/D 6.2/D 6.3/D 6.4/D 6.5/D 6.6/D 6.7/D
6.8/D 6.9/D 6.10/D 6.11/D 6.12/D 6.13/D 6.14/D 6.15/D 6.16/D 6.17/D 6.18/D
6.19/D 6.20/D 6.1/E 6.2/E 6.3/E 6.4/E 6.5/E 6.6/E 6.7/E 6.8/E 6.9/E 6.10/E
6.11/E 6.12/E 6.13/E 6.14/E 6.15/E 6.16/E 6.17/E 6.18/E 6.19/E 6.20/E 6.1/F
6.2/F 6.3/F 6.4/F 6.5/F 6.6/F 6.7/F 6.8/F 6.9/F 6.10/F 6.11/F 6.12/F 6.13/F
6.14/F 6.15/F 6.16/F 6.17/F 6.18/F 6.19/F 6.20/F 6.1/G 6.2/G 6.3/G 6.4/G 6.5/G
6.6/G 6.7/G 6.8/G 6.9/G 6.10/G 6.11/G 6.12/G 6.13/G 6.14/G 6.15/G 6.16/G
6.17/G 6.18/G 6.19/G 6.20/G 6.1/H 6.2/H 6.3/H 6.4/H 6.5/H 6.6/H 6.7/H 6.8/H
6.9/H 6.10/H 6.11/H 6.12/H 6.13/H 6.14/H 6.15/H 6.16/H 6.17/H 6.18/H 6.19/H
6.20/H 6.1/I 6.2/I 6.3/I 6.4/I 6.5/I 6.6/I 6.7/I 6.8/I 6.9/I 6.10/I 6.11/I
6.12/I 6.13/I 6.14/I 6.15/I 6.16/I 6.17/I 6.18/I 6.19/I 6.20/I 6.1/J 6.2/J
6.3/J 6.4/J 6.5/J 6.6/J 6.7/J 6.8/J 6.9/J 6.10/J 6.11/J 6.12/J 6.13/J 6.14/J
6.15/J 6.16/J 6.17/J 6.18/J 6.19/J 6.20/J 6.1/K 6.2/K 6.3/K 6.4/K 6.5/K 6.6/K
6.7/K 6.8/K 6.9/K 6.10/K 6.11/K 6.12/K 6.13/K 6.14/K 6.15/K 6.16/K 6.17/K
6.18/K 6.19/K 6.20/K 6.1/L 6.2/L 6.3/L 6.4/L 6.5/L 6.6/L 6.7/L 6.8/L 6.9/L
6.10/L 6.11/L 6.12/L 6.13/L 6.14/L 6.15/L 6.16/L 6.17/L 6.18/L 6.19/L 6.20/L
6.1/M 6.2/M 6.3/M 6.4/M 6.5/M 6.6/M 6.7/M 6.8/M 6.9/M 6.10/M 6.11/M 6.12/M
6.13/M 6.14/M 6.15/M 6.16/M 6.17/M 6.18/M 6.19/M 6.20/M 6.1/N 6.2/N 6.3/N
6.4/N 6.5/N 6.6/N 6.7/N 6.8/N 6.9/N 6.10/N 6.11/N 6.12/N 6.13/N 6.14/N 6.15/N
6.16/N 6.17/N 6.18/N 6.19/N 6.20/N 6.1/O 6.2/O 6.3/O 6.4/O 6.5/O 6.6/O 6.7/O
6.8/O 6.9/O 6.10/O 6.11/O 6.12/O 6.13/O 6.14/O 6.15/O 6.16/O 6.17/O 6.18/O
6.19/O 6.20/O 6.1/P 6.2/P 6.3/P 6.4/P 6.5/P 6.6/P 6.7/P 6.8/P 6.9/P 6.10/P
6.11/P 6.12/P 6.13/P 6.14/P 6.15/P 6.16/P 6.17/P 6.18/P 6.19/P 6.20/P 6.1/Q
6.2/Q 6.3/Q 6.4/Q 6.5/Q 6.6/Q 6.7/Q 6.8/Q 6.9/Q 6.10/Q 6.11/Q 6.12/Q 6.13/Q
6.14/Q 6.15/Q 6.16/Q 6.17/Q 6.18/Q 6.19/Q 6.20/Q 6.1/R 6.2/R 6.3/R 6.4/R 6.5/R
6.6/R 6.7/R 6.8/R 6.9/R 6.10/R 6.11/R 6.12/R 6.13/R 6.14/R 6.15/R 6.16/R
6.17/R 6.18/R 6.19/R 6.20/R 6.1/S 6.2/S 6.3/S 6.4/S 6.5/S 6.6/S 6.7/S 6.8/S
6.9/S 6.10/S 6.11/S 6.12/S 6.13/S 6.14/S 6.15/S 6.16/S 6.17/S 6.18/S 6.19/S
6.20/S 6.1/T 6.2/T 6.3/T 6.4/T 6.5/T 6.6/T 6.7/T 6.8/T 6.9/T 6.10/T 6.11/T
6.12/T 6.13/T 6.14/T 6.15/T 6.16/T 6.17/T 6.18/T 6.19/T 6.20/T 6.1/U 6.2/U
6.3/U 6.4/U 6.5/U 6.6/U 6.7/U 6.8/U 6.9/U 6.10/U 6.11/U 6.12/U 6.13/U 6.14/U
6.15/U 6.16/U 6.17/U 6.18/U 6.19/U 6.20/U 6.1/V 6.2/V 6.3/V 6.4/V 6.5/V 6.6/V
6.7/V 6.8/V 6.9/V 6.10/V 6.11/V 6.12/V 6.13/V 6.14/V 6.15/V 6.16/V 6.17/V
6.18/V 6.19/V 6.20/V 6.1/W 6.2/W 6.3/W 6.4/W 6.5/W 6.6/W 6.7/W 6.8/W 6.9/W
6.10/W 6.11/W 6.12/W 6.13/W 6.14/W 6.15/W 6.16/W 6.17/W 6.18/W 6.19/W 6.20/W
6.1/X 6.2/X 6.3/X 6.4/X 6.5/X 6.6/X 6.7/X 6.8/X 6.9/X 6.10/X 6.11/X 6.12/X
6.13/X 6.14/X 6.15/X 6.16/X 6.17/X 6.18/X 6.19/X 6.20/X | No description
available
> ui tool show H-Bonds
> ui tool show Matchmaker
> matchmaker #6.1-20 to #4/A pairing bs
Parameters
---
Chain pairing | bs
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain A
(#6.1), sequence alignment score = 868.1
RMSD between 163 pruned atom pairs is 1.018 angstroms; (across all 169 pairs:
1.101)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain L
(#6.2), sequence alignment score = 871.5
RMSD between 165 pruned atom pairs is 0.841 angstroms; (across all 170 pairs:
0.927)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain D
(#6.3), sequence alignment score = 867.9
RMSD between 166 pruned atom pairs is 0.810 angstroms; (across all 170 pairs:
0.869)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain I
(#6.4), sequence alignment score = 868.5
RMSD between 168 pruned atom pairs is 0.825 angstroms; (across all 170 pairs:
0.882)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain L
(#6.5), sequence alignment score = 864.9
RMSD between 165 pruned atom pairs is 0.769 angstroms; (across all 170 pairs:
0.913)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain Q
(#6.6), sequence alignment score = 869.1
RMSD between 163 pruned atom pairs is 0.805 angstroms; (across all 170 pairs:
0.979)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain L
(#6.7), sequence alignment score = 871.5
RMSD between 163 pruned atom pairs is 0.647 angstroms; (across all 170 pairs:
0.894)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain L
(#6.8), sequence alignment score = 871.5
RMSD between 167 pruned atom pairs is 0.813 angstroms; (across all 170 pairs:
