id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
17759	Crash moving window between screens	chimerax-bug-report@…	Tom Goddard	"{{{
The following bug report has been submitted:
Platform:        macOS-15.5-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX.
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Log:
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15 superimposition
> 2.cxs""

Log from Wed May 21 19:51:14 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15-2.cxs""

Log from Mon May 19 20:28:28 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open ""/Users/leoliumcgill/Desktop/ISG15 structures/with labels.cxs""

Log from Mon May 19 18:15:08 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open /Users/leoliumcgill/Desktop/isg15.cxs

Log from Mon May 19 02:55:39 2025 Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
You can double click a model's Name or ID in the model panel to edit those
fields  
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 6XA9 fromDatabase pdb format mmcif

Summary of feedback from opening 6XA9 fetched from pdb  
---  
notes | Fetching compressed mmCIF 6xa9 from http://files.rcsb.org/download/6xa9.cif  
Fetching CCD AYE from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/E/AYE/AYE.cif  
Fetching CCD GOL from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/L/GOL/GOL.cif  
Fetching CCD ZN from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/N/ZN/ZN.cif  
  
6xa9 title:  
SARS CoV-2 PLpro in complex with ISG15 C-terminal domain propargylamide [more
info...]  
  
Chain information for 6xa9 #1  
---  
Chain | Description | UniProt  
A C E | Non-structural protein 3 | R1AB_SARS2 0-315  
B D F | ISG15 CTD-propargylamide | ISG15_HUMAN 79-157  
  
Non-standard residues in 6xa9 #1  
---  
AYE — prop-2-en-1-amine (allylamine)  
GOL — glycerol (glycerin; propane-1,2,3-triol)  
ZN — zinc ion  
  
6xa9 mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
3| author_and_software_defined_assembly  
  
12 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> rainbow

> hide #!1 models

> show #!1 models

> show cartoons

> hide surfaces

> color byhetero

[Repeated 5 time(s)]

> hide #1.2 models

> show #1.2 models

> hide #1.1 models

> show #1.1 models

> hide #!1 models

> show #!1 models

> select add #1

8957 atoms, 9125 bonds, 13 pseudobonds, 1212 residues, 3 models selected  

> select subtract #1

Nothing selected  

> select add #1.1

12 pseudobonds, 1 model selected  

> select subtract #1.1

Nothing selected  

> view #1 clip false

> sym #1

6xa9 mmCIF Assemblies  
---  
1| author_and_software_defined_assembly| 1 copy of chains A,B  
2| author_and_software_defined_assembly| 1 copy of chains C,D  
3| author_and_software_defined_assembly| 1 copy of chains E,F  
  

> log metadata #1

Metadata for 6xa9 #1  
---  
Title | SARS CoV-2 PLpro in complex with ISG15 C-terminal domain propargylamide  
Citations | Klemm, T., Ebert, G., Calleja, D.J., Allison, C.C., Richardson, L.W., Bernardini, J.P., Lu, B.G., Kuchel, N.W., Grohmann, C., Shibata, Y., Gan, Z.Y., Cooney, J.P., Doerflinger, M., Au, A.E., Blackmore, T.R., van der Heden van Noort, G.J., Geurink, P.P., Ovaa, H., Newman, J., Riboldi-Tunnicliffe, A., Czabotar, P.E., Mitchell, J.P., Feltham, R., Lechtenberg, B.C., Lowes, K.N., Dewson, G., Pellegrini, M., Lessene, G., Komander, D. (2020). Mechanism and inhibition of the papain-like protease, PLpro, of SARS-CoV-2. Embo J., 39, e106275-e106275. PMID: 32845033. DOI: 10.15252/embj.2020106275  
Adams, P.D., Afonine, P.V., Bunkoczi, G., Chen, V.B., Davis, I.W., Echols, N.,
Headd, J.J., Hung, L.W., Kapral, G.J., Grosse-Kunstleve, R.W., McCoy, A.J.,
Moriarty, N.W., Oeffner, R., Read, R.J., Richardson, D.C., Richardson, J.S.,
Terwilliger, T.C., Zwart, P.H. (2010). PHENIX: a comprehensive Python-based
system for macromolecular structure solution. Acta Crystallogr. D Biol.
Crystallogr., 66, 213-221. PMID: 20124702. DOI: 10.1107/S0907444909052925  
Non-standard residues | AYE — prop-2-en-1-amine (allylamine)  
GOL — glycerol (glycerin; propane-1,2,3-triol)  
ZN — zinc ion  
Gene sources | Severe acute respiratory syndrome coronavirus 2 (2019-ncov)  
Homo sapiens (human)  
Experimental method | X-ray diffraction  
Resolution | 2.90Å  
  
> log chains #1

Chain information for 6xa9 #1  
---  
Chain | Description | UniProt  
A C E | Non-structural protein 3 | R1AB_SARS2 0-315  
B D F | ISG15 CTD-propargylamide | ISG15_HUMAN 79-157  
  

> sequence chain #1/A#1/C#1/E

Alignment identifier is 1  

> hide surfaces

> hide cartoons

> hide atoms

[Repeated 2 time(s)]

> show atoms

> interfaces ~solvent

6 buried areas: E F 906, C D 890, A B 884, A C 620, A E 359, E D 350  

> interfaces ~solvent

6 buried areas: E F 906, C D 890, A B 884, A C 620, A E 359, E D 350  

> style ball

Changed 8957 atom styles  

> style stick

Changed 8957 atom styles  

> style sphere

Changed 8957 atom styles  

> style stick

Changed 8957 atom styles  

> show cartoons

> show atoms

> hide cartoons

> show cartoons

> nucleotides atoms

> style nucleic stick

Changed 0 atom styles  

> nucleotides atoms

> style nucleic stick

Changed 0 atom styles  

> nucleotides atoms

> style nucleic stick

Changed 0 atom styles  

> nucleotides fill

> style nucleic stick

Changed 0 atom styles  

> hide surfaces

[Repeated 3 time(s)]

> hide atoms

[Repeated 1 time(s)]

> hide surfaces

> hide cartoons

[Repeated 1 time(s)]

> show cartoons

> color bychain

Alignment identifier is 1  
Alignment identifier is 2  

> select clear

> select /A,C:2-296/E:5-296

6703 atoms, 6866 bonds, 1 pseudobond, 880 residues, 2 models selected  

> select /A,C:2-4

44 atoms, 42 bonds, 6 residues, 1 model selected  

> select /A,C:2

14 atoms, 12 bonds, 2 residues, 1 model selected  

> select
> /A,C:4-10,17-22,34-36,39-40,54-57,97-98,101-102,182-189,193-200,206-208,220-223,229-238,241-254,260-267,270-278,282-286,289-293,295-306,309-311/E:5-10,17-22,34-36,39-40,54-57,97-98,101-102,182-189,193-200,206-208,220-223,229-238,241-254,260-267,270-278,282-286,289-293,295-306,309-311

2616 atoms, 2625 bonds, 344 residues, 1 model selected  

> select clear

> show #!1 target m

> hide #1.1 models

> show #1.1 models

> sym #1

6xa9 mmCIF Assemblies  
---  
1| author_and_software_defined_assembly| 1 copy of chains A,B  
2| author_and_software_defined_assembly| 1 copy of chains C,D  
3| author_and_software_defined_assembly| 1 copy of chains E,F  
  

> log metadata #1

Metadata for 6xa9 #1  
---  
Title | SARS CoV-2 PLpro in complex with ISG15 C-terminal domain propargylamide  
Citations | Klemm, T., Ebert, G., Calleja, D.J., Allison, C.C., Richardson, L.W., Bernardini, J.P., Lu, B.G., Kuchel, N.W., Grohmann, C., Shibata, Y., Gan, Z.Y., Cooney, J.P., Doerflinger, M., Au, A.E., Blackmore, T.R., van der Heden van Noort, G.J., Geurink, P.P., Ovaa, H., Newman, J., Riboldi-Tunnicliffe, A., Czabotar, P.E., Mitchell, J.P., Feltham, R., Lechtenberg, B.C., Lowes, K.N., Dewson, G., Pellegrini, M., Lessene, G., Komander, D. (2020). Mechanism and inhibition of the papain-like protease, PLpro, of SARS-CoV-2. Embo J., 39, e106275-e106275. PMID: 32845033. DOI: 10.15252/embj.2020106275  
Adams, P.D., Afonine, P.V., Bunkoczi, G., Chen, V.B., Davis, I.W., Echols, N.,
Headd, J.J., Hung, L.W., Kapral, G.J., Grosse-Kunstleve, R.W., McCoy, A.J.,
Moriarty, N.W., Oeffner, R., Read, R.J., Richardson, D.C., Richardson, J.S.,
Terwilliger, T.C., Zwart, P.H. (2010). PHENIX: a comprehensive Python-based
system for macromolecular structure solution. Acta Crystallogr. D Biol.
Crystallogr., 66, 213-221. PMID: 20124702. DOI: 10.1107/S0907444909052925  
Non-standard residues | AYE — prop-2-en-1-amine (allylamine)  
GOL — glycerol (glycerin; propane-1,2,3-triol)  
ZN — zinc ion  
Gene sources | Severe acute respiratory syndrome coronavirus 2 (2019-ncov)  
Homo sapiens (human)  
Experimental method | X-ray diffraction  
Resolution | 2.90Å  
  
