id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18455 Crash on Mac waking from sleep chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.5-arm64-arm-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Segmentation fault Current thread 0x00000001f4165f00 (most recent call first): File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 315 in event_loop File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1003 in init File ""/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1166 in File """", line 88 in _run_code File """", line 198 in _run_module_as_main Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, 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[ ] } } ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0332106_cds_0049__caprel_model.cif Chain information for mgv-genome-0332106_cds_0049__caprel_model.cif #1 --- Chain | Description A | . B | . Color mgv-genome-0332106_cds_0049__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_302458_cds_0055__caprel_model.cif Chain information for uvig_302458_cds_0055__caprel_model.cif #2 --- Chain | Description A | . B | . Color uvig_302458_cds_0055__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif Chain information for imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif #3 --- Chain | Description A | . B | . Color imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif by residue attribute pLDDT_score > hide #2 models > hide #1 models > show #2 models > show #1 models > color bychain > hide #2 models > hide #1 models > close #3 > show #1 models > show #2 models > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/nc_055919.1_cds_0033__caprel_model.cif Chain information for nc_055919.1_cds_0033__caprel_model.cif #3 --- Chain | Description A | . B | . Color nc_055919.1_cds_0033__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_316842_cds_0025__caprel_model.cif Chain information for uvig_316842_cds_0025__caprel_model.cif #4 --- Chain | Description A | . B | . Color uvig_316842_cds_0025__caprel_model.cif by residue attribute pLDDT_score > ui tool show Matchmaker > matchmaker #2-4 to #1/B 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 mgv-genome-0332106_cds_0049__caprel_model.cif, chain B (#1) with uvig_302458_cds_0055__caprel_model.cif, chain B (#2), sequence alignment score = 1928.7 RMSD between 266 pruned atom pairs is 0.646 angstroms; (across all 376 pairs: 7.960) Matchmaker mgv-genome-0332106_cds_0049__caprel_model.cif, chain B (#1) with nc_055919.1_cds_0033__caprel_model.cif, chain B (#3), sequence alignment score = 1938.9 RMSD between 335 pruned atom pairs is 0.637 angstroms; (across all 376 pairs: 1.279) Matchmaker mgv-genome-0332106_cds_0049__caprel_model.cif, chain B (#1) with uvig_316842_cds_0025__caprel_model.cif, chain B (#4), sequence alignment score = 1932.3 RMSD between 348 pruned atom pairs is 0.600 angstroms; (across all 376 pairs: 1.237) > set bgColor white > lighting flat > graphics silhouettes false > graphics silhouettes true > lighting shadows true intensity 0.5 > lighting flat > lighting full > lighting soft > lighting simple > lighting flat > view > select :.A Expected an objects specifier or a keyword > select :.A Expected an objects specifier or a keyword > select :.A Expected an objects specifier or a keyword > select :.A Expected an objects specifier or a keyword > hide #1 models > show #1 models > select clear > select :.A Expected an objects specifier or a keyword > select A Expected an objects specifier or a keyword > select :a Nothing selected > select :A Nothing selected > select :B Nothing selected > color bfactor 14577 atoms, 1818 residues, atom bfactor range 19.5 to 98.7 > color bychain > coulombic Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for mgv-genome-0332106_cds_0049__caprel_model.cif_A SES surface #1.1: minimum, -12.76, mean -2.72, maximum 8.31 Coulombic values for mgv-genome-0332106_cds_0049__caprel_model.cif_B SES surface #1.2: minimum, -13.27, mean 2.66, maximum 19.92 Coulombic values for uvig_302458_cds_0055__caprel_model.cif_A SES surface #2.1: minimum, -19.21, mean -0.24, maximum 12.50 Coulombic values for uvig_302458_cds_0055__caprel_model.cif_B SES surface #2.2: minimum, -13.42, mean 2.55, maximum 17.78 Coulombic values for nc_055919.1_cds_0033__caprel_model.cif_A SES surface #3.1: minimum, -12.67, mean -3.63, maximum 5.09 Coulombic values for nc_055919.1_cds_0033__caprel_model.cif_B SES surface #3.2: minimum, -13.19, mean 2.73, maximum 18.71 Coulombic values for uvig_316842_cds_0025__caprel_model.cif_A SES surface #4.1: minimum, -12.58, mean -2.84, maximum 7.14 Coulombic values for uvig_316842_cds_0025__caprel_model.cif_B SES surface #4.2: minimum, -13.20, mean 2.71, maximum 19.93 To also show corresponding color key, enter the above coulombic command and add key true > transparency 80 > select clear > ui tool show ""Show Sequence Viewer"" > sequence chain #1/B #2/B #3/B #4/B Alignment identifier is 1 > select #1/B:1 #2/B:1 #3/B:1 #4/B:1 32 atoms, 28 bonds, 4 residues, 4 models selected > select #1/B:1-234 #2/B:1-234 #3/B:1-234 #4/B:1-234 7596 atoms, 7720 bonds, 936 residues, 4 models selected . [ID: 1] region 4 chains [1-234] RMSD: 1.511 > color (#!1-4 & sel) purple > select #1/B:333-376 #2/B:333-376 #3/B:333-376 #4/B:333-376 1396 atoms, 1424 bonds, 176 residues, 4 models selected > select #1/B:234-376 #2/B:234-376 #3/B:234-376 #4/B:234-376 4556 atoms, 4624 bonds, 572 residues, 4 models selected . [ID: 1] region 4 chains [234-376] RMSD: 9.397 > color (#!1-4 & sel) dark gray > select clear > select #1/B:284-376 #2/B:284-376 #3/B:284-376 #4/B:284-376 2992 atoms, 3048 bonds, 372 residues, 4 models selected > select #1/B #2/B #3/B #4/B 12116 atoms, 12312 bonds, 1504 residues, 4 models selected . [ID: 1] region 4 chains [1-376] RMSD: 5.917 > select ~sel 2461 atoms, 2494 bonds, 314 residues, 4 models selected > color (#!1-4 & sel) orange > transparency (#!1-4 & sel) 90 > select clear > ui tool show Contacts > contacts ignoreHiddenModels true color #ff1c00 195530 contacts > undo > redo > undo > redo > transparency 90 > select clear > ui tool show Contacts > contacts interModel false intraMol false ignoreHiddenModels true color > #ff1c00 431 contacts > contacts interModel false intraMol false ignoreHiddenModels true color > #ff1c00 431 contacts > select #1/B 3029 atoms, 3078 bonds, 376 residues, 1 model selected > select #1/A 734 atoms, 743 bonds, 96 residues, 1 model selected > color (#!1 & sel) orange > color (#!1 & sel) yellow > select #2/A 485 atoms, 492 bonds, 58 residues, 1 model selected > select #3/A 713 atoms, 725 bonds, 92 residues, 1 model selected > color (#!3 & sel) #ffb53cff > color (#!3 & sel) #ffb43dff > color (#!3 & sel) #ffb33eff > color (#!3 & sel) #ffb648ff > color (#!3 & sel) #ffb955ff > color (#!3 & sel) #ffba5bff > color (#!3 & sel) #ffbb5fff > color (#!3 & sel) #ffbb60ff > color (#!3 & sel) #ffbb5fff > color (#!3 & sel) #ffbe60ff > color (#!3 & sel) #ffc461ff > color (#!3 & sel) #ffcc62ff > color (#!3 & sel) #ffd363ff > color (#!3 & sel) #ffd863ff > color (#!3 & sel) #ffdd64ff > color (#!3 & sel) #ffe464ff > color (#!3 & sel) #ffe664ff > color (#!3 & sel) #ffe965ff > color (#!3 & sel) #ffeb65ff > color (#!3 & sel) #ffed65ff > color (#!3 & sel) #ffee65ff > color (#!3 & sel) #ffef65ff > color (#!3 & sel) #ffee65ff > color (#!3 & sel) #ffed63ff > color (#!3 & sel) #ffe962ff > color (#!3 & sel) #ffe661ff > color (#!3 & sel) #ffe460ff > color (#!3 & sel) #ffe260ff > color (#!3 & sel) #ffe160ff > color (#!3 & sel) #ffe060ff > color (#!3 & sel) #ffdc61ff > color (#!3 & sel) #ffd862ff > color (#!3 & sel) #ffd462ff > color (#!3 & sel) #ffcc62ff > color (#!3 & sel) #ffcb63ff > color (#!3 & sel) #ffc963ff > color (#!3 & sel) #ffc863ff > color (#!3 & sel) #ffc763ff > color (#!3 & sel) #ffc663ff > color (#!3 & sel) #ffc664ff > color (#!3 & sel) #ffc565ff > color (#!3 & sel) #ffc266ff > color (#!3 & sel) #ffbf67ff > color (#!3 & sel) #ffbf68ff > color (#!3 & sel) #ffbd68ff > color (#!3 & sel) #ffbc69ff > color (#!3 & sel) #ffbb6aff > color (#!3 & sel) #ffbb6bff > color (#!3 & sel) #ffba6cff > color (#!3 & sel) #ffba6dff > color (#!3 & sel) #ffbb6dff > select clear > transparency 80 > undo > select #1/B:332-376 #2/B:332-376 #3/B:332-376 #4/B:332-376 1428 atoms, 1456 bonds, 180 residues, 4 models selected > select #1/B #2/B #3/B #4/B 12116 atoms, 12312 bonds, 1504 residues, 4 models selected . [ID: 1] region 4 chains [1-376] RMSD: 5.917 > select ~sel 2461 atoms, 2494 bonds, 314 residues, 4 models selected > color (#!1-4 & sel) orange > select clear > transparency 90 > cartoon style xsection rectangle modeHelix default > undo > hide #!2 models > hide #!3 models > hide #!4 models > hide #5 models > show #5 models > hide #5 models > open > /Users/aegorov/Downloads/fold_funrel_check_x10/fold_funrel_check_x10_model_0.cif Chain information for fold_funrel_check_x10_model_0.cif #6 --- Chain | Description A B C D E F G H I J | . > hide #!1 models > hide #6 surfaces > select add #6 34760 atoms, 35330 bonds, 4240 residues, 1 model selected > hide sel surfaces > show sel cartoons > hide sel atoms > select clear > color #6 #587f9cff > ui tool show ""Show Sequence Viewer"" > sequence chain #6/A #6/B #6/C #6/D #6/E #6/F #6/G #6/H #6/I #6/J Alignment identifier is 2 > color #6 #879eaaff > select #6/A-J:3-7 430 atoms, 430 bonds, 50 residues, 1 model selected > select #6/A-J:3-126 10380 atoms, 10580 bonds, 1240 residues, 1 model selected > select #6/A-J:45-46 160 atoms, 150 bonds, 20 residues, 1 model selected > select #6/A-J:45-215 14080 atoms, 14340 bonds, 1710 residues, 1 model selected > color sel purple > select #6/A-J:302-308 600 atoms, 610 bonds, 70 residues, 1 model selected > select #6/A-J:216-308 7500 atoms, 7590 bonds, 930 residues, 1 model selected > color sel #aa3172ff > color sel #aa3374ff > color sel #aa3474ff > color sel #aa3473ff > color sel #aa3572ff > color sel #aa3472ff > color sel #aa3271ff > color sel #aa3170ff > color sel #aa2e6cff > color sel #aa2c66ff > color sel #aa2c64ff > color sel #aa2b64ff > color sel #aa2b65ff > color sel #aa2a66ff > color sel #aa2a67ff > color sel #aa2a68ff > color sel #aa2a69ff > color sel #aa2b68ff > color sel #aa2c67ff > color sel #aa2d67ff > color sel #aa2e67ff > color sel #aa3069ff > color sel #aa3169ff > color sel #aa316aff > color sel #aa306bff > color sel #aa2e6eff > color sel #aa2c70ff > color sel #aa2874ff > color sel #aa2775ff > color sel #aa2676ff > color sel #aa2577ff > color sel #aa2677ff > color sel #aa2775ff > color sel #aa2774ff > color sel #aa2873ff > color sel #aa2870ff > color sel #aa286fff > color sel #aa296fff > color sel #aa2c72ff > color sel #aa2e76ff > color sel #aa2f7bff > color sel #aa2e80ff > color sel #aa2d85ff > color sel #aa2c8aff > color sel #aa2b8dff > color sel #aa2b8fff > color sel #aa2a91ff > color sel #aa2992ff > color sel #aa2993ff > color sel #aa2893ff > color sel #aa2891ff > color sel #aa298bff > color sel #aa2a80ff > color sel #aa2a7cff > color sel #aa2a76ff > color sel #aa2a75ff > color sel #aa2973ff > color sel #aa2972ff > color sel #aa2971ff > color sel #aa2870ff > color sel #aa276fff > color sel #aa276eff > color sel #aa266eff > color sel #aa266cff > color sel #aa276bff > color sel #aa2b67ff > color sel #aa2c65ff > color sel #aa2f63ff > color sel #aa3064ff > color sel #aa3265ff > color sel #aa3365ff > color sel #aa3466ff > color sel #aa3566ff > color sel #aa3565ff > color sel #aa3461ff > color sel #aa2f59ff > color sel #aa2b53ff > color sel #aa264aff > color sel #aa2549ff > color sel #aa2446ff > color sel #aa213fff > color sel #aa213bff > color sel #aa2031ff > color sel #aa4d22ff > color sel #aa4926ff > color sel #aa4627ff > color sel #aa432aff > color sel #aa412bff > color sel #aa3b2fff > color sel #aa313aff > color sel #aa3143ff > color sel #aa304fff > color sel #aa3051ff > color sel #aa3054ff > color sel #aa3055ff > color sel #aa3159ff > color sel #aa3059ff > color sel #aa305aff > color sel #aa2f5aff > color sel #aa2f59ff > color sel #aa2e59ff > color sel #aa2d59ff > color sel #aa2c59ff > color sel #aa2b5aff > color sel #aa2a5bff > color sel #aa295bff > color sel #aa285bff > color sel #aa275aff > color sel #aa2759ff > color sel #aa2659ff > color sel #aa2759ff > color sel #aa275aff > color sel #aa285cff > color sel #aa295fff > color sel #aa2a60ff > color sel #aa2b63ff > color sel #aa2b64ff > color sel #aa2c65ff > color sel #aa2c67ff > color sel #aa2c68ff > color sel #aa2c69ff > color sel #aa2c6aff > color sel #aa2d6bff > color sel #aa2d6dff > color sel #aa2e6eff > color sel #aa2e6fff > color sel #aa2f70ff > color sel #aa2f71ff > color sel #aa2f72ff > color sel #aa2f73ff > color sel #aa3074ff > color sel #aa3075ff > color sel #aa3176ff > color sel #aa3276ff > color sel #aa3277ff > color sel #aa2e70ff > color sel #aa2d6eff > select clear > select #6/A-J:39-40 140 atoms, 130 bonds, 20 residues, 1 model selected > select #6/A-J:39-208 13920 atoms, 14190 bonds, 1700 residues, 1 model selected > color sel #aa2b35ff > color sel #aa2c35ff > color sel #aa3c45ff > color sel #aa464fff > color sel #aa5861ff > color sel #aa646eff > color sel #aa646fff > color sel #aa6372ff > color sel #aa6275ff > color sel #aa5f7aff > color sel #aa5f7bff > color sel #aa5a82ff > color sel #aa5892ff > color sel #aa5799ff > color sel #aa56a0ff > color sel #aa59a4ff > color sel #aa5ba6ff > color sel #aa5da8ff > color sel #a361aaff > color sel #9e60aaff > color sel #9c5faaff > color sel #925baaff > color sel #915aaaff > color sel #8d57aaff > color sel #8b55aaff > color sel #8a54aaff > color sel #8852aaff > color sel #8853aaff > color sel #8956aaff > color sel #8a57aaff > color sel #8a58aaff > color sel #8b58aaff > color sel #8c59aaff > color sel #8e5aaaff > color sel #945faaff > color sel #9660aaff > color sel #9661aaff > color sel #9861aaff > color sel #9761aaff > color sel #9460aaff > color sel #935faaff > color sel #925faaff > color sel #915eaaff > color sel #905eaaff > color sel #905daaff > color sel #905caaff > color sel #8f5caaff > color sel #8f5baaff > color sel #8f5aaaff > color sel #8e5aaaff > color sel #8e59aaff > color sel #8c57aaff > color sel #8b57aaff > color sel #8b56aaff > select clear > lighting flat > graphics silhouettes false > graphics silhouettes true > lighting shadows true intensity 0.5 > lighting flat > hide #6 models > show #!1 models > hide #!1 models > show #!2 models > show #!1 models > show #!3 models > show #!4 models > hide #!4 models > hide #!3 models > hide #!2 models > hide #!1 models > show #!2 models > hide #!2 models > show #!3 models > hide #!3 models > show #!4 models > hide #!4 models > show #!1 models > show #!2 models > hide #!1 models > hide #!2 models > show #!3 models > hide #!3 models > show #!4 models > open /Users/aegorov/Downloads/Unknown-12.pdb Unknown-12.pdb title: job_A-AF-Q3EBB9-F1-model_v4 [more info...] Chain information for Unknown-12.pdb --- Chain | Description 7.1/A | No description available 7.2/A | No description available > hide #7.1 models > show #7.1 models > hide #7.1 models > hide #!7 models > hide #!4 models > show #7.1 models > color #7.2 #eddb00ff > movie record > turn y 2 180 > wait 180 > movie encode /Users/aegorov/Desktop/movie1.mp4 Movie saved to /Users/aegorov/Desktop/movie1.mp4 > hide #!7 models > hide #7.2 models > hide #7.1 models > show #!1 models > show #5 models > select #1/B:193 #2/B:193 #3/B:193 #4/B:193 20 atoms, 16 bonds, 4 residues, 4 models selected > select #1/B:193-242 #2/B:193-242 #3/B:193-242 #4/B:193-242 1604 atoms, 1640 bonds, 200 residues, 4 models selected . [ID: 1] region 4 chains [193-242] RMSD: 0.804 > select #1/B:158 #2/B:158 #3/B:158 #4/B:158 48 atoms, 48 bonds, 4 residues, 4 models selected > select #1/B:158 #2/B:158 #3/B:158 #4/B:158 48 atoms, 48 bonds, 4 residues, 4 models selected . [ID: 1] region 4 chains [158] RMSD: 0.240 > select #1/B:119 #2/B:119 #3/B:119 #4/B:119 44 atoms, 40 bonds, 4 residues, 4 models selected > select #1/B:119 #2/B:119 #3/B:119 #4/B:119 44 atoms, 40 bonds, 4 residues, 4 models selected . [ID: 1] region 4 chains [119] RMSD: 0.315 > hide #5 models > show #!2 models > hide #!1 models > hide #!2 models > show #!1 models > select #1/B:116-117 #2/B:116-117 #3/B:116-117 #4/B:116-117 32 atoms, 28 bonds, 8 residues, 4 models selected > select #1/B:116-120 #2/B:116-120 #3/B:116-120 #4/B:116-120 120 atoms, 116 bonds, 20 residues, 4 models selected . [ID: 1] region 4 chains [116-120] RMSD: 0.320 > hide sel & #!1 surfaces > undo > select clear > hide #!1 surfaces > select #1/B:122-123 #2/B:122-123 #3/B:122-123 #4/B:122-123 72 atoms, 68 bonds, 8 residues, 4 models selected > select #1/B:118-123 #2/B:118-123 #3/B:118-123 #4/B:118-123 192 atoms, 188 bonds, 24 residues, 4 models selected . [ID: 1] region 4 chains [118-123] RMSD: 0.353 > select #1/B:151 #2/B:151 #3/B:151 #4/B:151 32 atoms, 28 bonds, 4 residues, 4 models selected > select #1/B:144-151 #2/B:144-151 #3/B:144-151 #4/B:144-151 296 atoms, 300 bonds, 32 residues, 4 models selected . [ID: 1] region 4 chains [144-151] RMSD: 0.297 > select #1/B:298 #2/B:298 #3/B:298 #4/B:298 20 atoms, 16 bonds, 4 residues, 4 models selected > select #1/B:289-298 #2/B:289-298 #3/B:289-298 #4/B:289-298 336 atoms, 340 bonds, 40 residues, 4 models selected . [ID: 1] region 4 chains [289-298] RMSD: 11.289 > select #1/B:188-189 #2/B:188-189 #3/B:188-189 #4/B:188-189 64 atoms, 60 bonds, 8 residues, 4 models selected > select #1/B:181-189 #2/B:181-189 #3/B:181-189 #4/B:181-189 308 atoms, 304 bonds, 36 residues, 4 models selected . [ID: 1] region 4 chains [181-189] RMSD: 0.271 > select #1/B:122 #2/B:122 #3/B:122 #4/B:122 28 atoms, 24 bonds, 4 residues, 4 models selected > select #1/B:115-122 #2/B:115-122 #3/B:115-122 #4/B:115-122 212 atoms, 208 bonds, 32 residues, 4 models selected . [ID: 1] region 4 chains [115-122] RMSD: 0.329 > select #1/B:119 #2/B:119 #3/B:119 #4/B:119 44 atoms, 40 bonds, 4 residues, 4 models selected > select #1/B:119 #2/B:119 #3/B:119 #4/B:119 44 atoms, 40 bonds, 4 residues, 4 models selected . [ID: 1] region 4 chains [119] RMSD: 0.315 > select #1/B:158 #2/B:158 #3/B:158 #4/B:158 48 atoms, 48 bonds, 4 residues, 4 models selected > select #1/B:158 #2/B:158 #3/B:158 #4/B:158 48 atoms, 48 bonds, 4 residues, 4 models selected . [ID: 1] region 4 chains [158] RMSD: 0.240 > select #1/B:119 #2/B:119 #3/B:119 #4/B:119 44 atoms, 40 bonds, 4 residues, 4 models selected > select #1/B:119 #2/B:119 #3/B:119 #4/B:119 44 atoms, 40 bonds, 4 residues, 4 models selected . [ID: 1] region 4 chains [119] RMSD: 0.315 > select #1/B:119,158 #2/B:119,158 #3/B:119,158 #4/B:119,158 92 atoms, 88 bonds, 8 residues, 4 models selected . [ID: 1] region 4 chains [119] + 1 other block RMSD: 0.280 > select #1/B:82,119,158 #2/B:82,119,158 #3/B:82,119,158 #4/B:82,119,158 136 atoms, 128 bonds, 12 residues, 4 models selected . [ID: 1] region 4 chains [119] + 2 other blocks RMSD: 0.475 > show sel & #!1 atoms > color sel & #!1 byhetero > color (#!1 & sel) red > label (#!1 & sel) text ""{0.label_one_letter_code} > {0.number}{0.insertion_code}"" > label height 0.7 > label height 1 > label height 2 > select clear > hide #!1 models > show #!2 models > show #!1 models > hide #!1 models > hide #!2 models > show #!3 models > show #!2 models > show #!4 models > show #5 models > hide #5 models > show #5 models > hide #5 models > select #1/B:158 #2/B:158 #3/B:158 #4/B:158 48 atoms, 48 bonds, 4 residues, 4 models selected > select #1/B:158 #2/B:158 #3/B:158 #4/B:158 48 atoms, 48 bonds, 4 residues, 4 models selected . [ID: 1] region 4 chains [158] RMSD: 0.240 > select #1/B:119,158 #2/B:119,158 #3/B:119,158 #4/B:119,158 92 atoms, 88 bonds, 8 residues, 4 models selected . [ID: 1] region 4 chains [158] + 1 other block RMSD: 0.280 > select #1/B:82,119,158 #2/B:82,119,158 #3/B:82,119,158 #4/B:82,119,158 136 atoms, 128 bonds, 12 residues, 4 models selected . [ID: 1] region 4 chains [158] + 2 other blocks RMSD: 0.475 > show sel & #!2-4 atoms > color (#!2-4 & sel) red > select clear > hide #!3 models > hide #!2 models > hide #!4 models > show #!3 models > hide #!3 models > show #!2 models > show #5 models > close #5-7 > hide #!2 models > show #!1 models > show #!4 models > show #!2 models > show #!3 models > close #1-4 > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/ivig_1847_cds_0046__caprel_model.cif Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . Color ivig_1847_cds_0046__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_2526164726_000001_2526164726_2526185787_81245-120753_cds_0030__caprel_model.cif Chain information for imgvr_uvig_2526164726_000001_2526164726_2526185787_81245-120753_cds_0030__caprel_model.cif #2 --- Chain | Description A | . B | . Color imgvr_uvig_2526164726_000001_2526164726_2526185787_81245-120753_cds_0030__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif Chain information for imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif #3 --- Chain | Description A | . B | . Color imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_3300008406_000360_3300008406_ga0115224_1000119_28695-83854_cds_0050__caprel_model.cif Chain information for imgvr_uvig_3300008406_000360_3300008406_ga0115224_1000119_28695-83854_cds_0050__caprel_model.cif #4 --- Chain | Description A | . B | . Color imgvr_uvig_3300008406_000360_3300008406_ga0115224_1000119_28695-83854_cds_0050__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif Chain information for imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif #5 --- Chain | Description A | . B | . Color imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif Chain information for imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif #6 --- Chain | Description A | . B | . Color imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/imgvr_uvig_3300045988_117965_3300045988_ga0495776_154133_cds_0040__caprel_model.cif Chain information for imgvr_uvig_3300045988_117965_3300045988_ga0495776_154133_cds_0040__caprel_model.cif #7 --- Chain | Description A | . B | . Color imgvr_uvig_3300045988_117965_3300045988_ga0495776_154133_cds_0040__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0154653_cds_0001__caprel_model.cif Chain information for mgv-genome-0154653_cds_0001__caprel_model.cif #8 --- Chain | Description A | . B | . Color mgv-genome-0154653_cds_0001__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0243292_cds_0030__caprel_model.cif Chain information for mgv-genome-0243292_cds_0030__caprel_model.cif #9 --- Chain | Description A | . B | . Color mgv-genome-0243292_cds_0030__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0285849_cds_0029__caprel_model.cif Chain information for mgv-genome-0285849_cds_0029__caprel_model.cif #10 --- Chain | Description A | . B | . Color mgv-genome-0285849_cds_0029__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0286105_cds_0054__caprel_model.cif Chain information for mgv-genome-0286105_cds_0054__caprel_model.cif #11 --- Chain | Description A | . B | . Color mgv-genome-0286105_cds_0054__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0332106_cds_0049__caprel_model.cif Chain information for mgv-genome-0332106_cds_0049__caprel_model.cif #12 --- Chain | Description A | . B | . Color mgv-genome-0332106_cds_0049__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0332881_cds_0021__caprel_model.cif Chain information for mgv-genome-0332881_cds_0021__caprel_model.cif #13 --- Chain | Description A | . B | . Color mgv-genome-0332881_cds_0021__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-0369858_cds_0010__caprel_model.cif Chain information for mgv-genome-0369858_cds_0010__caprel_model.cif #14 --- Chain | Description A | . B | . Color mgv-genome-0369858_cds_0010__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/mgv- > genome-4416137_cds_0026__caprel_model.cif Chain information for mgv-genome-4416137_cds_0026__caprel_model.cif #15 --- Chain | Description A | . B | . Color mgv-genome-4416137_cds_0026__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/nc_055919.1_cds_0033__caprel_model.cif Chain information for nc_055919.1_cds_0033__caprel_model.cif #16 --- Chain | Description A | . B | . Color nc_055919.1_cds_0033__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/samea2580206_a1_ct14209_vs1_cds_0032__caprel_model.cif Chain information for samea2580206_a1_ct14209_vs1_cds_0032__caprel_model.cif #17 --- Chain | Description A | . B | . Color samea2580206_a1_ct14209_vs1_cds_0032__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/samn00715152_b1_ct5_vs2_cds_0015__caprel_model.cif Chain information for samn00715152_b1_ct5_vs2_cds_0015__caprel_model.cif #18 --- Chain | Description A | . B | . Color samn00715152_b1_ct5_vs2_cds_0015__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif Chain information for srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif #19 --- Chain | Description A | . B | . Color srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/srs147664_a1_ct51078_vs1_cds_0026__caprel_model.cif Chain information for srs147664_a1_ct51078_vs1_cds_0026__caprel_model.cif #20 --- Chain | Description A | . B | . Color srs147664_a1_ct51078_vs1_cds_0026__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/station39_mes_combined_final_node_706_length_44789_cov_5.882282_cds_0048__caprel_model.cif Chain information for station39_mes_combined_final_node_706_length_44789_cov_5.882282_cds_0048__caprel_model.cif #21 --- Chain | Description A | . B | . Color station39_mes_combined_final_node_706_length_44789_cov_5.882282_cds_0048__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/temphd_cluster_64964_cds_0014__caprel_model.cif Chain information for temphd_cluster_64964_cds_0014__caprel_model.cif #22 --- Chain | Description A | . B | . Color temphd_cluster_64964_cds_0014__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_499_cds_0016__caprel_model.cif Chain information for uvig_499_cds_0016__caprel_model.cif #23 --- Chain | Description A | . B | . Color uvig_499_cds_0016__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_63783_cds_0041__caprel_model.cif Chain information for uvig_63783_cds_0041__caprel_model.cif #24 --- Chain | Description A | . B | . Color uvig_63783_cds_0041__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_96616_cds_0030__caprel_model.cif Chain information for uvig_96616_cds_0030__caprel_model.cif #25 --- Chain | Description A | . B | . Color uvig_96616_cds_0030__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_107105_cds_0011__caprel_model.cif Chain information for uvig_107105_cds_0011__caprel_model.cif #26 --- Chain | Description A | . B | . Color uvig_107105_cds_0011__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_146714_cds_0075__caprel_model.cif Chain information for uvig_146714_cds_0075__caprel_model.cif #27 --- Chain | Description A | . B | . Color uvig_146714_cds_0075__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_149439_cds_0002__caprel_model.cif Chain information for uvig_149439_cds_0002__caprel_model.cif #28 --- Chain | Description A | . B | . Color uvig_149439_cds_0002__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_302458_cds_0055__caprel_model.cif Chain information for uvig_302458_cds_0055__caprel_model.cif #29 --- Chain | Description A | . B | . Color