0.928)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain I
(#6.9), sequence alignment score = 868.5
RMSD between 166 pruned atom pairs is 0.649 angstroms; (across all 170 pairs:
0.783)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain M
(#6.10), sequence alignment score = 875.1
RMSD between 147 pruned atom pairs is 0.952 angstroms; (across all 170 pairs:
1.373)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain P
(#6.11), sequence alignment score = 869.1
RMSD between 163 pruned atom pairs is 0.857 angstroms; (across all 170 pairs:
1.050)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain V
(#6.12), sequence alignment score = 871.5
RMSD between 167 pruned atom pairs is 0.671 angstroms; (across all 170 pairs:
0.797)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain I
(#6.13), sequence alignment score = 868.5
RMSD between 168 pruned atom pairs is 0.654 angstroms; (across all 170 pairs:
0.767)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain D
(#6.14), sequence alignment score = 865.5
RMSD between 149 pruned atom pairs is 0.915 angstroms; (across all 170 pairs:
1.477)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain I
(#6.15), sequence alignment score = 872.1
RMSD between 168 pruned atom pairs is 0.676 angstroms; (across all 170 pairs:
0.739)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain M
(#6.16), sequence alignment score = 869.1
RMSD between 155 pruned atom pairs is 0.868 angstroms; (across all 170 pairs:
1.227)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain B
(#6.17), sequence alignment score = 867.9
RMSD between 165 pruned atom pairs is 0.647 angstroms; (across all 170 pairs:
0.852)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain M
(#6.18), sequence alignment score = 872.1
RMSD between 163 pruned atom pairs is 0.914 angstroms; (across all 170 pairs:
1.160)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain P
(#6.19), sequence alignment score = 869.1
RMSD between 166 pruned atom pairs is 0.714 angstroms; (across all 170 pairs:
0.873)
Matchmaker ferritin.pdb, chain A (#4) with md-20-snapshots.pdb, chain G
(#6.20), sequence alignment score = 868.5
RMSD between 163 pruned atom pairs is 0.682 angstroms; (across all 170 pairs:
0.889)
> select #6
655080 atoms, 665640 bonds, 81580 residues, 21 models selected
> hide sel atoms
> show sel cartoons
> select helix
513448 atoms, 519051 bonds, 63893 residues, 21 models selected
> hide sel cartoons
> close #6
> select /A
32736 atoms, 33264 bonds, 23 pseudobonds, 4080 residues, 2 models selected
> show sel cartoons
> open /Users/sacosta/MICROSCOPY/FERRITIN/map/rmsd-60-snapshots-not-align.dat
Install the SEQCROW bundle to open "Psi4 output file" format files.
Opener for format 'Psi4 output file' is not installed; see log for more info
> open /Users/sacosta/MICROSCOPY/FERRITIN/map/md-60snapshots.pdb
Chain information for md-60snapshots.pdb
---
Chain | Description
6.1/A 6.2/A 6.3/A 6.4/A 6.5/A 6.6/A 6.7/A 6.8/A 6.9/A 6.10/A 6.11/A 6.12/A
6.13/A 6.14/A 6.15/A 6.16/A 6.17/A 6.18/A 6.19/A 6.20/A 6.21/A 6.22/A 6.23/A
6.24/A 6.25/A 6.26/A 6.27/A 6.28/A 6.29/A 6.30/A 6.31/A 6.32/A 6.33/A 6.34/A
6.35/A 6.36/A 6.37/A 6.38/A 6.39/A 6.40/A 6.41/A 6.42/A 6.43/A 6.44/A 6.45/A
6.46/A 6.47/A 6.48/A 6.49/A 6.50/A 6.51/A 6.52/A 6.53/A 6.54/A 6.55/A 6.56/A
6.57/A 6.58/A 6.59/A 6.60/A 6.61/A | No description available
6.1/B 6.2/B 6.3/B 6.4/B 6.5/B 6.6/B 6.7/B 6.8/B 6.9/B 6.10/B 6.11/B 6.12/B
6.13/B 6.14/B 6.15/B 6.16/B 6.17/B 6.18/B 6.19/B 6.20/B 6.21/B 6.22/B 6.23/B
6.24/B 6.25/B 6.26/B 6.27/B 6.28/B 6.29/B 6.30/B 6.31/B 6.32/B 6.33/B 6.34/B
6.35/B 6.36/B 6.37/B 6.38/B 6.39/B 6.40/B 6.41/B 6.42/B 6.43/B 6.44/B 6.45/B
6.46/B 6.47/B 6.48/B 6.49/B 6.50/B 6.51/B 6.52/B 6.53/B 6.54/B 6.55/B 6.56/B
6.57/B 6.58/B 6.59/B 6.60/B 6.61/B 6.1/C 6.2/C 6.3/C 6.4/C 6.5/C 6.6/C 6.7/C
6.8/C 6.9/C 6.10/C 6.11/C 6.12/C 6.13/C 6.14/C 6.15/C 6.16/C 6.17/C 6.18/C
6.19/C 6.20/C 6.21/C 6.22/C 6.23/C 6.24/C 6.25/C 6.26/C 6.27/C 6.28/C 6.29/C
6.30/C 6.31/C 6.32/C 6.33/C 6.34/C 6.35/C 6.36/C 6.37/C 6.38/C 6.39/C 6.40/C
6.41/C 6.42/C 6.43/C 6.44/C 6.45/C 6.46/C 6.47/C 6.48/C 6.49/C 6.50/C 6.51/C
6.52/C 6.53/C 6.54/C 6.55/C 6.56/C 6.57/C 6.58/C 6.59/C 6.60/C 6.61/C 6.1/D
6.2/D 6.3/D 6.4/D 6.5/D 6.6/D 6.7/D 6.8/D 6.9/D 6.10/D 6.11/D 6.12/D 6.13/D
6.14/D 6.15/D 6.16/D 6.17/D 6.18/D 6.19/D 6.20/D 6.21/D 6.22/D 6.23/D 6.24/D