> log chains #1

Chain information for 6xa9 #1  
---  
Chain | Description | UniProt  
A C E | Non-structural protein 3 | R1AB_SARS2 0-315  
B D F | ISG15 CTD-propargylamide | ISG15_HUMAN 79-157  
  

> select /A:2-314

2418 atoms, 2477 bonds, 313 residues, 1 model selected  

> select /A:2-314

2418 atoms, 2477 bonds, 313 residues, 1 model selected  

> select /A:2-314

2418 atoms, 2477 bonds, 313 residues, 1 model selected  

> select /C:2-314

2392 atoms, 2451 bonds, 313 residues, 1 model selected  

> select /C:2-314

2392 atoms, 2451 bonds, 313 residues, 1 model selected  

> select /A:2-314

2418 atoms, 2477 bonds, 313 residues, 1 model selected  

> select /C:2-314

2392 atoms, 2451 bonds, 313 residues, 1 model selected  

> select /E:5-313

2299 atoms, 2356 bonds, 1 pseudobond, 307 residues, 2 models selected  

> select /B:78-157

623 atoms, 634 bonds, 80 residues, 1 model selected  

> select /A:2-314

2418 atoms, 2477 bonds, 313 residues, 1 model selected  

> select /B:78-157

623 atoms, 634 bonds, 80 residues, 1 model selected  

> select chain a,b

Expected an objects specifier or a keyword  

> sel/chain a,b

Unknown command: sel/chain a,b  

> view #1 clip false

Alignment identifier is 1/B  

> select add #1.1

623 atoms, 634 bonds, 12 pseudobonds, 80 residues, 2 models selected  

> select add #1

8957 atoms, 9125 bonds, 13 pseudobonds, 1212 residues, 3 models selected  

> select subtract #1

Nothing selected  

> select add #1

8957 atoms, 9125 bonds, 13 pseudobonds, 1212 residues, 3 models selected  

> select subtract #1

Nothing selected  

> select add #1.1

12 pseudobonds, 1 model selected  

> select subtract #1.1

Nothing selected  

> select /A

2445 atoms, 2492 bonds, 4 pseudobonds, 325 residues, 2 models selected  

> select /B

624 atoms, 634 bonds, 81 residues, 1 model selected  

> select /A

2445 atoms, 2492 bonds, 4 pseudobonds, 325 residues, 2 models selected  

> select /D

589 atoms, 600 bonds, 79 residues, 1 model selected  

> cartoon hide sel

> select /D

589 atoms, 600 bonds, 79 residues, 1 model selected  

> select /D

589 atoms, 600 bonds, 79 residues, 1 model selected  

> select /A

2445 atoms, 2492 bonds, 4 pseudobonds, 325 residues, 2 models selected  

> select /C

2427 atoms, 2466 bonds, 4 pseudobonds, 333 residues, 2 models selected  

> cartoon hide (#!1 & sel)

> select /E

2317 atoms, 2366 bonds, 5 pseudobonds, 315 residues, 3 models selected  

> cartoon hide (#!1 & sel)

> select /F

555 atoms, 564 bonds, 79 residues, 1 model selected  

> cartoon hide sel

> select /B

624 atoms, 634 bonds, 81 residues, 1 model selected  

> color sel lime

> color sel blue

> color sel dark gray

> select /A

2445 atoms, 2492 bonds, 4 pseudobonds, 325 residues, 2 models selected  

> color (#!1 & sel) light sea green

> select /B

624 atoms, 634 bonds, 81 residues, 1 model selected  

> color sel hot pink

> color sel orange

> view sel

> cofr sel

> select clear

> ui tool show ""Show Sequence Viewer""

> sequence chain /A /C /E

Alignment identifier is 1  

> select
> /A,C:26-32,47-51,61-73,78-91,110-121,129-141,144-156,164-175,201-205,212-219/E:26-32,47-50,61-73,78-91,110-121,129-141,144-156,164-175,201-205,212-219

2431 atoms, 2469 bonds, 305 residues, 1 model selected  

> select clear

> save /Users/leoliumcgill/Desktop/isg15.cxs

——— End of log from Mon May 19 02:55:39 2025 ———

opened ChimeraX session  

> delete /c

> delete /e

> lighting simple

> lighting soft

> set bgColor white

> set bgColor gray

> set bgColor black

> set bgColor gray

> lighting full

> lighting flat

> lighting shadows true intensity 0.5

> lighting flat

> lighting shadows true intensity 0.5

> graphics silhouettes false

> lighting simple

> lighting soft

> lighting full

> lighting soft

> lighting flat

> graphics silhouettes false

> lighting shadows true intensity 0.5

> lighting shadows false

> graphics silhouettes true

> lighting shadows true

> lighting flat

> lighting shadows true intensity 0.5

> lighting shadows false

> graphics silhouettes false

> lighting shadows true

> lighting shadows false

> lighting shadows true

> lighting shadows false

> lighting shadows true

> lighting shadows false

> lighting flat

> lighting shadows true intensity 0.5

> lighting soft

> lighting simple

[Repeated 3 time(s)]

> lighting soft

> lighting full

[Repeated 2 time(s)]

> lighting soft

> lighting flat

[Repeated 2 time(s)]

> lighting soft

> lighting shadows true intensity 0.5

> graphics silhouettes false

> lighting shadows false

> graphics silhouettes true

> lighting shadows true

> lighting shadows false

> lighting shadows true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> lighting simple

> lighting soft

> lighting simple

[Repeated 2 time(s)]

> lighting soft

[Repeated 1 time(s)]

> lighting full

> lighting soft

> delete /d

> delete /f

Cell requested for row 0 is out of bounds for table with 3 rows! Resizing
table model.  

> hide #1.1 models

> hide #1.2 models

> select subtract #1.2

Nothing selected  

> select add #1.2

Nothing selected  

> select subtract #1.2

Nothing selected  

> ui tool show ""Side View""

[Repeated 1 time(s)]Alignment identifier is 1/A  
Alignment identifier is 1/B  

> select
> /A:26-32,47-51,61-73,78-91,110-121,129-141,144-156,164-174,201-205,212-219

807 atoms, 819 bonds, 101 residues, 1 model selected  

> select
> /A:4-10,17-22,34-36,39-40,54-57,97-98,101-102,182-189,193-200,206-208,220-223,229-238,241-254,260-267,270-278,282-286,289-293,295-306,309-311

893 atoms, 896 bonds, 115 residues, 1 model selected  

> select clear

[Repeated 3 time(s)]

> select
> /A:26-32,47-51,61-73,78-91,110-121,129-141,144-156,164-174,201-205,212-219

807 atoms, 819 bonds, 101 residues, 1 model selected  

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select /A:171-174

40 atoms, 41 bonds, 4 residues, 1 model selected  

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select /A:170-171

18 atoms, 18 bonds, 2 residues, 1 model selected  

> select /A:171-174

40 atoms, 41 bonds, 4 residues, 1 model selected  

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select /A:170-171

18 atoms, 18 bonds, 2 residues, 1 model selected  

> show sel atoms

> color sel purple

> color sel hot pink

> color sel red

> color sel magenta

> color sel hot pink

> select /A:171-174

40 atoms, 41 bonds, 4 residues, 1 model selected  

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> show sel atoms

> color sel hot pink

> select
> /A:26-32,47-51,61-73,78-91,110-121,129-141,144-156,164-174,201-205,212-219

807 atoms, 819 bonds, 101 residues, 1 model selected  

> select /A:261

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select /A:261

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select /A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> show sel atoms

> color sel hot pink

> select clear

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/with labels.cxs""
> includeMaps true

——— End of log from Mon May 19 18:15:08 2025 ———

opened ChimeraX session  

> help help:user

> cartoon style protein modeHelix tube

> cartoon style protein modeHelix tube r=1

Expected a keyword  

> cartoon style protein modeHelix tube (2)

Expected a keyword  

> cartoon style protein modeHelix tube (auto, 2)

Expected a keyword  

> cartoon style protein modeHelix tube (auto, 2)