uvig_302458_cds_0055__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_308814_cds_0079__caprel_model.cif Chain information for uvig_308814_cds_0079__caprel_model.cif #30 --- Chain | Description A | . B | . Color uvig_308814_cds_0079__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_316842_cds_0025__caprel_model.cif Chain information for uvig_316842_cds_0025__caprel_model.cif #31 --- Chain | Description A | . B | . Color uvig_316842_cds_0025__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_446064_cds_0006__caprel_model.cif Chain information for uvig_446064_cds_0006__caprel_model.cif #32 --- Chain | Description A | . B | . Color uvig_446064_cds_0006__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_450516_cds_0033__caprel_model.cif Chain information for uvig_450516_cds_0033__caprel_model.cif #33 --- Chain | Description A | . B | . Color uvig_450516_cds_0033__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_492214__cds_0036__caprel_model.cif Chain information for uvig_492214__cds_0036__caprel_model.cif #34 --- Chain | Description A | . B | . Color uvig_492214__cds_0036__caprel_model.cif by residue attribute pLDDT_score > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/caprel/filtered_cifs/uvig_499169_cds_0013__caprel_model.cif Chain information for uvig_499169_cds_0013__caprel_model.cif #35 --- Chain | Description A | . B | . Color uvig_499169_cds_0013__caprel_model.cif by residue attribute pLDDT_score > select > #1/A#1/B#2/A#2/B#3/A#3/B#4/A#4/B#5/A#5/B#6/A#6/B#7/A#7/B#8/A#8/B#9/A#9/B#10/A#10/B#11/A#11/B#12/A#12/B#13/A#13/B#14/A#14/B#15/A#15/B#16/A#16/B#17/A#17/B#18/A#18/B#19/A#19/B#20/A#20/B#21/A#21/B#22/A#22/B#23/A#23/B#24/A#24/B#25/A#25/B#26/A#26/B#27/A#27/B#28/A#28/B#29/A#29/B#30/A#30/B#31/A#31/B#32/A#32/B#33/A#33/B#34/A#34/B#35/A#35/B 163749 atoms, 166631 bonds, 20306 residues, 35 models selected > ui tool show ""Show Sequence Viewer"" > sequence chain #1/B #2/B #3/B #4/B #5/B #6/B #7/B #8/B #9/B #10/B #11/B > #12/B #13/B #14/B #15/B #16/B #17/B #18/B #19/B #20/B #21/B #22/B #23/B > #24/B #25/B #26/B #27/B #28/B #29/B #30/B #31/B #32/B #33/B #34/B #35/B Alignment identifier is 1 > select #1/B:332-376 #2/B:332-376 #3/B:332-376 #4/B:332-376 #5/B:332-376 > #6/B:332-376 #7/B:332-376 #8/B:332-376 #9/B:332-376 #10/B:332-376 > #11/B:332-376 #12/B:332-376 #13/B:332-376 #14/B:332-376 #15/B:332-376 > #16/B:332-376 #17/B:332-376 #18/B:332-376 #19/B:332-376 #20/B:332-376 > #21/B:332-376 #22/B:332-376 #23/B:332-376 #24/B:332-376 #25/B:332-376 > #26/B:332-376 #27/B:332-376 #28/B:332-376 #29/B:332-376 #30/B:332-376 > #31/B:332-376 #32/B:332-376 #33/B:332-376 #34/B:332-376 #35/B:332-376 12495 atoms, 12740 bonds, 1575 residues, 35 models selected > select #1/B #2/B #3/B #4/B #5/B #6/B #7/B #8/B #9/B #10/B #11/B #12/B #13/B > #14/B #15/B #16/B #17/B #18/B #19/B #20/B #21/B #22/B #23/B #24/B #25/B > #26/B #27/B #28/B #29/B #30/B #31/B #32/B #33/B #34/B #35/B 106015 atoms, 107730 bonds, 13160 residues, 35 models selected . [ID: 1] region 35 chains [1-376] RMSD: 38.009 > color sel dark gray > select #1/B:237 #2/B:237 #3/B:237 #4/B:237 #5/B:237 #6/B:237 #7/B:237 > #8/B:237 #9/B:237 #10/B:237 #11/B:237 #12/B:237 #13/B:237 #14/B:237 > #15/B:237 #16/B:237 #17/B:237 #18/B:237 #19/B:237 #20/B:237 #21/B:237 > #22/B:237 #23/B:237 #24/B:237 #25/B:237 #26/B:237 #27/B:237 #28/B:237 > #29/B:237 #30/B:237 #31/B:237 #32/B:237 #33/B:237 #34/B:237 #35/B:237 210 atoms, 175 bonds, 35 residues, 35 models selected > select #1/B:1-237 #2/B:1-237 #3/B:1-237 #4/B:1-237 #5/B:1-237 #6/B:1-237 > #7/B:1-237 #8/B:1-237 #9/B:1-237 #10/B:1-237 #11/B:1-237 #12/B:1-237 > #13/B:1-237 #14/B:1-237 #15/B:1-237 #16/B:1-237 #17/B:1-237 #18/B:1-237 > #19/B:1-237 #20/B:1-237 #21/B:1-237 #22/B:1-237 #23/B:1-237 #24/B:1-237 > #25/B:1-237 #26/B:1-237 #27/B:1-237 #28/B:1-237 #29/B:1-237 #30/B:1-237 > #31/B:1-237 #32/B:1-237 #33/B:1-237 #34/B:1-237 #35/B:1-237 66990 atoms, 68075 bonds, 8295 residues, 35 models selected . [ID: 1] region 35 chains [1-237] RMSD: 39.218 > color sel purple > color sel #ed849aff > color sel #ed71b8ff > color sel #ed32d1ff > color sel #ed30d0ff > color sel #ed33e1ff > color sel #ed31e4ff > color sel #ed31e5ff > color sel #cc28edff > color sel #c624edff > color sel #c026edff > color sel #a636edff > color sel #a436edff > color sel #a639edff > color sel #ae43edff > color sel #b04dedff > color sel #a556edff > color sel #a657edff > select #1/B:331-376 #2/B:331-376 #3/B:331-376 #4/B:331-376 #5/B:331-376 > #6/B:331-376 #7/B:331-376 #8/B:331-376 #9/B:331-376 #10/B:331-376 > #11/B:331-376 #12/B:331-376 #13/B:331-376 #14/B:331-376 #15/B:331-376 > #16/B:331-376 #17/B:331-376 #18/B:331-376 #19/B:331-376 #20/B:331-376 > #21/B:331-376 #22/B:331-376 #23/B:331-376 #24/B:331-376 #25/B:331-376 > #26/B:331-376 #27/B:331-376 #28/B:331-376 #29/B:331-376 #30/B:331-376 > #31/B:331-376 #32/B:331-376 #33/B:331-376 #34/B:331-376 #35/B:331-376 12775 atoms, 13020 bonds, 1610 residues, 35 models selected > select #1/B #2/B #3/B #4/B #5/B #6/B #7/B #8/B #9/B #10/B #11/B #12/B #13/B > #14/B #15/B #16/B #17/B #18/B #19/B #20/B #21/B #22/B #23/B #24/B #25/B > #26/B #27/B #28/B #29/B #30/B #31/B #32/B #33/B #34/B #35/B 106015 atoms, 107730 bonds, 13160 residues, 35 models selected . [ID: 1] region 35 chains [1-376] RMSD: 38.009 > select ~sel 57734 atoms, 58901 bonds, 7146 residues, 35 models selected > color sel orange > select clear > select #1/B:375-376 #2/B:375-376 #3/B:375-376 #4/B:375-376 #5/B:375-376 > #6/B:375-376 #7/B:375-376 #8/B:375-376 #9/B:375-376 #10/B:375-376 > #11/B:375-376 #12/B:375-376 #13/B:375-376 #14/B:375-376 #15/B:375-376 > #16/B:375-376 #17/B:375-376 #18/B:375-376 #19/B:375-376 #20/B:375-376 > #21/B:375-376 #22/B:375-376 #23/B:375-376 #24/B:375-376 #25/B:375-376 > #26/B:375-376 #27/B:375-376 #28/B:375-376 #29/B:375-376 #30/B:375-376 > #31/B:375-376 #32/B:375-376 #33/B:375-376 #34/B:375-376 #35/B:375-376 525 atoms, 490 bonds, 70 residues, 35 models selected > select #1/B:375-376 #2/B:375-376 #3/B:375-376 #4/B:375-376 #5/B:375-376 > #6/B:375-376 #7/B:375-376 #8/B:375-376 #9/B:375-376 #10/B:375-376 > #11/B:375-376 #12/B:375-376 #13/B:375-376 #14/B:375-376 #15/B:375-376 > #16/B:375-376 #17/B:375-376 #18/B:375-376 #19/B:375-376 #20/B:375-376 > #21/B:375-376 #22/B:375-376 #23/B:375-376 #24/B:375-376 #25/B:375-376 > #26/B:375-376 #27/B:375-376 #28/B:375-376 #29/B:375-376 #30/B:375-376 > #31/B:375-376 #32/B:375-376 #33/B:375-376 #34/B:375-376 #35/B:375-376 525 atoms, 490 bonds, 70 residues, 35 models selected . [ID: 1] region 35 chains [375-376] RMSD: 42.014 > select #1/B:82 #2/B:82 #3/B:82 #4/B:82 #5/B:82 #6/B:82 #7/B:82 #8/B:82 > #9/B:82 #10/B:82 #11/B:82 #12/B:82 #13/B:82 #14/B:82 #15/B:82 #16/B:82 > #17/B:82 #18/B:82 #19/B:82 #20/B:82 #21/B:82 #22/B:82 #23/B:82 #24/B:82 > #25/B:82 #26/B:82 #27/B:82 #28/B:82 #29/B:82 #30/B:82 #31/B:82 #32/B:82 > #33/B:82 #34/B:82 #35/B:82 385 atoms, 350 bonds, 35 residues, 35 models selected > select #1/B:82 #2/B:82 #3/B:82 #4/B:82 #5/B:82 #6/B:82 #7/B:82 #8/B:82 > #9/B:82 #10/B:82 #11/B:82 #12/B:82 #13/B:82 #14/B:82 #15/B:82 #16/B:82 > #17/B:82 #18/B:82 #19/B:82 #20/B:82 #21/B:82 #22/B:82 #23/B:82 #24/B:82 > #25/B:82 #26/B:82 #27/B:82 #28/B:82 #29/B:82 #30/B:82 #31/B:82 #32/B:82 > #33/B:82 #34/B:82 #35/B:82 385 atoms, 350 bonds, 35 residues, 35 models selected . [ID: 1] region 35 chains [82] RMSD: 26.711 > select #1/B:82,119 #2/B:82,119 #3/B:82,119 #4/B:82,119 #5/B:82,119 > #6/B:82,119 #7/B:82,119 #8/B:82,119 #9/B:82,119 #10/B:82,119 #11/B:82,119 > #12/B:82,119 #13/B:82,119 #14/B:82,119 #15/B:82,119 #16/B:82,119 > #17/B:82,119 #18/B:82,119 #19/B:82,119 #20/B:82,119 #21/B:82,119 > #22/B:82,119 #23/B:82,119 #24/B:82,119 #25/B:82,119 #26/B:82,119 > #27/B:82,119 #28/B:82,119 #29/B:82,119 #30/B:82,119 #31/B:82,119 > #32/B:82,119 #33/B:82,119 #34/B:82,119 #35/B:82,119 770 atoms, 700 bonds, 70 residues, 35 models selected . [ID: 1] region 35 chains [82] + 1 other block RMSD: 26.520 > select #1/B:82,119,158 #2/B:82,119,158 #3/B:82,119,158 #4/B:82,119,158 > #5/B:82,119,158 #6/B:82,119,158 #7/B:82,119,158 #8/B:82,119,158 > #9/B:82,119,158 #10/B:82,119,158 #11/B:82,119,158 #12/B:82,119,158 > #13/B:82,119,158 #14/B:82,119,158 #15/B:82,119,158 #16/B:82,119,158 > #17/B:82,119,158 #18/B:82,119,158 #19/B:82,119,158 #20/B:82,119,158 > #21/B:82,119,158 #22/B:82,119,158 #23/B:82,119,158 #24/B:82,119,158 > #25/B:82,119,158 #26/B:82,119,158 #27/B:82,119,158 #28/B:82,119,158 > #29/B:82,119,158 #30/B:82,119,158 #31/B:82,119,158 #32/B:82,119,158 > #33/B:82,119,158 #34/B:82,119,158 #35/B:82,119,158 1190 atoms, 1120 bonds, 105 residues, 35 models selected . [ID: 1] region 35 chains [82] + 2 other blocks RMSD: 26.649 > show sel atoms > color sel red > select clear > ui tool show Matchmaker > matchmaker #3-35 to #1/B 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 ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif, chain B (#3), sequence alignment score = 1878 RMSD between 256 pruned atom pairs is 0.671 angstroms; (across all 376 pairs: 16.373) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300008406_000360_3300008406_ga0115224_1000119_28695-83854_cds_0050__caprel_model.cif, chain