6.25/D 6.26/D 6.27/D 6.28/D 6.29/D 6.30/D 6.31/D 6.32/D 6.33/D 6.34/D 6.35/D
6.36/D 6.37/D 6.38/D 6.39/D 6.40/D 6.41/D 6.42/D 6.43/D 6.44/D 6.45/D 6.46/D
6.47/D 6.48/D 6.49/D 6.50/D 6.51/D 6.52/D 6.53/D 6.54/D 6.55/D 6.56/D 6.57/D
6.58/D 6.59/D 6.60/D 6.61/D 6.1/E 6.2/E 6.3/E 6.4/E 6.5/E 6.6/E 6.7/E 6.8/E
6.9/E 6.10/E 6.11/E 6.12/E 6.13/E 6.14/E 6.15/E 6.16/E 6.17/E 6.18/E 6.19/E
6.20/E 6.21/E 6.22/E 6.23/E 6.24/E 6.25/E 6.26/E 6.27/E 6.28/E 6.29/E 6.30/E
6.31/E 6.32/E 6.33/E 6.34/E 6.35/E 6.36/E 6.37/E 6.38/E 6.39/E 6.40/E 6.41/E
6.42/E 6.43/E 6.44/E 6.45/E 6.46/E 6.47/E 6.48/E 6.49/E 6.50/E 6.51/E 6.52/E
6.53/E 6.54/E 6.55/E 6.56/E 6.57/E 6.58/E 6.59/E 6.60/E 6.61/E 6.1/F 6.2/F
6.3/F 6.4/F 6.5/F 6.6/F 6.7/F 6.8/F 6.9/F 6.10/F 6.11/F 6.12/F 6.13/F 6.14/F
6.15/F 6.16/F 6.17/F 6.18/F 6.19/F 6.20/F 6.21/F 6.22/F 6.23/F 6.24/F 6.25/F
6.26/F 6.27/F 6.28/F 6.29/F 6.30/F 6.31/F 6.32/F 6.33/F 6.34/F 6.35/F 6.36/F
6.37/F 6.38/F 6.39/F 6.40/F 6.41/F 6.42/F 6.43/F 6.44/F 6.45/F 6.46/F 6.47/F
6.48/F 6.49/F 6.50/F 6.51/F 6.52/F 6.53/F 6.54/F 6.55/F 6.56/F 6.57/F 6.58/F
6.59/F 6.60/F 6.61/F 6.1/G 6.2/G 6.3/G 6.4/G 6.5/G 6.6/G 6.7/G 6.8/G 6.9/G
6.10/G 6.11/G 6.12/G 6.13/G 6.14/G 6.15/G 6.16/G 6.17/G 6.18/G 6.19/G 6.20/G
6.21/G 6.22/G 6.23/G 6.24/G 6.25/G 6.26/G 6.27/G 6.28/G 6.29/G 6.30/G 6.31/G
6.32/G 6.33/G 6.34/G 6.35/G 6.36/G 6.37/G 6.38/G 6.39/G 6.40/G 6.41/G 6.42/G
6.43/G 6.44/G 6.45/G 6.46/G 6.47/G 6.48/G 6.49/G 6.50/G 6.51/G 6.52/G 6.53/G
6.54/G 6.55/G 6.56/G 6.57/G 6.58/G 6.59/G 6.60/G 6.61/G 6.1/H 6.2/H 6.3/H
6.4/H 6.5/H 6.6/H 6.7/H 6.8/H 6.9/H 6.10/H 6.11/H 6.12/H 6.13/H 6.14/H 6.15/H
6.16/H 6.17/H 6.18/H 6.19/H 6.20/H 6.21/H 6.22/H 6.23/H 6.24/H 6.25/H 6.26/H
6.27/H 6.28/H 6.29/H 6.30/H 6.31/H 6.32/H 6.33/H 6.34/H 6.35/H 6.36/H 6.37/H
6.38/H 6.39/H 6.40/H 6.41/H 6.42/H 6.43/H 6.44/H 6.45/H 6.46/H 6.47/H 6.48/H
6.49/H 6.50/H 6.51/H 6.52/H 6.53/H 6.54/H 6.55/H 6.56/H 6.57/H 6.58/H 6.59/H
6.60/H 6.61/H 6.1/I 6.2/I 6.3/I 6.4/I 6.5/I 6.6/I 6.7/I 6.8/I 6.9/I 6.10/I
6.11/I 6.12/I 6.13/I 6.14/I 6.15/I 6.16/I 6.17/I 6.18/I 6.19/I 6.20/I 6.21/I
6.22/I 6.23/I 6.24/I 6.25/I 6.26/I 6.27/I 6.28/I 6.29/I 6.30/I 6.31/I 6.32/I
6.33/I 6.34/I 6.35/I 6.36/I 6.37/I 6.38/I 6.39/I 6.40/I 6.41/I 6.42/I 6.43/I
6.44/I 6.45/I 6.46/I 6.47/I 6.48/I 6.49/I 6.50/I 6.51/I 6.52/I 6.53/I 6.54/I
6.55/I 6.56/I 6.57/I 6.58/I 6.59/I 6.60/I 6.61/I 6.1/J 6.2/J 6.3/J 6.4/J 6.5/J
6.6/J 6.7/J 6.8/J 6.9/J 6.10/J 6.11/J 6.12/J 6.13/J 6.14/J 6.15/J 6.16/J
6.17/J 6.18/J 6.19/J 6.20/J 6.21/J 6.22/J 6.23/J 6.24/J 6.25/J 6.26/J 6.27/J
6.28/J 6.29/J 6.30/J 6.31/J 6.32/J 6.33/J 6.34/J 6.35/J 6.36/J 6.37/J 6.38/J
6.39/J 6.40/J 6.41/J 6.42/J 6.43/J 6.44/J 6.45/J 6.46/J 6.47/J 6.48/J 6.49/J
6.50/J 6.51/J 6.52/J 6.53/J 6.54/J 6.55/J 6.56/J 6.57/J 6.58/J 6.59/J 6.60/J
6.61/J 6.1/K 6.2/K 6.3/K 6.4/K 6.5/K 6.6/K 6.7/K 6.8/K 6.9/K 6.10/K 6.11/K
6.12/K 6.13/K 6.14/K 6.15/K 6.16/K 6.17/K 6.18/K 6.19/K 6.20/K 6.21/K 6.22/K
6.23/K 6.24/K 6.25/K 6.26/K 6.27/K 6.28/K 6.29/K 6.30/K 6.31/K 6.32/K 6.33/K
6.34/K 6.35/K 6.36/K 6.37/K 6.38/K 6.39/K 6.40/K 6.41/K 6.42/K 6.43/K 6.44/K
6.45/K 6.46/K 6.47/K 6.48/K 6.49/K 6.50/K 6.51/K 6.52/K 6.53/K 6.54/K 6.55/K
6.56/K 6.57/K 6.58/K 6.59/K 6.60/K 6.61/K 6.1/L 6.2/L 6.3/L 6.4/L 6.5/L 6.6/L
6.7/L 6.8/L 6.9/L 6.10/L 6.11/L 6.12/L 6.13/L 6.14/L 6.15/L 6.16/L 6.17/L
6.18/L 6.19/L 6.20/L 6.21/L 6.22/L 6.23/L 6.24/L 6.25/L 6.26/L 6.27/L 6.28/L
6.29/L 6.30/L 6.31/L 6.32/L 6.33/L 6.34/L 6.35/L 6.36/L 6.37/L 6.38/L 6.39/L
6.40/L 6.41/L 6.42/L 6.43/L 6.44/L 6.45/L 6.46/L 6.47/L 6.48/L 6.49/L 6.50/L
6.51/L 6.52/L 6.53/L 6.54/L 6.55/L 6.56/L 6.57/L 6.58/L 6.59/L 6.60/L 6.61/L
6.1/M 6.2/M 6.3/M 6.4/M 6.5/M 6.6/M 6.7/M 6.8/M 6.9/M 6.10/M 6.11/M 6.12/M
6.13/M 6.14/M 6.15/M 6.16/M 6.17/M 6.18/M 6.19/M 6.20/M 6.21/M 6.22/M 6.23/M
6.24/M 6.25/M 6.26/M 6.27/M 6.28/M 6.29/M 6.30/M 6.31/M 6.32/M 6.33/M 6.34/M
6.35/M 6.36/M 6.37/M 6.38/M 6.39/M 6.40/M 6.41/M 6.42/M 6.43/M 6.44/M 6.45/M
6.46/M 6.47/M 6.48/M 6.49/M 6.50/M 6.51/M 6.52/M 6.53/M 6.54/M 6.55/M 6.56/M
6.57/M 6.58/M 6.59/M 6.60/M 6.61/M 6.1/N 6.2/N 6.3/N 6.4/N 6.5/N 6.6/N 6.7/N
6.8/N 6.9/N 6.10/N 6.11/N 6.12/N 6.13/N 6.14/N 6.15/N 6.16/N 6.17/N 6.18/N
6.19/N 6.20/N 6.21/N 6.22/N 6.23/N 6.24/N 6.25/N 6.26/N 6.27/N 6.28/N 6.29/N
6.30/N 6.31/N 6.32/N 6.33/N 6.34/N 6.35/N 6.36/N 6.37/N 6.38/N 6.39/N 6.40/N
6.41/N 6.42/N 6.43/N 6.44/N 6.45/N 6.46/N 6.47/N 6.48/N 6.49/N 6.50/N 6.51/N