Expected a keyword  

> cartoon style protein modeHelix tube (auto, default)

Expected a keyword  

> cartoon style protein modeHelix tube radius 2

> cartoon style protein modeHelix tube radius 1

> cartoon style protein modeHelix tube radius 2

> cartoon style protein modeHelix tube radius 1.5

> graphics silhouettes true

> lighting soft

[Repeated 1 time(s)]

> lighting simple

> lighting soft

[Repeated 1 time(s)]

> lighting full

> lighting flat

[Repeated 1 time(s)]

> lighting shadows true intensity 0.5

> lighting shadows false

> lighting soft

> lighting shadows true intensity 0.5

> lighting shadows false

> graphics silhouettes false

> cartoon style protein modeHelix tube radius 1.5 sides 12

> cartoon style protein modeHelix tube radius 1.5 sides 24

> cartoon style protein modeHelix ribbon

Invalid ""modeHelix"" argument: Should be one of 'default', 'tube', or 'wrap'  

> cartoon style protein modeHelix default

> cartoon style protein modeHelix wrap

> cartoon style protein modeHelix tube

> label @@ dispaly

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> label sel text ""{0.name} {0.number}{0.insertion_code}""

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> label sel text ""{0.name} {0.number}{0.insertion_code}""

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select /A:170

6 atoms, 5 bonds, 1 residue, 1 model selected  

> label sel text ""{0.name} {0.number}{0.insertion_code}""

> select /A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> label sel text ""/{0.chain_id} {0.name} {0.number}{0.insertion_code}""

> undo

> select /A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> label sel text ""{0.name} {0.number}{0.insertion_code}""

> select clear

> ui tool show ""Find Cavities""

> select text ""{0.name}{0.number}"" size 48

Expected an objects specifier or a keyword  

> select text ""{0.name}{0.number}"" height 1.5

Expected an objects specifier or a keyword  

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select /A:170

6 atoms, 5 bonds, 1 residue, 1 model selected  

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select text ""{0.name}{0.number}"" height 1.5

Expected an objects specifier or a keyword  

> select text ""{0.name}{0.number}"" height 2

Expected an objects specifier or a keyword  

> label sel text {0.name}{0.number} height 1.5

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> label sel text {0.name}{0.number} height 1.5

> select /A:170

6 atoms, 5 bonds, 1 residue, 1 model selected  

> label sel text {0.name}{0.number} height 1.5

> select /A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> label sel text {0.name}{0.number} height 1.5

> select /A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> label sel attribute label_one_letter_code

> label sel text ""{0.label_one_letter_code} {0.number}{0.insertion_code}""

> select /A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> label sel text ""{0.label_one_letter_code} {0.number}{0.insertion_code}""

> select /A:170

6 atoms, 5 bonds, 1 residue, 1 model selected  

> label sel text ""{0.label_one_letter_code} {0.number}{0.insertion_code}""

> select /A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> label sel text ""{0.label_one_letter_code} {0.number}{0.insertion_code}""

> select clear

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15-2.cxs""

——— End of log from Mon May 19 20:28:28 2025 ———

opened ChimeraX session  

> open "" 6yva"" fromDatabase pdb format mmcif

PDB identifiers are either 4 or 8 characters long, got "" 6yva""  

> open 6yva fromDatabase pdb format mmcif

6yva title:  
PLpro-C111S with mISG15 [more info...]  
  
Chain information for 6yva #2  
---  
Chain | Description | UniProt  
A | Replicase polyprotein 1a | R1A_SARS2 1-315  
C | Ubiquitin-like protein ISG15 | ISG15_MOUSE 1-161  
  
Non-standard residues in 6yva #2  
---  
ZN — zinc ion  
  
6 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> view

> ui tool show Matchmaker

> matchmaker #!2 to #1

Computing secondary structure  
Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6xa9, chain A (#1) with 6yva, chain A (#2), sequence alignment
score = 1439.8  
RMSD between 250 pruned atom pairs is 0.689 angstroms; (across all 282 pairs:
1.394)  
  

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> cartoon style protein modeHelix tube/default/warp rad 2

Invalid ""modeHelix"" argument: Should be one of 'default', 'tube', or 'wrap'  

> cartoon style protein modeHelix tube radius 2

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> cartoon style protein modeHelix tube radius 1.5

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> hide #!1 models

> show #!1 models

> show #!2 models

> hide #!2 models

> show #!2 models

Cell requested for row 0 is out of bounds for table with 3 rows! Resizing
table model.  

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> select #2/A

2196 atoms, 2233 bonds, 2 pseudobonds, 300 residues, 2 models selected  

> color (#!2 & sel) forest green

> color (#!2 & sel) light sea green

> color (#!2 & sel) dim gray

> color (#!2 & sel) cyan

> color (#!2 & sel) light sea green

> color (#!2 & sel) cornflower blue

> color (#!2 & sel) lime

> color (#!2 & sel) gray

> color (#!2 & sel) blue

> color (#!2 & sel) #edfff0ff

> color (#!2 & sel) #ecfff0ff

[Repeated 1 time(s)]

> color (#!2 & sel) #defff0ff

> color (#!2 & sel) #c9ffeeff

> color (#!2 & sel) #c0ffeeff

> color (#!2 & sel) #adffeeff

> color (#!2 & sel) #acffeeff

> color (#!2 & sel) #abffeeff

> color (#!2 & sel) #a6ffefff

> color (#!2 & sel) #a3ffefff

> color (#!2 & sel) #a0ffefff

> color (#!2 & sel) #87ffedff

> color (#!2 & sel) #77ffebff

> color (#!2 & sel) #74ffeaff

> color (#!2 & sel) #73ffeaff

[Repeated 1 time(s)]

> color (#!2 & sel) #73ffe9ff

> color (#!2 & sel) #73ffe8ff

> color (#!2 & sel) #73ffe7ff

> color (#!2 & sel) #73ffe4ff

> color (#!2 & sel) #73ffe3ff

> color (#!2 & sel) #74ffe1ff

> color (#!2 & sel) #73ffe0ff

> color (#!2 & sel) #74ffdeff

[Repeated 1 time(s)]

> color (#!2 & sel) #74ffddff

> color (#!2 & sel) #74ffdbff

> color (#!2 & sel) #76ffdaff

> color (#!2 & sel) #77ffd8ff

> color (#!2 & sel) #79ffd7ff

> color (#!2 & sel) #7affd7ff

> color (#!2 & sel) #7bffd7ff

> color (#!2 & sel) #86ffd7ff

> color (#!2 & sel) #91ffdaff

> color (#!2 & sel) #9dffdcff

> color (#!2 & sel) #a7ffe0ff

[Repeated 1 time(s)]

> color (#!2 & sel) #a8ffe0ff

> color (#!2 & sel) #a8ffe1ff

[Repeated 1 time(s)]

> color (#!2 & sel) #a9ffe2ff

> color (#!2 & sel) #a9ffe3ff

[Repeated 2 time(s)]

> color (#!2 & sel) #a9ffe4ff

> color (#!2 & sel) #a8ffe5ff

> color (#!2 & sel) #a9ffe5ff

> color (#!2 & sel) #a9ffe6ff

> color (#!2 & sel) #a8ffe6ff

> color (#!2 & sel) #a8ffe8ff

> color (#!2 & sel) #a8ffe9ff

> color (#!2 & sel) #a7ffe9ff

> color (#!2 & sel) #a6ffebff

> color (#!2 & sel) #a5ffecff

> color (#!2 & sel) #a5ffedff

> color (#!2 & sel) #a5ffeeff

> color (#!2 & sel) #a4ffeeff

> color (#!2 & sel) #a4ffefff

> color (#!2 & sel) #9afff3ff

> color (#!2 & sel) #8bfff6ff

> color (#!2 & sel) #7bfffaff

> color (#!2 & sel) #72fffaff

> color (#!2 & sel) #69fffcff

> color (#!2 & sel) #67fffcff

[Repeated 1 time(s)]

> color (#!2 & sel) #67fffdff

> color (#!2 & sel) #66fffdff

> color (#!2 & sel) #64fffeff

> color (#!2 & sel) #61feffff

> color (#!2 & sel) #5efdffff

> color (#!2 & sel) #5bfbffff

> color (#!2 & sel) #55f6ffff

> color (#!2 & sel) #4cf4ffff

> color (#!2 & sel) #46f2ffff

> color (#!2 & sel) #44f1ffff

> color (#!2 & sel) #43f1ffff

> color (#!2 & sel) #43f2ffff

> color (#!2 & sel) #43f3ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #43f4ffff

> color (#!2 & sel) #43f5ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #44f7ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #44f8ffff