B (#4), sequence alignment score = 1850.7 RMSD between 258 pruned atom pairs is 0.760 angstroms; (across all 376 pairs: 12.310) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif, chain B (#5), sequence alignment score = 1867.5 RMSD between 256 pruned atom pairs is 0.710 angstroms; (across all 376 pairs: 12.086) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif, chain B (#6), sequence alignment score = 1863.3 RMSD between 238 pruned atom pairs is 0.657 angstroms; (across all 376 pairs: 12.162) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300045988_117965_3300045988_ga0495776_154133_cds_0040__caprel_model.cif, chain B (#7), sequence alignment score = 1918.2 RMSD between 345 pruned atom pairs is 0.468 angstroms; (across all 376 pairs: 1.547) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0154653_cds_0001__caprel_model.cif, chain B (#8), sequence alignment score = 1857.3 RMSD between 234 pruned atom pairs is 0.980 angstroms; (across all 376 pairs: 15.394) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0243292_cds_0030__caprel_model.cif, chain B (#9), sequence alignment score = 1846.5 RMSD between 247 pruned atom pairs is 0.814 angstroms; (across all 376 pairs: 13.019) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0285849_cds_0029__caprel_model.cif, chain B (#10), sequence alignment score = 1868.1 RMSD between 245 pruned atom pairs is 0.767 angstroms; (across all 376 pairs: 12.218) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0286105_cds_0054__caprel_model.cif, chain B (#11), sequence alignment score = 1870.5 RMSD between 256 pruned atom pairs is 0.751 angstroms; (across all 376 pairs: 12.124) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0332106_cds_0049__caprel_model.cif, chain B (#12), sequence alignment score = 1855.5 RMSD between 254 pruned atom pairs is 0.779 angstroms; (across all 376 pairs: 12.277) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0332881_cds_0021__caprel_model.cif, chain B (#13), sequence alignment score = 1867.5 RMSD between 254 pruned atom pairs is 0.783 angstroms; (across all 376 pairs: 12.331) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0369858_cds_0010__caprel_model.cif, chain B (#14), sequence alignment score = 1881.9 RMSD between 254 pruned atom pairs is 0.784 angstroms; (across all 376 pairs: 12.346) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-4416137_cds_0026__caprel_model.cif, chain B (#15), sequence alignment score = 1878.3 RMSD between 242 pruned atom pairs is 0.779 angstroms; (across all 376 pairs: 12.695) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with nc_055919.1_cds_0033__caprel_model.cif, chain B (#16), sequence alignment score = 1877.7 RMSD between 261 pruned atom pairs is 0.697 angstroms; (across all 376 pairs: 11.635) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with samea2580206_a1_ct14209_vs1_cds_0032__caprel_model.cif, chain B (#17), sequence alignment score = 1881.3 RMSD between 257 pruned atom pairs is 0.721 angstroms; (across all 376 pairs: 11.819) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with samn00715152_b1_ct5_vs2_cds_0015__caprel_model.cif, chain B (#18), sequence alignment score = 1867.5 RMSD between 254 pruned atom pairs is 0.739 angstroms; (across all 376 pairs: 11.723) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif, chain B (#19), sequence alignment score = 1865.1 RMSD between 245 pruned atom pairs is 0.747 angstroms; (across all 376 pairs: 15.883) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with srs147664_a1_ct51078_vs1_cds_0026__caprel_model.cif, chain B (#20), sequence alignment score = 1874.7 RMSD between 260 pruned atom pairs is 0.704 angstroms; (across all 376 pairs: 12.206) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with station39_mes_combined_final_node_706_length_44789_cov_5.882282_cds_0048__caprel_model.cif, chain B (#21), sequence alignment score = 1921.5 RMSD between 365 pruned atom pairs is 0.486 angstroms; (across all 376 pairs: 0.982) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with temphd_cluster_64964_cds_0014__caprel_model.cif, chain B (#22), sequence alignment score = 1870.5 RMSD between 257 pruned atom pairs is 0.683 angstroms; (across all 376 pairs: 12.097) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_499_cds_0016__caprel_model.cif, chain B (#23), sequence alignment score = 1871.1 RMSD between 257 pruned atom pairs is 0.737 angstroms; (across all 376 pairs: 12.012) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_63783_cds_0041__caprel_model.cif, chain B (#24), sequence alignment score = 1870.5 RMSD between 258 pruned atom pairs is 0.716 angstroms; (across all 376 pairs: 12.134) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_96616_cds_0030__caprel_model.cif, chain B (#25), sequence alignment score = 1866.9 RMSD between 246 pruned atom pairs is 0.803 angstroms; (across all 376 pairs: 12.253) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_107105_cds_0011__caprel_model.cif, chain B (#26), sequence alignment score = 1871.1 RMSD between 259 pruned atom pairs is 0.698 angstroms; (across all 376 pairs: 12.110) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_146714_cds_0075__caprel_model.cif, chain B (#27), sequence alignment score = 1877.7 RMSD between 262 pruned atom pairs is 0.678 angstroms; (across all 376 pairs: 12.035) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_149439_cds_0002__caprel_model.cif, chain B (#28), sequence alignment score = 1898.4 RMSD between 344 pruned atom pairs is 0.423 angstroms; (across all 376 pairs: 1.392) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_302458_cds_0055__caprel_model.cif, chain B (#29), sequence alignment score = 1880.7 RMSD between 243 pruned atom pairs is 0.840 angstroms; (across all 376 pairs: 16.329) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_308814_cds_0079__caprel_model.cif, chain B (#30), sequence alignment score = 1870.5 RMSD between 250 pruned atom pairs is 0.750 angstroms; (across all 376 pairs: 12.077) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_316842_cds_0025__caprel_model.cif, chain B (#31), sequence alignment score = 1877.7 RMSD between 255 pruned atom pairs is 0.740 angstroms; (across all 376 pairs: 12.366) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_446064_cds_0006__caprel_model.cif, chain B (#32), sequence alignment score = 1918.2 RMSD between 334 pruned atom pairs is 0.451 angstroms; (across all 376 pairs: 1.512) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_450516_cds_0033__caprel_model.cif, chain B (#33), sequence alignment score = 1881.3 RMSD between 263 pruned atom pairs is 0.671 angstroms; (across all 376 pairs: 11.768) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_492214__cds_0036__caprel_model.cif, chain B (#34), sequence alignment score = 1871.1 RMSD between 262 pruned atom pairs is 0.631 angstroms; (across all 376 pairs: 6.545) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_499169_cds_0013__caprel_model.cif, chain B (#35), sequence alignment score = 1903.2 RMSD between 352 pruned atom pairs is 0.462 angstroms; (across all 376 pairs: 1.235) > matchmaker #3-35 to #1/B 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 ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif, chain B (#3), sequence alignment score = 1878 RMSD between 256 pruned atom pairs is 0.671 angstroms; (across all 376 pairs: 16.373) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300008406_000360_3300008406_ga0115224_1000119_28695-83854_cds_0050__caprel_model.cif, chain B (#4), sequence alignment score = 1850.7 RMSD between 258 pruned atom pairs is 0.760 angstroms; (across all 376 pairs: 12.310) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif, chain B (#5), sequence alignment score = 1867.5 RMSD between 256 pruned atom pairs is 0.710 angstroms; (across all 376 pairs: 12.086) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif, chain B (#6), sequence alignment score = 1863.3 RMSD between 238 pruned atom pairs is 0.657 angstroms; (across all 376 pairs: 12.162) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with imgvr_uvig_3300045988_117965_3300045988_ga0495776_154133_cds_0040__caprel_model.cif, chain B (#7), sequence alignment score = 1918.2 RMSD between 345 pruned atom pairs is 0.468 angstroms; (across all 376 pairs: 1.547) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0154653_cds_0001__caprel_model.cif, chain B (#8), sequence alignment score = 1857.3 RMSD between 234 pruned atom pairs is 0.980 angstroms; (across all 376 pairs: 15.394) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0243292_cds_0030__caprel_model.cif, chain B (#9), sequence alignment score = 1846.5 RMSD between 247 pruned atom pairs is 0.814 angstroms; (across all 376 pairs: 13.019) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0285849_cds_0029__caprel_model.cif, chain B (#10), sequence alignment score = 1868.1 RMSD between 245 pruned atom pairs is 0.767 angstroms; (across all 376 pairs: 12.218) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0286105_cds_0054__caprel_model.cif, chain