6.52/N 6.53/N 6.54/N 6.55/N 6.56/N 6.57/N 6.58/N 6.59/N 6.60/N 6.61/N 6.1/O
6.2/O 6.3/O 6.4/O 6.5/O 6.6/O 6.7/O 6.8/O 6.9/O 6.10/O 6.11/O 6.12/O 6.13/O
6.14/O 6.15/O 6.16/O 6.17/O 6.18/O 6.19/O 6.20/O 6.21/O 6.22/O 6.23/O 6.24/O
6.25/O 6.26/O 6.27/O 6.28/O 6.29/O 6.30/O 6.31/O 6.32/O 6.33/O 6.34/O 6.35/O
6.36/O 6.37/O 6.38/O 6.39/O 6.40/O 6.41/O 6.42/O 6.43/O 6.44/O 6.45/O 6.46/O
6.47/O 6.48/O 6.49/O 6.50/O 6.51/O 6.52/O 6.53/O 6.54/O 6.55/O 6.56/O 6.57/O
6.58/O 6.59/O 6.60/O 6.61/O 6.1/P 6.2/P 6.3/P 6.4/P 6.5/P 6.6/P 6.7/P 6.8/P
6.9/P 6.10/P 6.11/P 6.12/P 6.13/P 6.14/P 6.15/P 6.16/P 6.17/P 6.18/P 6.19/P
6.20/P 6.21/P 6.22/P 6.23/P 6.24/P 6.25/P 6.26/P 6.27/P 6.28/P 6.29/P 6.30/P
6.31/P 6.32/P 6.33/P 6.34/P 6.35/P 6.36/P 6.37/P 6.38/P 6.39/P 6.40/P 6.41/P
6.42/P 6.43/P 6.44/P 6.45/P 6.46/P 6.47/P 6.48/P 6.49/P 6.50/P 6.51/P 6.52/P
6.53/P 6.54/P 6.55/P 6.56/P 6.57/P 6.58/P 6.59/P 6.60/P 6.61/P 6.1/Q 6.2/Q
6.3/Q 6.4/Q 6.5/Q 6.6/Q 6.7/Q 6.8/Q 6.9/Q 6.10/Q 6.11/Q 6.12/Q 6.13/Q 6.14/Q
6.15/Q 6.16/Q 6.17/Q 6.18/Q 6.19/Q 6.20/Q 6.21/Q 6.22/Q 6.23/Q 6.24/Q 6.25/Q
6.26/Q 6.27/Q 6.28/Q 6.29/Q 6.30/Q 6.31/Q 6.32/Q 6.33/Q 6.34/Q 6.35/Q 6.36/Q
6.37/Q 6.38/Q 6.39/Q 6.40/Q 6.41/Q 6.42/Q 6.43/Q 6.44/Q 6.45/Q 6.46/Q 6.47/Q
6.48/Q 6.49/Q 6.50/Q 6.51/Q 6.52/Q 6.53/Q 6.54/Q 6.55/Q 6.56/Q 6.57/Q 6.58/Q
6.59/Q 6.60/Q 6.61/Q 6.1/R 6.2/R 6.3/R 6.4/R 6.5/R 6.6/R 6.7/R 6.8/R 6.9/R
6.10/R 6.11/R 6.12/R 6.13/R 6.14/R 6.15/R 6.16/R 6.17/R 6.18/R 6.19/R 6.20/R
6.21/R 6.22/R 6.23/R 6.24/R 6.25/R 6.26/R 6.27/R 6.28/R 6.29/R 6.30/R 6.31/R
6.32/R 6.33/R 6.34/R 6.35/R 6.36/R 6.37/R 6.38/R 6.39/R 6.40/R 6.41/R 6.42/R
6.43/R 6.44/R 6.45/R 6.46/R 6.47/R 6.48/R 6.49/R 6.50/R 6.51/R 6.52/R 6.53/R
6.54/R 6.55/R 6.56/R 6.57/R 6.58/R 6.59/R 6.60/R 6.61/R 6.1/S 6.2/S 6.3/S
6.4/S 6.5/S 6.6/S 6.7/S 6.8/S 6.9/S 6.10/S 6.11/S 6.12/S 6.13/S 6.14/S 6.15/S
6.16/S 6.17/S 6.18/S 6.19/S 6.20/S 6.21/S 6.22/S 6.23/S 6.24/S 6.25/S 6.26/S
6.27/S 6.28/S 6.29/S 6.30/S 6.31/S 6.32/S 6.33/S 6.34/S 6.35/S 6.36/S 6.37/S
6.38/S 6.39/S 6.40/S 6.41/S 6.42/S 6.43/S 6.44/S 6.45/S 6.46/S 6.47/S 6.48/S
6.49/S 6.50/S 6.51/S 6.52/S 6.53/S 6.54/S 6.55/S 6.56/S 6.57/S 6.58/S 6.59/S
6.60/S 6.61/S 6.1/T 6.2/T 6.3/T 6.4/T 6.5/T 6.6/T 6.7/T 6.8/T 6.9/T 6.10/T
6.11/T 6.12/T 6.13/T 6.14/T 6.15/T 6.16/T 6.17/T 6.18/T 6.19/T 6.20/T 6.21/T
6.22/T 6.23/T 6.24/T 6.25/T 6.26/T 6.27/T 6.28/T 6.29/T 6.30/T 6.31/T 6.32/T
6.33/T 6.34/T 6.35/T 6.36/T 6.37/T 6.38/T 6.39/T 6.40/T 6.41/T 6.42/T 6.43/T
6.44/T 6.45/T 6.46/T 6.47/T 6.48/T 6.49/T 6.50/T 6.51/T 6.52/T 6.53/T 6.54/T
6.55/T 6.56/T 6.57/T 6.58/T 6.59/T 6.60/T 6.61/T 6.1/U 6.2/U 6.3/U 6.4/U 6.5/U
6.6/U 6.7/U 6.8/U 6.9/U 6.10/U 6.11/U 6.12/U 6.13/U 6.14/U 6.15/U 6.16/U
6.17/U 6.18/U 6.19/U 6.20/U 6.21/U 6.22/U 6.23/U 6.24/U 6.25/U 6.26/U 6.27/U
6.28/U 6.29/U 6.30/U 6.31/U 6.32/U 6.33/U 6.34/U 6.35/U 6.36/U 6.37/U 6.38/U
6.39/U 6.40/U 6.41/U 6.42/U 6.43/U 6.44/U 6.45/U 6.46/U 6.47/U 6.48/U 6.49/U
6.50/U 6.51/U 6.52/U 6.53/U 6.54/U 6.55/U 6.56/U 6.57/U 6.58/U 6.59/U 6.60/U
6.61/U 6.1/V 6.2/V 6.3/V 6.4/V 6.5/V 6.6/V 6.7/V 6.8/V 6.9/V 6.10/V 6.11/V
6.12/V 6.13/V 6.14/V 6.15/V 6.16/V 6.17/V 6.18/V 6.19/V 6.20/V 6.21/V 6.22/V
6.23/V 6.24/V 6.25/V 6.26/V 6.27/V 6.28/V 6.29/V 6.30/V 6.31/V 6.32/V 6.33/V
6.34/V 6.35/V 6.36/V 6.37/V 6.38/V 6.39/V 6.40/V 6.41/V 6.42/V 6.43/V 6.44/V
6.45/V 6.46/V 6.47/V 6.48/V 6.49/V 6.50/V 6.51/V 6.52/V 6.53/V 6.54/V 6.55/V
6.56/V 6.57/V 6.58/V 6.59/V 6.60/V 6.61/V 6.1/W 6.2/W 6.3/W 6.4/W 6.5/W 6.6/W
6.7/W 6.8/W 6.9/W 6.10/W 6.11/W 6.12/W 6.13/W 6.14/W 6.15/W 6.16/W 6.17/W
6.18/W 6.19/W 6.20/W 6.21/W 6.22/W 6.23/W 6.24/W 6.25/W 6.26/W 6.27/W 6.28/W
6.29/W 6.30/W 6.31/W 6.32/W 6.33/W 6.34/W 6.35/W 6.36/W 6.37/W 6.38/W 6.39/W
6.40/W 6.41/W 6.42/W 6.43/W 6.44/W 6.45/W 6.46/W 6.47/W 6.48/W 6.49/W 6.50/W
6.51/W 6.52/W 6.53/W 6.54/W 6.55/W 6.56/W 6.57/W 6.58/W 6.59/W 6.60/W 6.61/W
6.1/X 6.2/X 6.3/X 6.4/X 6.5/X 6.6/X 6.7/X 6.8/X 6.9/X 6.10/X 6.11/X 6.12/X
6.13/X 6.14/X 6.15/X 6.16/X 6.17/X 6.18/X 6.19/X 6.20/X 6.21/X 6.22/X 6.23/X
6.24/X 6.25/X 6.26/X 6.27/X 6.28/X 6.29/X 6.30/X 6.31/X 6.32/X 6.33/X 6.34/X
6.35/X 6.36/X 6.37/X 6.38/X 6.39/X 6.40/X 6.41/X 6.42/X 6.43/X 6.44/X 6.45/X
6.46/X 6.47/X 6.48/X 6.49/X 6.50/X 6.51/X 6.52/X 6.53/X 6.54/X 6.55/X 6.56/X
6.57/X 6.58/X 6.59/X 6.60/X 6.61/X | No description available
> select #6
1997994 atoms, 2030202 bonds, 248819 residues, 62 models selected
> ui tool show Matchmaker