> color (#!2 & sel) #45f9ffff

> color (#!2 & sel) #45fbffff

> color (#!2 & sel) #46fbffff

> color (#!2 & sel) #46fcffff

> color (#!2 & sel) #47fcffff

[Repeated 1 time(s)]

> color (#!2 & sel) #47fbffff

> color (#!2 & sel) #46f6ffff

> color (#!2 & sel) #46f4ffff

> color (#!2 & sel) #45f1ffff

> color (#!2 & sel) #45efffff

> color (#!2 & sel) #44ebffff

> color (#!2 & sel) #40dfffff

> color (#!2 & sel) #3fd5ffff

> color (#!2 & sel) #3dd2ffff

> color (#!2 & sel) #3acdffff

> color (#!2 & sel) #39c7ffff

> color (#!2 & sel) #38c6ffff

> color (#!2 & sel) #36c0ffff

> color (#!2 & sel) #35bbffff

> color (#!2 & sel) #34bbffff

> color (#!2 & sel) #33b9ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #33b8ffff

> color (#!2 & sel) #33b9ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #34baffff

[Repeated 1 time(s)]

> color (#!2 & sel) #34bbffff

> color (#!2 & sel) #35bcffff

> color (#!2 & sel) #35beffff

> color (#!2 & sel) #38cdffff

> color (#!2 & sel) #3cddffff

> color (#!2 & sel) #3ce9ffff

> color (#!2 & sel) #3cfbffff

> color (#!2 & sel) #39fff7ff

> color (#!2 & sel) #37ffe2ff

> color (#!2 & sel) #37ffdfff

> color (#!2 & sel) #36ffdeff

> color (#!2 & sel) #36ffd9ff

> color (#!2 & sel) #35ffd8ff

> color (#!2 & sel) #35ffd7ff

[Repeated 1 time(s)]

> color (#!2 & sel) #35ffd6ff

> color (#!2 & sel) #35ffd5ff

> color (#!2 & sel) #35ffd4ff

> color (#!2 & sel) #35ffd3ff

> color (#!2 & sel) #35ffcfff

> color (#!2 & sel) #34ffceff

> color (#!2 & sel) #34ffcdff

> color (#!2 & sel) #34ffccff

> color (#!2 & sel) #34ffcbff

> color (#!2 & sel) #34ffcaff

> color (#!2 & sel) #33ffc7ff

> color (#!2 & sel) #33ffb7ff

> color (#!2 & sel) #30ffa7ff

> color (#!2 & sel) #2bff8bff

> color (#!2 & sel) #2aff84ff

> color (#!2 & sel) #2aff80ff

> color (#!2 & sel) #2aff81ff

> color (#!2 & sel) #2aff82ff

> color (#!2 & sel) #2eff88ff

> color (#!2 & sel) #34ff92ff

> color (#!2 & sel) #3cff9cff

> color (#!2 & sel) #45ffa9ff

> color (#!2 & sel) #47ffacff

> color (#!2 & sel) #54ffb6ff

> color (#!2 & sel) #58ffb8ff

> color (#!2 & sel) #59ffb9ff

> color (#!2 & sel) #5bffb9ff

> color (#!2 & sel) #5dffbbff

> color (#!2 & sel) #5effbbff

> color (#!2 & sel) #60ffbdff

> color (#!2 & sel) #63ffc0ff

> color (#!2 & sel) #67ffc4ff

> color (#!2 & sel) #6dffc9ff

> color (#!2 & sel) #6fffcaff

> color (#!2 & sel) #71ffccff

> color (#!2 & sel) #73ffceff

> color (#!2 & sel) #75ffcfff

> color (#!2 & sel) #77ffd1ff

> color (#!2 & sel) #7affd4ff

> color (#!2 & sel) #7cffd5ff

> color (#!2 & sel) #7fffd7ff

> color (#!2 & sel) #93ffdeff

> color (#!2 & sel) #a4ffe3ff

> color (#!2 & sel) #a7ffe3ff

> color (#!2 & sel) #b2ffe3ff

> color (#!2 & sel) #b4ffe4ff

> color (#!2 & sel) #b4ffe3ff

> color (#!2 & sel) #b5ffe4ff

[Repeated 1 time(s)]

> color (#!2 & sel) #b6ffe4ff

> color (#!2 & sel) #b7ffd2ff

> color (#!2 & sel) #b4ffc7ff

> color (#!2 & sel) #a7ffa9ff

> color (#!2 & sel) #a7ffa5ff

> color (#!2 & sel) #a5ff94ff

> color (#!2 & sel) #a4ff8eff

> color (#!2 & sel) #a3ff8bff

> color (#!2 & sel) #a3ff8cff

> color (#!2 & sel) #a4ff8cff

> color (#!2 & sel) #a3ff91ff

> color (#!2 & sel) #a5ff99ff

> color (#!2 & sel) #a8ffaaff

> color (#!2 & sel) #baffcbff

> color (#!2 & sel) #bdffd3ff

> color (#!2 & sel) #c3ffddff

> color (#!2 & sel) #c5ffe0ff

> color (#!2 & sel) #ccfff4ff

> color (#!2 & sel) #cdfff7ff

> color (#!2 & sel) #cdfffdff

> color (#!2 & sel) #cefdffff

> color (#!2 & sel) #cefcffff

[Repeated 1 time(s)]

> color (#!2 & sel) #cdfbffff

[Repeated 1 time(s)]

> color (#!2 & sel) #ccfaffff

> color (#!2 & sel) #cbfaffff

> color (#!2 & sel) #c1f9ffff

> color (#!2 & sel) #b7f7ffff

> color (#!2 & sel) #adf5ffff

> color (#!2 & sel) #97f1ffff

> color (#!2 & sel) #7aedffff

> color (#!2 & sel) #74edffff

> color (#!2 & sel) #60e6ffff

> color (#!2 & sel) #50e3ffff

> color (#!2 & sel) #49e0ffff

> color (#!2 & sel) #45deffff

> color (#!2 & sel) #44deffff

> color (#!2 & sel) #43deffff

> color (#!2 & sel) #42deffff

[Repeated 1 time(s)]

> color (#!2 & sel) #41deffff

> color (#!2 & sel) #3edeffff

> color (#!2 & sel) #3adeffff

> color (#!2 & sel) #36deffff

> color (#!2 & sel) #35deffff

> color (#!2 & sel) #34ddffff

> color (#!2 & sel) #33ddffff

> color (#!2 & sel) #32ddffff

[Repeated 1 time(s)]

> color (#!2 & sel) #30ddffff

> color (#!2 & sel) #2bdfffff

> color (#!2 & sel) #28dfffff

> color (#!2 & sel) #28e0ffff

> color (#!2 & sel) #26e0ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #26e1ffff

> color (#!2 & sel) #26e2ffff

> color (#!2 & sel) #25e2ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #26e3ffff

> color (#!2 & sel) #26e4ffff

> color (#!2 & sel) #25e5ffff

> color (#!2 & sel) #25e6ffff

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> color (#!2 & sel) #25ecffff

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> color (#!2 & sel) #25fff1ff

[Repeated 1 time(s)]

> color (#!2 & sel) #25fff0ff

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[Repeated 1 time(s)]

> color (#!2 & sel) #25ffeeff

> color (#!2 & sel) #25ffedff

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> color (#!2 & sel) #24ffebff

[Repeated 1 time(s)]

> color (#!2 & sel) #24ffeaff

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> color (#!2 & sel) #1affd3ff

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> color (#!2 & sel) #15ffccff

> color (#!2 & sel) #14ffcbff

> color (#!2 & sel) #14ffcaff

[Repeated 1 time(s)]

> color (#!2 & sel) #13ffc9ff

[Repeated 1 time(s)]

> color (#!2 & sel) #12ffcaff

> color (#!2 & sel) #11ffccff

> color (#!2 & sel) #11ffcdff

> color (#!2 & sel) #10ffceff

> color (#!2 & sel) #0fffcfff

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> color (#!2 & sel) #0affd2ff

> color (#!2 & sel) #09ffd2ff

> color (#!2 & sel) #05ffd3ff

> color (#!2 & sel) #01ffd4ff

[Repeated 1 time(s)]

> color (#!2 & sel) #00ffd4ff

> color (#!2 & sel) #00ffd5ff

[Repeated 2 time(s)]

> color (#!2 & sel) #00ffd6ff

> color (#!2 & sel) #00ffd7ff

[Repeated 2 time(s)]

> color (#!2 & sel) #00ffd8ff

[Repeated 2 time(s)]

> color (#!2 & sel) #00ffd9ff

> color (#!2 & sel) #00ffdcff

> color (#!2 & sel) #00ffdfff

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> color (#!2 & sel) #00fcffff