B (#11), sequence alignment score = 1870.5 RMSD between 256 pruned atom pairs is 0.751 angstroms; (across all 376 pairs: 12.124) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0332106_cds_0049__caprel_model.cif, chain B (#12), sequence alignment score = 1855.5 RMSD between 254 pruned atom pairs is 0.779 angstroms; (across all 376 pairs: 12.277) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0332881_cds_0021__caprel_model.cif, chain B (#13), sequence alignment score = 1867.5 RMSD between 254 pruned atom pairs is 0.783 angstroms; (across all 376 pairs: 12.331) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-0369858_cds_0010__caprel_model.cif, chain B (#14), sequence alignment score = 1881.9 RMSD between 254 pruned atom pairs is 0.784 angstroms; (across all 376 pairs: 12.346) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with mgv- genome-4416137_cds_0026__caprel_model.cif, chain B (#15), sequence alignment score = 1878.3 RMSD between 242 pruned atom pairs is 0.779 angstroms; (across all 376 pairs: 12.695) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with nc_055919.1_cds_0033__caprel_model.cif, chain B (#16), sequence alignment score = 1877.7 RMSD between 261 pruned atom pairs is 0.697 angstroms; (across all 376 pairs: 11.635) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with samea2580206_a1_ct14209_vs1_cds_0032__caprel_model.cif, chain B (#17), sequence alignment score = 1881.3 RMSD between 257 pruned atom pairs is 0.721 angstroms; (across all 376 pairs: 11.819) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with samn00715152_b1_ct5_vs2_cds_0015__caprel_model.cif, chain B (#18), sequence alignment score = 1867.5 RMSD between 254 pruned atom pairs is 0.739 angstroms; (across all 376 pairs: 11.723) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif, chain B (#19), sequence alignment score = 1865.1 RMSD between 245 pruned atom pairs is 0.747 angstroms; (across all 376 pairs: 15.883) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with srs147664_a1_ct51078_vs1_cds_0026__caprel_model.cif, chain B (#20), sequence alignment score = 1874.7 RMSD between 260 pruned atom pairs is 0.704 angstroms; (across all 376 pairs: 12.206) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with station39_mes_combined_final_node_706_length_44789_cov_5.882282_cds_0048__caprel_model.cif, chain B (#21), sequence alignment score = 1921.5 RMSD between 365 pruned atom pairs is 0.486 angstroms; (across all 376 pairs: 0.982) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with temphd_cluster_64964_cds_0014__caprel_model.cif, chain B (#22), sequence alignment score = 1870.5 RMSD between 257 pruned atom pairs is 0.683 angstroms; (across all 376 pairs: 12.097) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_499_cds_0016__caprel_model.cif, chain B (#23), sequence alignment score = 1871.1 RMSD between 257 pruned atom pairs is 0.737 angstroms; (across all 376 pairs: 12.012) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_63783_cds_0041__caprel_model.cif, chain B (#24), sequence alignment score = 1870.5 RMSD between 258 pruned atom pairs is 0.716 angstroms; (across all 376 pairs: 12.134) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_96616_cds_0030__caprel_model.cif, chain B (#25), sequence alignment score = 1866.9 RMSD between 246 pruned atom pairs is 0.803 angstroms; (across all 376 pairs: 12.253) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_107105_cds_0011__caprel_model.cif, chain B (#26), sequence alignment score = 1871.1 RMSD between 259 pruned atom pairs is 0.698 angstroms; (across all 376 pairs: 12.110) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_146714_cds_0075__caprel_model.cif, chain B (#27), sequence alignment score = 1877.7 RMSD between 262 pruned atom pairs is 0.678 angstroms; (across all 376 pairs: 12.035) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_149439_cds_0002__caprel_model.cif, chain B (#28), sequence alignment score = 1898.4 RMSD between 344 pruned atom pairs is 0.423 angstroms; (across all 376 pairs: 1.392) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_302458_cds_0055__caprel_model.cif, chain B (#29), sequence alignment score = 1880.7 RMSD between 243 pruned atom pairs is 0.840 angstroms; (across all 376 pairs: 16.329) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_308814_cds_0079__caprel_model.cif, chain B (#30), sequence alignment score = 1870.5 RMSD between 250 pruned atom pairs is 0.750 angstroms; (across all 376 pairs: 12.077) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_316842_cds_0025__caprel_model.cif, chain B (#31), sequence alignment score = 1877.7 RMSD between 255 pruned atom pairs is 0.740 angstroms; (across all 376 pairs: 12.366) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_446064_cds_0006__caprel_model.cif, chain B (#32), sequence alignment score = 1918.2 RMSD between 334 pruned atom pairs is 0.451 angstroms; (across all 376 pairs: 1.512) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_450516_cds_0033__caprel_model.cif, chain B (#33), sequence alignment score = 1881.3 RMSD between 263 pruned atom pairs is 0.671 angstroms; (across all 376 pairs: 11.768) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_492214__cds_0036__caprel_model.cif, chain B (#34), sequence alignment score = 1871.1 RMSD between 262 pruned atom pairs is 0.631 angstroms; (across all 376 pairs: 6.545) Matchmaker ivig_1847_cds_0046__caprel_model.cif, chain B (#1) with uvig_499169_cds_0013__caprel_model.cif, chain B (#35), sequence alignment score = 1903.2 RMSD between 352 pruned atom pairs is 0.462 angstroms; (across all 376 pairs: 1.235) > hide #1 models > show #1 models > hide #34 models > hide #29 models > hide #30 models > hide #26-31 target m > hide target m > show #1 target m > hide #1 models > show #2 models > hide #2 models > show #3 models > hide #3 models > show #4 models > hide #4 models > show #5 models > hide #5 models > show #6 models > hide #6 models > show #7 models > hide #7 models > show #8 models > hide #8 models > show #9 models > hide #9 models > show #10 models > hide #10 models > show #11 models > hide #11 models > show #12 models > hide #12 models > show #13 models > hide #13 models > show #14 models > hide #14 models > show #15 models > hide #15 models > show #16 models > hide #16 models > show #17 models > hide #17 models > show #18 models > hide #18 models > show #19 models > hide #19 models > show #20 models > hide #20 models > show #21 models > hide #21 models > show #22 models > hide #22 models > show #21 models > hide #21 models > show #22 models > hide #22 models > show #22 models > hide #22 models > show #23 models > hide #23 models > show #24 models > hide #24 models > show #25 models > hide #25 models > show #26 models > hide #26 models > show #27 models > hide #27 models > show #28 models > hide #28 models > show #29 models > hide #29 models > show #30 models > hide #30 models > show #31 models > hide #31 models > show #32 models > hide #32 models > show #33 models > hide #33 models > show #34 models > hide #34 models > show #35 models > hide #35 models > show #31 models > hide #31 models > show #5 models > hide #5 models > show #5 models > hide #5 models > show #5 models > hide #5 models > show #1 models > hide #1 models > show #8 models > hide #8 models > show #27 models > hide #27 models > show #28 models > hide #28 models > show #31 models > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/json_files_homologs_caprel/CCZ70856.1__caprel.json Failed opening file /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/json_files_homologs_caprel/CCZ70856.1__caprel.json: Opening an AlphaFold PAE file requires specifying the structure to associate. Did not find an open structure from the same directory. To specify the structure use menu Tools / Structure Prediction / AlphaFold Error Plot or use the open command, for example open /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/json_files_homologs_caprel/CCZ70856.1__caprel.json format pae structure #1 > hide #31 models > show #15 models > hide #15 models > show #30 models > hide #30 models > show #15 models > log metadata #1 The model has no metadata > log chains #1 Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . > log metadata #1 The model has no metadata > log chains #1 Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . > log metadata #1 The model has no metadata > log chains #1 Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . > log metadata #1 The model has no metadata > log chains #1 Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . > view #1 clip false > show #1 models > hide #1 models > show #1 models > hide #1 models > show #1 models > hide #1 models > hide #15 models > log metadata #1 The model has no metadata > log chains #1 Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . > show #1 models > hide #1 models > show #2 models > log metadata #2 The model has no metadata > log chains #2 Chain information for imgvr_uvig_2526164726_000001_2526164726_2526185787_81245-120753_cds_0030__caprel_model.cif #2 --- Chain | Description A | . B | . > hide #2 models > show #3 models > log metadata #3 The model has no metadata > log chains #3 Chain information for imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif #3 --- Chain | Description A | . B | . > hide #3 models > show #4 models > hide #4 models > show #3 models > hide #3 models > show #3 models > hide #3 models > show #4 models > hide #4 models > show #3 models > log metadata #3 The model has no metadata > log chains #3 Chain information for imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif #3 --- Chain | Description A | . B | . > hide #3 models > show #4 models > hide #4 models > show #5 models > log metadata #5 The model has no metadata > log chains #5 Chain information for imgvr_uvig_3300025711_000255_3300025711_ga0207696_1000048_102954-133738_cds_0029__caprel_model.cif #5 --- Chain | Description A | . B | . > hide #5 models > show #6 models > log metadata #6 The model has no metadata > log chains #6 Chain information for imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif #6 --- Chain | Description A | . B | . > log metadata #6 The model has no metadata > log chains #6 Chain information for imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif #6 --- Chain | Description A | . B | . > hide #6 models > show #7 models > hide #7 models > show #6 models > log metadata #6 The model has no metadata > log chains #6 Chain information for imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif #6 --- Chain | Description A | . B | . > hide #6 models > show #7 models > hide #7 models > show #6 models > hide #6 models > show #7 models > hide #7 models > show #8 models > hide #8 models > show #9 models > log metadata #9 The model has no metadata > log chains #9 Chain information for mgv-genome-0243292_cds_0030__caprel_model.cif #9 --- Chain | Description A | . B | . > log metadata #9 The model has no metadata > log chains #9 Chain information for mgv-genome-0243292_cds_0030__caprel_model.cif #9 --- Chain | Description A | . B | . > hide #9 models > show #10 models > log metadata #10 The model has no metadata > log chains #10 Chain information for mgv-genome-0285849_cds_0029__caprel_model.cif #10 --- Chain | Description A | . B | . > hide #10 models > show #11 models > log metadata #11 The model has no metadata > log chains #11 Chain information for mgv-genome-0286105_cds_0054__caprel_model.cif #11 --- Chain | Description A | . B | . > show #12 models > hide #11 models > hide #12 models > show #13 models > log metadata #13 The model has no metadata > log chains #13 Chain information for mgv-genome-0332881_cds_0021__caprel_model.cif #13 --- Chain | Description A | . B | . > hide #13 models > show #14 models > log metadata #14 The model has no metadata > log chains #14 Chain information for mgv-genome-0369858_cds_0010__caprel_model.cif #14 --- Chain | Description A | . B | . > hide #14 models > show #15 models > log metadata #15 The model has no metadata > log chains #15 Chain information for mgv-genome-4416137_cds_0026__caprel_model.cif #15 --- Chain | Description A | . B | . > hide #15 models > show #16 models > log metadata #16 The model has no metadata > log chains #16 Chain information for nc_055919.1_cds_0033__caprel_model.cif #16 --- Chain | Description A | . B | . > hide #16 models > show #17 models > hide #17 models > show #18 models > log metadata #18 The model has no metadata > log chains #18 Chain information for samn00715152_b1_ct5_vs2_cds_0015__caprel_model.cif #18 --- Chain | Description A | . B | . > hide #18 models > show #19 models > log metadata #19 The model has no metadata > log chains #19 Chain information for srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif #19 --- Chain | Description A | . B | . > hide #19 models > show #20 models > show #20 target m > hide #20 models > show #19 models > hide #19 models > show #20 models > hide #20 models > show #19 models > hide #19 models > show #20 models > hide #20 models > show #19 models > hide #19 models > show #20 models > hide #20 models > show #19 models > hide #19 models > show #20 models > log metadata #20 The model has no metadata > log chains #20 Chain information for srs147664_a1_ct51078_vs1_cds_0026__caprel_model.cif #20 --- Chain | Description A | . B | . > hide #20 models > show #21 models > hide #21 models > show #22 models > hide #22 models > show #23 models > hide #23 models > show #24 models > hide #24 models > show #25 models > hide #25 models > show #26 models > log metadata #26 The model has no metadata > log chains #26 Chain information for uvig_107105_cds_0011__caprel_model.cif #26 --- Chain | Description A | . B | . > hide #26 models > show #27 models > hide #27 models > show #28 models > hide #28 models > show #29 models > log metadata #29 The model has no metadata > log chains #29 Chain information for uvig_302458_cds_0055__caprel_model.cif #29 --- Chain | Description A | . B | . > hide #29 models > show #30 models > hide #30 models > show #31 models > log metadata #31 The model has no metadata > log chains #31 Chain information for uvig_316842_cds_0025__caprel_model.cif #31 --- Chain | Description A | . B | . > hide #31 models > show #32 models > hide #32 models > show #33 models > hide #33 models > show #34 models > log metadata #34 The model has no metadata > log chains #34 Chain information for uvig_492214__cds_0036__caprel_model.cif #34 --- Chain | Description A | . B | . > hide #34 models > show #35 models > hide #35 models > show #15 models > hide #15 models > show #26 models > hide #26 models > show #26 models > hide #26 models > show #30 models > hide #30 models > show #31 models > hide #31 models > show #35 models > hide #35 models > show #31 models > hide #31 models > show #1 models > show #1 target m > log metadata #1 The model has no metadata > log chains #1 Chain information for ivig_1847_cds_0046__caprel_model.cif #1 --- Chain | Description A | . B | . > hide #1 models > show #1 models > hide #1 models > show #28 models > hide #28 models > show #11 models > hide #11 models > show #35 models > log metadata #35 The model has no metadata > log chains #35 Chain information for uvig_499169_cds_0013__caprel_model.cif #35 --- Chain | Description A | . B | . > hide #35 models > show #30 models > hide #30 models > show #22 models > hide #22 models > show #30 models > hide #30 models > show #33 models > hide #33 models > show #30 models > hide #30 models > show #34 models > hide #34 models > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/cifs_of_homologs/hml48345.1__prel_model.cif Chain information for hml48345.1__prel_model.cif #36 --- Chain | Description A | . B | . Color hml48345.1__prel_model.cif by residue attribute pLDDT_score > select add #36 2591 atoms, 2645 bonds, 315 residues, 1 model selected > color sel bychain > hide #36 models > show #36 models > select subtract #36 Nothing selected > hide #36 models > show #35 models > hide #35 models > show #34 models > hide #34 models > show #34 models > hide #34 models > show #35 models > hide #35 models > show #26 models > hide #26 models > open > /Users/aegorov/Desktop/LU_Lab_Projects/anti_defences/cifs_of_homologs/wp_238702502.1__prel_model.cif Chain information for wp_238702502.1__prel_model.cif #37 --- Chain | Description A | . B | . Color wp_238702502.1__prel_model.cif by residue attribute pLDDT_score > select add #37 3314 atoms, 3376 bonds, 403 residues, 1 model selected > color sel bychain > select subtract #37 Nothing selected > hide #37 models > show #30 models > hide #30 models > show #29 models The cached device pixel ratio value was stale on window expose. Please file a QTBUG which explains how to reproduce. > close #36-37 > hide #29 models > show #29 models > coulombic #29 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for uvig_302458_cds_0055__caprel_model.cif_A SES surface #29.1: minimum, -19.21, mean -0.24, maximum 12.50 Coulombic values for uvig_302458_cds_0055__caprel_model.cif_B SES surface #29.2: minimum, -13.42, mean 2.55, maximum 17.78 To also show corresponding color key, enter the above coulombic command and add key true > transparency #29 80 > transparency #29 20 > lighting flat > graphics silhouettes false > graphics silhouettes true > transparency #29 90 > lighting flat > transparency #29 100 > hide #!29 models > show #!29 models > hide #!29 models > show #1 models > coulombic #1 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for ivig_1847_cds_0046__caprel_model.cif_A SES surface #1.1: minimum, -16.61, mean -1.28, maximum 8.11 Coulombic values for ivig_1847_cds_0046__caprel_model.cif_B SES surface #1.2: minimum, -13.25, mean 2.89, maximum 18.62 To also show corresponding color key, enter the above coulombic command and add key true > lighting flat > transparency #1 100 > transparency #1 10 > hide #!1 models > show #23 models > hide #23 models > show #35 models > ui tool show ""Side View"" > coulombic #35 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for uvig_499169_cds_0013__caprel_model.cif_A SES