> matchmaker #6.1-61 to #4/A pairing bs
Parameters
---
Chain pairing | bs
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain D (#6.1),
sequence alignment score = 867.9
RMSD between 168 pruned atom pairs is 0.712 angstroms; (across all 170 pairs:
0.765)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain D (#6.2),
sequence alignment score = 867.9
RMSD between 168 pruned atom pairs is 0.712 angstroms; (across all 170 pairs:
0.765)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain V (#6.3),
sequence alignment score = 871.5
RMSD between 169 pruned atom pairs is 0.626 angstroms; (across all 170 pairs:
0.654)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain A (#6.4),
sequence alignment score = 868.1
RMSD between 163 pruned atom pairs is 1.018 angstroms; (across all 169 pairs:
1.101)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain D (#6.5),
sequence alignment score = 867.9
RMSD between 167 pruned atom pairs is 0.799 angstroms; (across all 170 pairs:
0.862)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L (#6.6),
sequence alignment score = 864.9
RMSD between 166 pruned atom pairs is 0.877 angstroms; (across all 170 pairs:
0.940)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L (#6.7),
sequence alignment score = 871.5
RMSD between 165 pruned atom pairs is 0.841 angstroms; (across all 170 pairs:
0.927)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain D (#6.8),
sequence alignment score = 868.5
RMSD between 167 pruned atom pairs is 0.776 angstroms; (across all 170 pairs:
0.822)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain C (#6.9),
sequence alignment score = 868.5
RMSD between 162 pruned atom pairs is 0.721 angstroms; (across all 170 pairs:
0.980)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain D
(#6.10), sequence alignment score = 867.9
RMSD between 166 pruned atom pairs is 0.810 angstroms; (across all 170 pairs:
0.869)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.11), sequence alignment score = 875.1
RMSD between 170 pruned atom pairs is 0.655 angstroms; (across all 170 pairs:
0.655)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.12), sequence alignment score = 872.1
RMSD between 165 pruned atom pairs is 0.755 angstroms; (across all 170 pairs:
0.903)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.13), sequence alignment score = 868.5
RMSD between 168 pruned atom pairs is 0.825 angstroms; (across all 170 pairs:
0.882)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.14), sequence alignment score = 869.1
RMSD between 167 pruned atom pairs is 0.692 angstroms; (across all 170 pairs:
0.829)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain O
(#6.15), sequence alignment score = 875.1
RMSD between 162 pruned atom pairs is 0.680 angstroms; (across all 170 pairs:
0.962)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.16), sequence alignment score = 864.9
RMSD between 165 pruned atom pairs is 0.769 angstroms; (across all 170 pairs:
0.913)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.17), sequence alignment score = 869.1
RMSD between 164 pruned atom pairs is 0.770 angstroms; (across all 170 pairs:
0.941)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain J
(#6.18), sequence alignment score = 867.9
RMSD between 169 pruned atom pairs is 0.678 angstroms; (across all 170 pairs:
0.730)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain Q
(#6.19), sequence alignment score = 869.1
RMSD between 163 pruned atom pairs is 0.805 angstroms; (across all 170 pairs:
0.979)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.20), sequence alignment score = 872.1
RMSD between 164 pruned atom pairs is 0.868 angstroms; (across all 170 pairs:
1.059)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain W
(#6.21), sequence alignment score = 867.9
RMSD between 168 pruned atom pairs is 0.788 angstroms; (across all 170 pairs:
0.852)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.22), sequence alignment score = 871.5
RMSD between 163 pruned atom pairs is 0.647 angstroms; (across all 170 pairs:
0.894)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.23), sequence alignment score = 875.1
RMSD between 167 pruned atom pairs is 0.591 angstroms; (across all 170 pairs:
0.724)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain E
(#6.24), sequence alignment score = 872.1
RMSD between 166 pruned atom pairs is 0.751 angstroms; (across all 170 pairs:
0.869)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.25), sequence alignment score = 871.5
RMSD between 167 pruned atom pairs is 0.813 angstroms; (across all 170 pairs:
0.928)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain G
(#6.26), sequence alignment score = 871.5
RMSD between 166 pruned atom pairs is 0.684 angstroms; (across all 170 pairs:
0.812)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.27), sequence alignment score = 871.5
RMSD between 168 pruned atom pairs is 0.726 angstroms; (across all 170 pairs:
0.798)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.28), sequence alignment score = 868.5
RMSD between 166 pruned atom pairs is 0.649 angstroms; (across all 170 pairs:
0.783)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain F
(#6.29), sequence alignment score = 868.5
RMSD between 164 pruned atom pairs is 0.654 angstroms; (across all 170 pairs:
0.980)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.30), sequence alignment score = 868.5
RMSD between 165 pruned atom pairs is 0.782 angstroms; (across all 170 pairs:
0.925)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.31), sequence alignment score = 875.1
RMSD between 147 pruned atom pairs is 0.952 angstroms; (across all 170 pairs:
1.373)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.32), sequence alignment score = 868.5
RMSD between 164 pruned atom pairs is 0.912 angstroms; (across all 170 pairs:
1.084)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.33), sequence alignment score = 869.1
RMSD between 166 pruned atom pairs is 0.678 angstroms; (across all 170 pairs:
0.839)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain P
(#6.34), sequence alignment score = 869.1
RMSD between 163 pruned atom pairs is 0.857 angstroms; (across all 170 pairs:
1.050)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.35), sequence alignment score = 871.5
RMSD between 165 pruned atom pairs is 0.702 angstroms; (across all 170 pairs:
0.889)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.36), sequence alignment score = 871.5
RMSD between 168 pruned atom pairs is 0.729 angstroms; (across all 170 pairs:
0.815)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain V
(#6.37), sequence alignment score = 871.5
RMSD between 167 pruned atom pairs is 0.671 angstroms; (across all 170 pairs:
0.797)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain B
(#6.38), sequence alignment score = 868.5
RMSD between 167 pruned atom pairs is 0.632 angstroms; (across all 170 pairs:
0.744)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain O
(#6.39), sequence alignment score = 871.5
RMSD between 169 pruned atom pairs is 0.664 angstroms; (across all 170 pairs:
0.719)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.40), sequence alignment score = 868.5
RMSD between 168 pruned atom pairs is 0.654 angstroms; (across all 170 pairs:
0.767)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain B
(#6.41), sequence alignment score = 868.5
RMSD between 166 pruned atom pairs is 0.634 angstroms; (across all 170 pairs:
0.795)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.42), sequence alignment score = 869.1
RMSD between 164 pruned atom pairs is 0.613 angstroms; (across all 170 pairs:
0.830)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain D
(#6.43), sequence alignment score = 865.5
RMSD between 149 pruned atom pairs is 0.915 angstroms; (across all 170 pairs:
1.477)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.44), sequence alignment score = 872.1
RMSD between 163 pruned atom pairs is 0.652 angstroms; (across all 170 pairs:
0.901)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.45), sequence alignment score = 867.9
RMSD between 166 pruned atom pairs is 0.657 angstroms; (across all 170 pairs:
0.807)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.46), sequence alignment score = 872.1
RMSD between 168 pruned atom pairs is 0.676 angstroms; (across all 170 pairs:
0.739)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.47), sequence alignment score = 865.5
RMSD between 168 pruned atom pairs is 0.675 angstroms; (across all 170 pairs:
0.751)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain I
(#6.48), sequence alignment score = 871.5
RMSD between 168 pruned atom pairs is 0.624 angstroms; (across all 170 pairs:
0.711)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.49), sequence alignment score = 869.1
RMSD between 155 pruned atom pairs is 0.868 angstroms; (across all 170 pairs:
1.227)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.50), sequence alignment score = 872.1
RMSD between 160 pruned atom pairs is 0.892 angstroms; (across all 170 pairs:
1.133)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.51), sequence alignment score = 872.1
RMSD between 163 pruned atom pairs is 0.903 angstroms; (across all 170 pairs:
1.101)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain B
(#6.52), sequence alignment score = 867.9
RMSD between 165 pruned atom pairs is 0.647 angstroms; (across all 170 pairs:
0.852)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain L
(#6.53), sequence alignment score = 872.1
RMSD between 165 pruned atom pairs is 0.655 angstroms; (across all 170 pairs:
0.844)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain B
(#6.54), sequence alignment score = 875.1
RMSD between 165 pruned atom pairs is 0.583 angstroms; (across all 170 pairs:
0.783)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.55), sequence alignment score = 872.1
RMSD between 163 pruned atom pairs is 0.914 angstroms; (across all 170 pairs:
1.160)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.56), sequence alignment score = 869.1
RMSD between 163 pruned atom pairs is 0.841 angstroms; (across all 170 pairs:
1.000)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain F
(#6.57), sequence alignment score = 875.1
RMSD between 164 pruned atom pairs is 0.729 angstroms; (across all 170 pairs:
0.937)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain P
(#6.58), sequence alignment score = 869.1
RMSD between 166 pruned atom pairs is 0.714 angstroms; (across all 170 pairs:
0.873)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain M
(#6.59), sequence alignment score = 872.1
RMSD between 163 pruned atom pairs is 0.896 angstroms; (across all 170 pairs:
1.122)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain F
(#6.60), sequence alignment score = 871.5
RMSD between 164 pruned atom pairs is 0.759 angstroms; (across all 170 pairs:
0.990)
Matchmaker ferritin.pdb, chain A (#4) with md-60snapshots.pdb, chain G
(#6.61), sequence alignment score = 868.5
RMSD between 163 pruned atom pairs is 0.682 angstroms; (across all 170 pairs:
0.889)
> hide sel atoms
> show sel cartoons
> hide sel cartoons
> select coil
515512 atoms, 515133 bonds, 23 pseudobonds, 64312 residues, 63 models selected
> show sel cartoons
> color (#6.1-61#!4 & sel) gray
> select clear
> save /Users/sacosta/Desktop/image111.png supersample 3
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/sacosta/Desktop/movie8.mp4
Movie saved to /Users/sacosta/Desktop/movie8.mp4
> view orient
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/sacosta/Desktop/movie8.mp4
Movie saved to /Users/sacosta/Desktop/movie8.mp4
> save /Users/sacosta/Desktop/image112.png supersample 3
> save /Users/sacosta/MICROSCOPY/FERRITIN/NEW-RECONSTRUCTIONS/RELION/relion-
> bpa.cxs
> close #1
> close #2
> close #3
> open /Users/sacosta/MICROSCOPY/FERRITIN/NEW-
> RECONSTRUCTIONS/Particle_4/MD_oct_Particle_4.mrc
Opened MD_oct_Particle_4.mrc as #1, grid size 250,250,250, pixel 1.17, shown
at level 0.0436, step 1, values float32
> ui tool show "Map Coordinates"
> open /Users/sacosta/MICROSCOPY/FERRITIN/NEW-
> RECONSTRUCTIONS/RELION/BT_P4/relion_locres_filtered.mrc
Opened relion_locres_filtered.mrc as #2, grid size 250,250,250, pixel 1, shown
at level 0.0892, step 1, values float32
> select #1
2 models selected
> select #2
2 models selected
> ~select #2
Nothing selected
> select #6
1997994 atoms, 2030202 bonds, 248819 residues, 62 models selected
> ui mousemode right "rotate selected models"
> ui mousemode right "translate selected models"
> view matrix models #6,1,0,0,2.0322,0,1,0,2.5047,0,0,1,-0.13049
> view matrix models #6,1,0,0,0.75417,0,1,0,1.2803,0,0,1,-0.074535
> view matrix models #6,1,0,0,0.64123,0,1,0,-0.52001,0,0,1,0.056344
> view matrix models #6,1,0,0,2.0642,0,1,0,0.60256,0,0,1,0.29624
> hide #!6 models
> volume #1 level 0.03935
> ui tool show "Surface Color"
> color sample #1.1 map #2 palette
> #ff0000:#ffffff:#0000ff:#808080:#808080:#808080
Map values for surface "surface": minimum 0.06623, mean 0.08037, maximum
0.08967
> color sample #1.1 map #2 palette