> color (#!2 & sel) #00efffff

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> color (#!2 & sel) #00ddffff

> color (#!2 & sel) #00e9ffff

> color (#!2 & sel) #00fffcff

> color (#!2 & sel) #00ffe6ff

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> color (#!2 & sel) #00ffbaff

> color (#!2 & sel) #00ffa6ff

> color (#!2 & sel) #00ffa3ff

> color (#!2 & sel) #00ffa0ff

> color (#!2 & sel) #00ff9fff

> color (#!2 & sel) #00ff9cff

> color (#!2 & sel) #00ff99ff

> color (#!2 & sel) #00ff95ff

> color (#!2 & sel) #00ff92ff

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> color (#!2 & sel) #3bff87ff

> color (#!2 & sel) #6aff7aff

> color (#!2 & sel) #88ff74ff

> color (#!2 & sel) #9bff73ff

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> color (#!2 & sel) #9eff71ff

> color (#!2 & sel) #9eff70ff

> color (#!2 & sel) #9fff70ff

[Repeated 1 time(s)]

> color (#!2 & sel) #abff70ff

> color (#!2 & sel) #b9ff74ff

> color (#!2 & sel) #bdff6eff

> color (#!2 & sel) #d4ff6bff

> color (#!2 & sel) #d9ff6aff

> color (#!2 & sel) #dbff68ff

> color (#!2 & sel) #dcff68ff

> color (#!2 & sel) #dcff69ff

[Repeated 1 time(s)]

> color (#!2 & sel) #dcff6bff

> color (#!2 & sel) #ddff6fff

> color (#!2 & sel) #e2ff7cff

> color (#!2 & sel) #e3ff82ff

> color (#!2 & sel) #e5ff85ff

> color (#!2 & sel) #e6ff88ff

> color (#!2 & sel) #e6ff89ff

> color (#!2 & sel) #e7ff89ff

> color (#!2 & sel) #e7ff8aff

> color (#!2 & sel) #e7ff8bff

> color (#!2 & sel) #eaff91ff

> color (#!2 & sel) #faffaeff

> color (#!2 & sel) #fffebaff

> color (#!2 & sel) #ffe4ceff

> color (#!2 & sel) #ffdfceff

> color (#!2 & sel) #ffdeccff

> color (#!2 & sel) #ffddccff

> color (#!2 & sel) #ffddcbff

> color (#!2 & sel) #ffddcaff

> color (#!2 & sel) #ffddc9ff

[Repeated 1 time(s)]

> color (#!2 & sel) #ffdcc8ff

[Repeated 1 time(s)]

> color (#!2 & sel) #ffdbc6ff

> color (#!2 & sel) #ffc9b8ff

> color (#!2 & sel) #ffc1b3ff

> color (#!2 & sel) #ffb1a7ff

> color (#!2 & sel) #ff9c98ff

> color (#!2 & sel) #ff8f8eff

> color (#!2 & sel) #ff888aff

> color (#!2 & sel) #ff757fff

> color (#!2 & sel) #ff6477ff

> color (#!2 & sel) #ff5e73ff

> color (#!2 & sel) #ff5069ff

> color (#!2 & sel) #ff4d66ff

> color (#!2 & sel) #ff4b65ff

[Repeated 1 time(s)]

> color (#!2 & sel) #ff4a64ff

> color (#!2 & sel) #ff4a63ff

> color (#!2 & sel) #ff4a62ff

> color (#!2 & sel) #ff4961ff

> color (#!2 & sel) #ff4a62ff

> color (#!2 & sel) #ff4a63ff

> color (#!2 & sel) #ff4b63ff

> color (#!2 & sel) #ff4c64ff

> color (#!2 & sel) #ff4d64ff

[Repeated 1 time(s)]

> color (#!2 & sel) #ff4f65ff

> color (#!2 & sel) #ff5065ff

> color (#!2 & sel) #ff5165ff

> color (#!2 & sel) #ff5466ff

> color (#!2 & sel) #ff5566ff

> color (#!2 & sel) #ff5866ff

> color (#!2 & sel) #ff5f67ff

> color (#!2 & sel) #ff6467ff

> color (#!2 & sel) #ff6e6bff

> color (#!2 & sel) #ff736eff

> color (#!2 & sel) #ff7972ff

> color (#!2 & sel) #ff7b73ff

> color (#!2 & sel) #ff7c73ff

> color (#!2 & sel) #ff8075ff

> color (#!2 & sel) #ff8377ff

> color (#!2 & sel) #ff8778ff

> color (#!2 & sel) #ff897aff

> color (#!2 & sel) #ff8b7aff

> color (#!2 & sel) #ff8e7bff

> color (#!2 & sel) #ff997dff

> color (#!2 & sel) #ff9d7eff

> color (#!2 & sel) #ff9f7eff

> color (#!2 & sel) #ffa17eff

> color (#!2 & sel) #ffa27dff

> color (#!2 & sel) #ffa37dff

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> color (#!2 & sel) #ffa37eff

> color (#!2 & sel) #ffa47fff

> color (#!2 & sel) #ff9d8aff

> color (#!2 & sel) #ff9b91ff

> color (#!2 & sel) #ff999eff

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> color (#!2 & sel) #ff9cc1ff

> color (#!2 & sel) #ff9bc2ff

> color (#!2 & sel) #ff9bc3ff

> color (#!2 & sel) #ff9ac5ff

[Repeated 1 time(s)]

> color (#!2 & sel) #ff9ac7ff

> color (#!2 & sel) #ff99c9ff

> color (#!2 & sel) #ff99caff

> color (#!2 & sel) #ff99cbff

> color (#!2 & sel) #ff99ceff

> color (#!2 & sel) #ff9ad1ff

> color (#!2 & sel) #ff9ad3ff

> color (#!2 & sel) #ff9be0ff

> color (#!2 & sel) #ff9ce3ff

> color (#!2 & sel) #ff9ce4ff

> color (#!2 & sel) #ff9de6ff

> color (#!2 & sel) #ff9de7ff

> color (#!2 & sel) #ff9debff

> color (#!2 & sel) #ff9dedff

> color (#!2 & sel) #ff9defff

> color (#!2 & sel) #ff9ef3ff

> color (#!2 & sel) #ff9df7ff

> color (#!2 & sel) #ff9df8ff

> color (#!2 & sel) #ff9dfaff

> color (#!2 & sel) #fc9affff

> color (#!2 & sel) #f998ffff

> color (#!2 & sel) #f896ffff

> color (#!2 & sel) #ef8affff

> color (#!2 & sel) #ec85ffff

> color (#!2 & sel) #eb83ffff

> color (#!2 & sel) #eb6dffff

> color (#!2 & sel) #eb6affff

> color (#!2 & sel) #ec63ffff

> color (#!2 & sel) #ef54ffff

> color (#!2 & sel) #f050ffff

> color (#!2 & sel) #f04effff

> color (#!2 & sel) #f14cffff

> color (#!2 & sel) #f24affff

[Repeated 1 time(s)]

> color (#!2 & sel) #f249ffff

> color (#!2 & sel) #f248ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #f247ffff

> color (#!2 & sel) #f146ffff

[Repeated 2 time(s)]

> color (#!2 & sel) #ef47ffff

[Repeated 1 time(s)]

> color (#!2 & sel) #e94bffff

> color (#!2 & sel) #da53ffff

> color (#!2 & sel) #d555ffff

> color (#!2 & sel) #d356ffff

> color (#!2 & sel) #d257ffff

> color (#!2 & sel) #d057ffff

> color (#!2 & sel) #ce59ffff

> color (#!2 & sel) #c95affff

> color (#!2 & sel) #c75bffff

> color (#!2 & sel) #c35cffff

> color (#!2 & sel) #c35dffff

> color (#!2 & sel) #c25dffff

[Repeated 1 time(s)]

> color (#!2 & sel) #c25effff

> color (#!2 & sel) #c15effff

[Repeated 1 time(s)]

> color (#!2 & sel) #c366ffff

> color (#!2 & sel) #c670ffff

> color (#!2 & sel) #d490ffff

> color (#!2 & sel) #e1aaffff

> color (#!2 & sel) #ffd5ffff

> color (#!2 & sel) #ffe9d6ff

> color (#!2 & sel) #fff3bbff

> color (#!2 & sel) #fffd8bff

> color (#!2 & sel) #f9ff6aff

> color (#!2 & sel) #f6ff61ff

> color (#!2 & sel) #f5ff57ff

> color (#!2 & sel) #f4ff56ff

> color (#!2 & sel) #f4ff55ff

> color (#!2 & sel) #f4ff54ff

> color (#!2 & sel) #f3ff52ff

> color (#!2 & sel) #f4ff4eff

> color (#!2 & sel) #f4ff4bff

> color (#!2 & sel) #f4ff4aff

> color (#!2 & sel) #f4ff49ff

[Repeated 1 time(s)]