surface #35.1: minimum, -10.46, mean 0.13, maximum 9.87 Coulombic values for uvig_499169_cds_0013__caprel_model.cif_B SES surface #35.2: minimum, -13.88, mean 2.96, maximum 21.57 To also show corresponding color key, enter the above coulombic command and add key true > transparency #35 100 > transparency #35 10 > hide #!35 models > show #34 models > coulombic #34 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for uvig_492214__cds_0036__caprel_model.cif_A SES surface #34.1: minimum, -12.43, mean -1.81, maximum 8.22 Coulombic values for uvig_492214__cds_0036__caprel_model.cif_B SES surface #34.2: minimum, -13.19, mean 2.49, maximum 17.21 To also show corresponding color key, enter the above coulombic command and add key true > transparency #34 100 > transparency #34 90 > transparency #34 10 > transparency #34 20 > hide #!34 models > show #19 models > coulombic #19 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif_A SES surface #19.1: minimum, -19.14, mean -2.87, maximum 8.52 Coulombic values for srs019073_a1_ct115055_vs1_cds_0041__caprel_model.cif_B SES surface #19.2: minimum, -13.01, mean 2.48, maximum 18.26 To also show corresponding color key, enter the above coulombic command and add key true > transparency #19 100 > transparency #19 10 > hide #!19 models > show #31 models > coulombic #31 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for uvig_316842_cds_0025__caprel_model.cif_A SES surface #31.1: minimum, -12.58, mean -2.84, maximum 7.14 Coulombic values for uvig_316842_cds_0025__caprel_model.cif_B SES surface #31.2: minimum, -13.20, mean 2.71, maximum 19.93 To also show corresponding color key, enter the above coulombic command and add key true > transparency #31 100 > transparency #31 10 > hide #!31 models > show #15 models > coulombic #15 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for mgv-genome-4416137_cds_0026__caprel_model.cif_A SES surface #15.1: minimum, -19.01, mean -4.14, maximum 9.02 Coulombic values for mgv-genome-4416137_cds_0026__caprel_model.cif_B SES surface #15.2: minimum, -13.71, mean 2.79, maximum 20.60 To also show corresponding color key, enter the above coulombic command and add key true > transparency #15 100 > transparency #15 10 > hide #!15 models > show #!15 models > hide #!15 models > show #16 models > coulombic #16 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for nc_055919.1_cds_0033__caprel_model.cif_A SES surface #16.1: minimum, -12.67, mean -3.63, maximum 5.09 Coulombic values for nc_055919.1_cds_0033__caprel_model.cif_B SES surface #16.2: minimum, -13.19, mean 2.73, maximum 18.71 To also show corresponding color key, enter the above coulombic command and add key true > transparency #16 100 > transparency #16 10 > hide #!16 models > show #3 models > hide #3 models > show #3 models > color #3 bychain > undo > coulombic #3 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif_A SES surface #3.1: minimum, -10.77, mean -0.37, maximum 9.46 Coulombic values for imgvr_uvig_3300008005_000900_3300008005_ga0100385_1000007_127851-178635_cds_0030__caprel_model.cif_B SES surface #3.2: minimum, -13.30, mean 2.46, maximum 15.78 To also show corresponding color key, enter the above coulombic command and add key true > transparency #3 100 > transparency #3 10 > hide #!3 models > show #9 models > coulombic #9 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for mgv-genome-0243292_cds_0030__caprel_model.cif_A SES surface #9.1: minimum, -16.17, mean -3.80, maximum 10.94 Coulombic values for mgv-genome-0243292_cds_0030__caprel_model.cif_B SES surface #9.2: minimum, -13.38, mean 2.61, maximum 21.63 To also show corresponding color key, enter the above coulombic command and add key true > transparency #9 100 > transparency #9 10 > hide #!9 models > show #11 models > coulombic #11 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for mgv-genome-0286105_cds_0054__caprel_model.cif_A SES surface #11.1: minimum, -8.37, mean 1.07, maximum 9.36 Coulombic values for mgv-genome-0286105_cds_0054__caprel_model.cif_B SES surface #11.2: minimum, -20.76, mean 2.68, maximum 19.91 To also show corresponding color key, enter the above coulombic command and add key true > transparency #11 100 > transparency #11 10 > transparency #11 100 > show #10 models > hide #!11 models > hide #10 models > show #7 models > hide #7 models > show #6 models > coulombic #6 Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif_A SES surface #6.1: minimum, -30.74, mean -0.42, maximum 14.74 Coulombic values for imgvr_uvig_3300045988_012104_3300045988_ga0495776_015938_cds_0072__caprel_model.cif_B SES surface #6.2: minimum, -18.41, mean 2.68, maximum 20.17 To also show corresponding color key, enter the above coulombic command and add key true > transparency #6 70 > transparency #6 100 ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/aegorov/Downloads/fold_huge_pin_ecoli/fold_huge_pin_ecoli_model_0.cif > format mmcif Chain information for fold_huge_pin_ecoli_model_0.cif #1 --- Chain | Description A | . > close OpenGL version: 4.1 Metal - 89.4 OpenGL renderer: Apple M1 Pro OpenGL vendor: Apple Python: 3.11.4 Locale: en_US.UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro18,3 Model Number: Z15J003AGRU/A Chip: Apple M1 Pro Total Number of Cores: 8 (6 performance and 2 efficiency) Memory: 16 GB System Firmware Version: 11881.121.1 OS Loader Version: 11881.121.1 Software: System Software Overview: System Version: macOS 15.5 (24F74) Kernel Version: Darwin 24.5.0 Time since boot: 35 days, 6 hours, 19 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 LG UltraFine: Resolution: 4096 x 2304 UI Looks like: 2048 x 1152 @ 60.00Hz Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.15.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.17 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.7 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.57.1 ChimeraX-AtomicLibrary: 14.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.6 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.7 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.4 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.6 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.8 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.4 ChimeraX-DiffPlot: 1.0 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.3 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ESMFold: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.3 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.10 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0.1 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.2 ChimeraX-MatchMaker: 2.1.3 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.1 ChimeraX-MedicalToolbar: 1.0.3 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.17 ChimeraX-ModelPanel: 1.5 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0.3 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.5 ChimeraX-PDB: 2.7.5 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.4 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.4.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 4.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.2 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.0.15 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.16.5 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.2.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.5 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.39.1 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.3 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-vrml: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.4 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.2.1 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.4 fonttools: 4.53.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 grako: 3.16.5 h5py: 3.11.0 html2text: 2024.2.26 idna: 3.7 ihm: 1.0 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.3 jedi: 0.19.1 jinja2: 3.1.4 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.11 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.2.1 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.4 matplotlib-inline: 0.1.7 msgpack: 1.0.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.0 numpy: 1.26.4 openvr: 1.26.701 packaging: 23.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pillow: 10.3.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.2 prompt-toolkit: 3.0.47 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.1.2 pyproject-hooks: 1.1.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.3 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.3 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 26.0.3 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.13.0 setuptools: 69.5.1 setuptools-scm: 8.0.4 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 7.2.6 sphinx-autodoc-typehints: 2.0.1 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4.1 traitlets: 5.14.2 typing-extensions: 4.12.2 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.11 }}} " defect closed normal Window Toolkit duplicate all ChimeraX