> #ff0000:#ff6666:#ffcccc:#cbcbff:#6565ff:#0000ff
Map values for surface "surface": minimum 0.06623, mean 0.08037, maximum
0.08967
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/sacosta/Desktop/movie9.mp4
Movie saved to /Users/sacosta/Desktop/movie9.mp4
> key red:0.066 #ff6666:0.071 #ffcccc:0.076 #cbcbff:0.080 #6565ff:0.085
> blue:0.090 showTool true
> ui mousemode right "color key"
> ui mousemode right "translate selected models"
> movie record
> turn y 2 180
> wait 180
> movie encode /Users/sacosta/Desktop/movie10.mp4
Movie saved to /Users/sacosta/Desktop/movie10.mp4
> save /Users/sacosta/Desktop/image113.png supersample 3
> volume #1 level 0.03982
> ui mousemode right "clip rotate"
> color sample #1.1 map #2 palette
> 0.06623,#ff0000:0.07092,#ff6666:0.07561,#ffcccc:0.08029,#cbcbff:0.08498,#6565ff:0.08967,#0000ff
Map values for surface "surface": minimum 0.06665, mean 0.08137, maximum
0.0905
Map values for surface "cap front": minimum 0.06669, mean 0.08544, maximum
0.09496
> volume #1 level 0.03274
> ui mousemode right "clip rotate"
> save /Users/sacosta/Desktop/image114.png supersample 3
> save /Users/sacosta/MICROSCOPY/FERRITIN/NEW-RECONSTRUCTIONS/RELION/relion-
> bt_p4.cxs
> open /Users/sacosta/MICROSCOPY/FERRITIN/NEW-RECONSTRUCTIONS/RELION/relion-
> bpa.cxs
Opened MD_Oct_BPA_9Aresolution.mrc as #1, grid size 250,250,250, pixel 0.832,
shown at level 0.0287, step 1, values float32
Opened relion_locres.mrc as #2, grid size 250,250,250, pixel 0.832, shown at
level 14.3, step 1, values float32
Opened relion_locres_filtered.mrc as #3, grid size 250,250,250, pixel 0.832,
shown at level 0.0559, step 1, values float32
opened ChimeraX session
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.3rc202111250017 (2021-11-25)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 ATI-4.7.101
OpenGL renderer: AMD Radeon Pro 5500M OpenGL Engine
OpenGL vendor: ATI Technologies Inc.Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro16,1
Processor Name: 8-Core Intel Core i9
Processor Speed: 2.3 GHz
Number of Processors: 1
Total Number of Cores: 8
L2 Cache (per Core): 256 KB
L3 Cache: 16 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 1715.60.5.0.0 (iBridge: 19.16.10647.0.0,0)
OS Loader Version: 540.60.2~89
Software:
System Software Overview:
System Version: macOS 12.1 (21C52)
Kernel Version: Darwin 21.2.0
Time since boot: 29 days 3:45
Graphics/Displays:
Intel UHD Graphics 630:
Chipset Model: Intel UHD Graphics 630
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x3e9b
Revision ID: 0x0002
Automatic Graphics Switching: Supported
gMux Version: 5.0.0
Metal Family: Supported, Metal GPUFamily macOS 2
AMD Radeon Pro 5500M:
Chipset Model: AMD Radeon Pro 5500M
Type: GPU
Bus: PCIe
PCIe Lane Width: x16
VRAM (Total): 4 GB
Vendor: AMD (0x1002)
Device ID: 0x7340
Revision ID: 0x0040
ROM Revision: 113-D3220E-190
VBIOS Version: 113-D32206U1-019
Option ROM Version: 113-D32206U1-019
EFI Driver Version: 01.A1.190
Automatic Graphics Switching: Supported
gMux Version: 5.0.0
Metal Family: Supported, Metal GPUFamily macOS 2
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 3072 x 1920 Retina
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
HP 24w:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: CNC9050NCZ
Mirror: Off
Online: Yes
Rotation: Supported
Adapter Type: Apple USB-C Digital AV Adapter
Automatically Adjust Brightness: Yes
Adapter Firmware Version: 2.35
Locale: (None, 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.2
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.5.30
cftime: 1.5.1.1
charset-normalizer: 2.0.8
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3rc202111250017
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
MolecularDynamicsViewer: 1.2
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.7.3
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.0
ParmEd: 3.2.0
parso: 0.8.2
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.2
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
We've seen this beauty a week ago
but it looks like just a Python call going to C and crashing with a seg fault
{"imageOffset":15917,"symbol":"_sigtramp","symbolLocation":29,"imageIndex":3}, {"imageOffset":0,"imageIndex":4}, {"imageOffset":503917,"symbol":"cfunction_call","symbolLocation":125,"imageIndex":5}, {"imageOffset":247500,"symbol":"_PyObject_Call","symbolLocation":140,"imageIndex":5},