> color (#!2 & sel) #f3ff48ff

> color (#!2 & sel) #f3ff47ff

> color (#!2 & sel) #f1ff45ff

> color (#!2 & sel) #f0ff44ff

> color (#!2 & sel) #edff43ff

[Repeated 1 time(s)]

> color (#!2 & sel) #ecff42ff

> color (#!2 & sel) #ebff42ff

> color (#!2 & sel) #e8ff42ff

> color (#!2 & sel) #e7ff41ff

> color (#!2 & sel) #e5ff42ff

> color (#!2 & sel) #e4ff41ff

> color (#!2 & sel) #e3ff42ff

> color (#!2 & sel) #e2ff42ff

> color (#!2 & sel) #deff42ff

> color (#!2 & sel) #dcff43ff

> color (#!2 & sel) #ceff47ff

> color (#!2 & sel) #c3ff4aff

> color (#!2 & sel) #b0ff54ff

> color (#!2 & sel) #abff56ff

> color (#!2 & sel) #a0ff5dff

[Repeated 1 time(s)]

> color (#!2 & sel) #a1ff5fff

> color (#!2 & sel) #a2ff65ff

> color (#!2 & sel) #a4ff6bff

> color (#!2 & sel) #a4ff70ff

> color (#!2 & sel) #a4ff72ff

> color (#!2 & sel) #a5ff76ff

> color (#!2 & sel) #a5ff78ff

> color (#!2 & sel) #a4ff78ff

> color (#!2 & sel) #a4ff79ff

> color (#!2 & sel) #a4ff7aff

> color (#!2 & sel) #a3ff7dff

> color (#!2 & sel) #a2ff82ff

> color (#!2 & sel) #a2ff83ff

> color (#!2 & sel) #a2ff84ff

> color (#!2 & sel) #a2ff83ff

[Repeated 1 time(s)]

> color (#!2 & sel) #a3ff81ff

> color (#!2 & sel) #a9ff71ff

> color (#!2 & sel) #b0ff59ff

> color (#!2 & sel) #b7ff49ff

> color (#!2 & sel) #b9ff40ff

> color (#!2 & sel) #b9ff3dff

> color (#!2 & sel) #b9ff3bff

> color (#!2 & sel) #b9ff39ff

> color (#!2 & sel) #b9ff38ff

> color (#!2 & sel) #b9ff35ff

> color (#!2 & sel) #b9ff33ff

> color (#!2 & sel) #b9ff32ff

> color (#!2 & sel) #b8ff2eff

> color (#!2 & sel) #b7ff2cff

> color (#!2 & sel) #b6ff2bff

> color (#!2 & sel) #b7ff2bff

> color (#!2 & sel) #b6ff2bff

> color (#!2 & sel) #b1ff2eff

> color (#!2 & sel) #aaff31ff

> color (#!2 & sel) #93ff3aff

> color (#!2 & sel) #82ff3dff

> color (#!2 & sel) #70ff3dff

> color (#!2 & sel) #6aff3fff

> color (#!2 & sel) #69ff3eff

[Repeated 1 time(s)]

> color (#!2 & sel) #68ff3eff

> color (#!2 & sel) #5bff38ff

> color (#!2 & sel) #4fff32ff

> color (#!2 & sel) #1dff22ff

> color (#!2 & sel) #03ff2aff

> color (#!2 & sel) #00ff3eff

> color (#!2 & sel) #00ff42ff

> color (#!2 & sel) #00ff4dff

> color (#!2 & sel) #01ff6eff

> color (#!2 & sel) #08ff7cff

> color (#!2 & sel) #0cff8dff

> color (#!2 & sel) #13ffa8ff

> color (#!2 & sel) #13ffb4ff

> color (#!2 & sel) #13ffb9ff

> color (#!2 & sel) #13ffbaff

> color (#!2 & sel) #13ffbbff

> color (#!2 & sel) #12ffbdff

> color (#!2 & sel) #12ffbeff

> color (#!2 & sel) #12ffbfff

> color (#!2 & sel) #10ffc1ff

> color (#!2 & sel) #09ffc8ff

> color (#!2 & sel) #05ffd0ff

> color (#!2 & sel) #00ffddff

> color (#!2 & sel) #00fff9ff

> color (#!2 & sel) #00fffcff

> color (#!2 & sel) #00ffffff

> color (#!2 & sel) #00fcffff

> color (#!2 & sel) #00f9ffff

> color (#!2 & sel) #00f3ffff

> color (#!2 & sel) #00ecffff

> color (#!2 & sel) #00e9ffff

> color (#!2 & sel) #00e6ffff

> color (#!2 & sel) #00e3ffff

> color (#!2 & sel) #00e0ffff

> color (#!2 & sel) #00ddffff

> color (#!2 & sel) #00d9ffff

> color (#!2 & sel) #00d6ffff

> color (#!2 & sel) #00d3ffff

> color (#!2 & sel) #00d0ffff

> color (#!2 & sel) #00cdffff

> color (#!2 & sel) #00c3ffff

> color (#!2 & sel) #06afffff

> color (#!2 & sel) #22aaffff

> color (#!2 & sel) #28aaffff

> color (#!2 & sel) #2daaffff

> color (#!2 & sel) #2ea9ffff

> color (#!2 & sel) #2fa6ffff

> color (#!2 & sel) #32a0ffff

> color (#!2 & sel) #359fffff

> color (#!2 & sel) #379cffff

[Repeated 1 time(s)]

> color (#!2 & sel) #399affff

> color (#!2 & sel) #3999ffff

> color (#!2 & sel) #3a9affff

[Repeated 1 time(s)]

> color (#!2 & sel) #41a0ffff

> color (#!2 & sel) #44a3ffff

> color (#!2 & sel) #5fb4ffff

> color (#!2 & sel) #83ccffff

> color (#!2 & sel) #96d6ffff

> color (#!2 & sel) #aee2ffff

> color (#!2 & sel) #b1e4ffff

> color (#!2 & sel) #b2e5ffff

> color (#!2 & sel) #b4e7ffff

> color (#!2 & sel) #b5e8ffff

> color (#!2 & sel) #b7e9ffff

> color (#!2 & sel) #b8eaffff

> color (#!2 & sel) #b9ebffff

> color (#!2 & sel) #baedffff

> color (#!2 & sel) #c6f8ffff

> color (#!2 & sel) #c9fcffff

> color (#!2 & sel) #cafeffff

> color (#!2 & sel) #cbfffeff

> color (#!2 & sel) #ccfff6ff

> color (#!2 & sel) #cbfff2ff

> color (#!2 & sel) #cbfff3ff

[Repeated 2 time(s)]

> color (#!2 & sel) #cafff4ff

> color (#!2 & sel) #cbfff5ff

> color (#!2 & sel) #cafff6ff

> color (#!2 & sel) #c9fff6ff

> color (#!2 & sel) #cafff7ff

> color (#!2 & sel) #c9fff7ff

> color (#!2 & sel) #c8fff7ff

> color (#!2 & sel) #c7fff7ff

> color (#!2 & sel) #bbfff7ff

> color (#!2 & sel) #b5fff7ff

> color (#!2 & sel) #9efff5ff

> color (#!2 & sel) #95fff5ff

> color (#!2 & sel) #94fff5ff

[Repeated 1 time(s)]

> color (#!2 & sel) #94fff4ff

> color (#!2 & sel) #93fff3ff

> color (#!2 & sel) #92fff3ff

> color (#!2 & sel) #92fff2ff

> color (#!2 & sel) #91fff1ff

[Repeated 1 time(s)]

> color (#!2 & sel) #90fff0ff

> color (#!2 & sel) #90ffefff

[Repeated 2 time(s)]

> color (#!2 & sel) #8fffefff

> color (#!2 & sel) #8fffeeff

> color (#!2 & sel) #8effeeff

> color (#!2 & sel) #8effedff

[Repeated 1 time(s)]

> color (#!2 & sel) #8dffedff

> color (#!2 & sel) #8dffecff

> color (#!2 & sel) #8dffebff

> color (#!2 & sel) #8cffebff

> color (#!2 & sel) #8bffeaff

[Repeated 2 time(s)]

> color (#!2 & sel) #8affe9ff

[Repeated 1 time(s)]

> color (#!2 & sel) #8affe8ff

> color (#!2 & sel) #89ffe8ff

> color (#!2 & sel) #87ffe7ff

> color (#!2 & sel) #87ffe6ff

> color (#!2 & sel) #87ffe4ff

> color (#!2 & sel) #86ffe3ff

> color (#!2 & sel) #85ffe0ff

> color (#!2 & sel) #83ffddff

> color (#!2 & sel) #82ffdcff

[Repeated 1 time(s)]

> color (#!2 & sel) #81ffdbff

> color (#!2 & sel) #81ffdaff

[Repeated 1 time(s)]

> color (#!2 & sel) #80ffd9ff

> color (#!2 & sel) #80ffd8ff

> color (#!2 & sel) #80ffd9ff

> color (#!2 & sel) #81ffdaff

> color (#!2 & sel) #82ffe5ff

> color (#!2 & sel) #82ffeeff

> color (#!2 & sel) #82fff5ff

> color (#!2 & sel) #82fff9ff

> color (#!2 & sel) #82fffcff

> color (#!2 & sel) #82fffeff

> color (#!2 & sel) #82ffffff

> color (#!2 & sel) #82feffff

> color (#!2 & sel) #82fdffff

> color (#!2 & sel) #82fcffff

> color (#!2 & sel) #82faffff

> color (#!2 & sel) #82f9ffff

> color (#!2 & sel) #82f8ffff

> color (#!2 & sel) #82f9ffff

> color (#!2 & sel) #82faffff

[Repeated 1 time(s)]

> color (#!2 & sel) #83faffff

> color (#!2 & sel) #83fbffff

> color (#!2 & sel) #84fbffff

> color (#!2 & sel) #85fcffff

> color (#!2 & sel) #86fcffff

> color (#!2 & sel) #89fdffff

> color (#!2 & sel) #8afdffff

> color (#!2 & sel) #8dffffff

[Repeated 1 time(s)]

> color (#!2 & sel) #8fffffff

> color (#!2 & sel) #90ffffff

> color (#!2 & sel) #91ffffff

> color (#!2 & sel) #93ffffff

> color (#!2 & sel) #9affffff

> color (#!2 & sel) #a0ffffff

> color (#!2 & sel) #a2ffffff

[Repeated 2 time(s)]

> color (#!2 & sel) #a1fffeff

> color (#!2 & sel) #9ffffdff

> color (#!2 & sel) #9cfffcff

> color (#!2 & sel) #9afffbff

> color (#!2 & sel) #98fffaff

> color (#!2 & sel) #97fffaff

> color (#!2 & sel) #96fff8ff

> color (#!2 & sel) #95fff8ff

> color (#!2 & sel) #92fff7ff

> color (#!2 & sel) #91fff7ff

> select #2/C

1205 atoms, 1216 bonds, 162 residues, 1 model selected  

> color sel #89fff2ff

> color sel #8afff2ff

> color sel #8cfff1ff

> color sel #99ffefff

> color sel #a7ffe8ff

> color sel #bdffe3ff

> color sel #c9ffd9ff

> color sel #dfffcdff

> color sel #f6ffbdff

> color sel #fbffb1ff

> color sel #ffffa8ff

> color sel #fffea2ff

> color sel #fffea0ff

> color sel #fffd9cff

> color sel #fffd9aff

> color sel #fffd99ff

> color sel #fffd98ff

> color sel #fffe97ff

> color sel #fffe96ff

> color sel #fffe94ff

[Repeated 1 time(s)]

> color sel #fffe92ff

> color sel #ffff8fff

> color sel #ffff8eff

> color sel #fdff88ff

> color sel #fbff82ff

> color sel #fbff7fff

> color sel #f5ff6cff

> color sel #f3ff66ff

> color sel #f2ff63ff

> color sel #f0ff60ff

> color sel #f0ff5dff

> color sel #eeff5bff

> color sel #edff59ff

> color sel #edff58ff

> color sel #ecff57ff

> color sel #ecff56ff

> color sel #eaff54ff

> color sel #e9ff53ff

> color sel #e9ff52ff

> color sel #e8ff51ff

[Repeated 1 time(s)]

> color sel #e8ff50ff

> color sel #e7ff50ff

> color sel #e7ff4fff

> color sel #e6ff4eff

> color sel #e6ff4dff

> color sel #e6ff4cff

> color sel #e5ff4cff

> color sel #e5ff4bff

[Repeated 1 time(s)]

> color sel #e4ff4aff

> color sel #e4ff47ff

> color sel #e3ff40ff

> color sel #e4ff3eff

> color sel #e4ff3dff

> color sel #e4ff3cff

[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

> color sel #ffa6afff

[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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> color sel #ff9fccff

> color sel #ff96c8ff

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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> color sel #ffa1c4ff

> color sel #ffa2c4ff

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[Repeated 1 time(s)]

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> color sel #ffa6c3ff

> color sel #ffa7c3ff

[Repeated 1 time(s)]

> color sel #ffa8c3ff

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[Repeated 1 time(s)]

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> color sel #ffabc1ff

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> color sel #ffadc0ff

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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> color sel #ffc9f9ff

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

> color sel #ff6124ff

[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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> color sel #ff7112ff

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> select clear

> select #2/C

1205 atoms, 1216 bonds, 162 residues, 1 model selected  

> color sel #ff8210ff

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 2 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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> color sel #f9ff9fff

> color sel #faff9fff

> color sel #fbffa0ff

> color sel #fffea4ff

> color sel #fffca5ff

> color sel #fffaa6ff

[Repeated 1 time(s)]

> color sel #fff9a7ff

> color sel #fff7a8ff

[Repeated 1 time(s)]

> color sel #fff6a8ff

[Repeated 1 time(s)]

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> color sel #e3feffff

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[Repeated 1 time(s)]

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[Repeated 1 time(s)]

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> color sel #dcffe4ff

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[Repeated 1 time(s)]

> color sel #dbffe2ff

[Repeated 1 time(s)]

> color sel #dbffe1ff

> color sel #deffdcff

> color sel #e5ffddff

> color sel #e8ffddff

> color sel #edffdcff

> color sel #f2ffdaff

> color sel #f2ffd9ff

> color sel #f3ffd9ff

> color sel #f3ffd8ff

> color sel #f6ffd4ff

> color sel #f7ffd3ff

> color sel #f8ffd0ff

> color sel #faffceff

> color sel #feffc8ff

> color sel #ffffc7ff

[Repeated 1 time(s)]

> color sel #fffec6ff

> color sel #fffec5ff

[Repeated 1 time(s)]

> color sel #fffec4ff

> color sel #fffdc4ff

> color sel #fffdc3ff

> color sel #fffcc3ff

> color sel #fffcc2ff

[Repeated 2 time(s)]

> color sel #fff9c0ff

> color sel #fff5bbff

> color sel #fff4baff

> color sel #fff2b7ff

> color sel #ffeeb2ff

> color sel #ffedb0ff

> color sel #ffecafff

> color sel #ffebafff

> color sel #ffe9acff

> color sel #ffe9abff

[Repeated 1 time(s)]

> color sel #ffe8aaff

[Repeated 1 time(s)]

> color sel #ffe8a9ff

> color sel #fff394ff

> color sel #fff68bff

> color sel #fbff6aff

> color sel #f7ff62ff

> color sel #f5ff5cff

> color sel #f4ff5bff

[Repeated 1 time(s)]

> color sel #f3ff5aff

> color sel #f3ff59ff

> color sel #f3ff52ff

> color sel #efff37ff

> color sel #f0ff2eff

> color sel #eeff15ff

> color sel #eeff12ff

> color sel #eeff0bff

> color sel #edff0aff

> color sel #eeff09ff

> color sel #edff09ff

> color sel #edff08ff

> color sel #edff07ff

> color sel #ecff07ff

> color sel #ecff06ff

> color sel #ebff06ff

> color sel #ebff07ff

> color sel #eaff07ff

[Repeated 1 time(s)]

> color sel #e9ff08ff

[Repeated 1 time(s)]

> color sel #e8ff08ff

[Repeated 1 time(s)]

> color sel #e7ff0aff

> color sel #e6ff0aff

> color sel #e3ff0bff

> color sel #d9ff10ff

> color sel #c7ff14ff

> color sel #bcff17ff

> color sel #abff1aff

> color sel #9fff1cff

> color sel #99ff1bff

> color sel #98ff1bff

> color sel #83ff18ff

> color sel #7aff18ff

> color sel #66ff16ff

> color sel #33ff08ff

> color sel #32ff08ff

> color sel #30ff07ff

> color sel #31ff08ff

> color sel #35ff0bff

> color sel #39ff0cff

> color sel #41ff11ff

> color sel #4aff16ff

> color sel #5bff20ff

> color sel #72ff2dff

> color sel #8eff39ff

> color sel #caff56ff

> color sel #fcff62ff

> color sel #ffdf61ff

> color sel #ffba58ff

> color sel #ffa450ff

> color sel #ff7a3eff

> color sel #ff6e38ff

> color sel #ff6133ff

> color sel #ff6032ff

> color sel #ff5f32ff

> color sel #ff6032ff

> color sel #ff6031ff

> color sel #ff672cff

> color sel #ff7028ff

> color sel #ff7c1aff

> color sel #ff8018ff

> color sel #ff8117ff

[Repeated 2 time(s)]

> color sel #ff7f18ff

> color sel #ff791fff

> color sel #ff7225ff

> color sel #ff603aff

> color sel #ff5042ff

> color sel #ff4850ff

> color sel #ff4f83ff

> color sel #ff50a2ff

> color sel #ff4fafff

> color sel #ff49c4ff

> color sel #ff43d2ff

> color sel #ff41deff

> color sel #ff40dfff

[Repeated 1 time(s)]

> color sel #ff40e0ff

> color sel #ff40e2ff

> color sel #ff46edff

> color sel #ff49feff

> color sel #e651ffff

> color sel #d156ffff

> color sel #bf57ffff

> color sel #b658ffff

[Repeated 1 time(s)]

> color sel #b558ffff

> color sel #b458ffff

> color sel #b15dffff

> color sel #ae60ffff

> color sel #ad60ffff

[Repeated 1 time(s)]

> color sel #ad61ffff

> color sel #ad62ffff

> color sel #ac63ffff

> color sel #aa71ffff

> color sel #ab78ffff

> color sel #ab7affff

> color sel #ab7bffff

> color sel #ac7cffff

[Repeated 1 time(s)]

> color sel #af7fffff

> color sel #b181ffff

> color sel #b886ffff

> color sel #c78fffff

> color sel #dc9cffff

> color sel #ffa8f1ff

> color sel #ffa0d0ff

> color sel #ff9bbeff

> color sel #ff8896ff

> color sel #ff8188ff

> color sel #ff7c76ff

> color sel #ff7d70ff

> color sel #ff7f69ff

> color sel #ff8363ff

> color sel #ff855fff

> color sel #ff885cff

> color sel #ff914fff

> color sel #ff924aff

> color sel #ff9a44ff

> color sel #ff9b42ff

> color sel #ff9d3dff

> color sel #ffa833ff

> color sel #ffab2cff

> color sel #ffac2cff

> color sel #ffad2bff

> color sel #ffad2aff

> color sel #ffae2bff

> color sel #ffae2aff

> color sel #ffb029ff

> color sel #ffb128ff

> color sel #ffb227ff

[Repeated 1 time(s)]

> color sel #ffb226ff

> color sel #ffb326ff

[Repeated 3 time(s)]

> color sel #ffaf27ff

[Repeated 1 time(s)]

> color sel #ffac27ff

> color sel #ffa928ff

> color sel #ffa729ff

> color sel #ffa42aff

> color sel #ff9f2cff

> color sel #ff9a2dff

> color sel #ff992eff

> color sel #ff982eff

> color sel #ff982fff

> color sel #ff972fff

[Repeated 1 time(s)]

> color sel #ff9730ff

> color sel #ff962fff

> color sel #ff9530ff

[Repeated 2 time(s)]

> color sel #ff9431ff

> color sel #ff9332ff

[Repeated 1 time(s)]

> color sel #ff9233ff

> color sel #ff9034ff

> color sel #ff8c37ff

> color sel #ff8442ff

> color sel #ff7947ff

> color sel #ff7249ff

> color sel #ff714aff

[Repeated 1 time(s)]

> color sel #ff714bff

> color sel #ff6f4aff

> color sel #ff6e4aff

> color sel #ff6447ff

> color sel #ff6347ff

> color sel #ff6247ff

> color sel #ff6147ff

> color sel #ff6046ff

> color sel #ff5f44ff

> color sel #ff6044ff

> color sel #ff5e42ff

[Repeated 1 time(s)]

> select clear

> select #1/B:96

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select clear

> select #1/A:197

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select clear

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15
> superimposition.cxs""

> hide #!2.1 models

> show #!2.1 models

> hide #!2.1 models

> show #!2.1 models

> hide #!2.1 models

> show #!2.1 models

> hide #!2.1 models

> show #!2.1 models

> hide #!2.1 models

> show #!2.1 models

> hide #!2.1 models

> show #!2.1 models

> hide #!2.1 models

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15
> superimposition.cxs""

> ui tool show ""Side View""

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15
> superimposition.cxs""

Cell requested for row 1 is out of bounds for table with 3 rows! Resizing
table model.  

> hide #!2 models

> show #!2 models

> hide #!1 models

> ui tool show ""Show Sequence Viewer""

> sequence chain #2/A

Alignment identifier is 2/A  

> select #2/A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #2/A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #2/A:61-73,78-91,110-121,129-141,144-155,164-175,202-205

647 atoms, 657 bonds, 80 residues, 1 model selected  

> select #2/A:171

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #2/A:170-171

18 atoms, 18 bonds, 2 residues, 1 model selected  

> show sel target ab

> color sel purple

> select #2/A:61-73,78-91,110-121,129-141,144-155,164-175,202-205

647 atoms, 657 bonds, 80 residues, 1 model selected  

> select #2/A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #2/A:174

9 atoms, 8 bonds, 1 residue, 1 model selected  

> show sel target ab

> color sel purple

> select #2/A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #2/A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> show sel target ab

> color sel purple

> select add #1

3077 atoms, 3134 bonds, 4 pseudobonds, 407 residues, 4 models selected  

> select subtract #1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select add #1

3077 atoms, 3134 bonds, 4 pseudobonds, 407 residues, 4 models selected  

> select subtract #1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select add #2

3401 atoms, 3449 bonds, 2 pseudobonds, 462 residues, 3 models selected  

> select subtract #2

Nothing selected  

> select add #2

3401 atoms, 3449 bonds, 2 pseudobonds, 462 residues, 3 models selected  

> select subtract #2

Nothing selected  

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> set bgColor white

> hide #!2 models

> show #!2 models

> hide #!2 models

> select #1/A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/A:156

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select add #1/A:170

14 atoms, 12 bonds, 2 residues, 1 model selected  

> select add #1/A:171

26 atoms, 24 bonds, 3 residues, 1 model selected  

> select add #1/A:174

35 atoms, 32 bonds, 4 residues, 1 model selected  

> label sel text ""{0.label_one_letter_code} {0.number}{0.insertion_code}""

> label sel text {0.name}{0.number} height 1.5

> label height 1

> label height 0.5

> label sel text {0.name}{0.number} height 1.5

> label sel text ""{0.label_one_letter_code} {0.number}{0.insertion_code}""

> label sel color black5

Invalid ""color"" argument: Expected one of 'auto' or 'default' or a color  

> label sel color black

> show #!2 models

> select add #1

3069 atoms, 3127 bonds, 4 pseudobonds, 406 residues, 3 models selected  

> select subtract #1

Nothing selected  

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15
> superimposition.cxs""

> toolshed show

> ui tool show ""Blast Protein""

> save ""/Users/leoliumcgill/Desktop/ISG15 structures/isg15 superimposition
> 2.cxs""

——— End of log from Wed May 21 19:51:14 2025 ———

opened ChimeraX session  




OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M3
OpenGL vendor: Apple

Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: Mac15,3
      Model Number: Z1A90001BLL/A
      Chip: Apple M3
      Total Number of Cores: 8 (4 performance and 4 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: 18 hours, 6 minutes

Graphics/Displays:

    Apple M3:

      Chipset Model: Apple M3
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 10
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-in Liquid Retina XDR Display
          Resolution: 3024 x 1964 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal
        DELL S2721HS:
          Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
          UI Looks like: 1920 x 1080 @ 75.00Hz
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    alabaster: 1.0.0
    anyio: 4.7.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 3.0.0
    build: 1.2.1
    certifi: 2023.11.17
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.58.8
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    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: 2.3
    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: 1.9
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.6
    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: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.2.1
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    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: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    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-MutationScores: 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: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    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: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    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: 3.5.6
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.18.1
    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: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.41
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    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: 1.3.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.9
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.3
    funcparserlib: 2.0.0a0
    glfw: 2.8.0
    grako: 3.16.5
    h11: 0.14.0
    h5py: 3.12.1
    html2text: 2024.2.26
    httpcore: 1.0.7
    httpx: 0.28.1
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.2
    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: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    sniffio: 1.3.1
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tornado: 6.4.2
    traitlets: 5.14.3
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13
}}}
"	defect	closed	normal		Window Toolkit		duplicate						all	ChimeraX