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Opened 19 hours ago
#20246 new defect
ChimeraX bug report submission
| Reported by: | Owned by: | ||
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Unassigned | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | ||
| Project: |
Description
The following bug report has been submitted:
Platform: macOS-26.2-arm64-arm-64bit
ChimeraX Version: 1.12.dev202604290127 (2026-04-29 01:27:48 UTC)
Description
Replace this text with list of actions that caused this problem to occur
Log:
UCSF ChimeraX version: 1.12.dev202604290127 (2026-04-29)
© 2016-2026 Regents of the University of California. All rights reserved.
> open "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> MB.cxs" format session
Log from Mon Apr 27 11:43:14 2026UCSF ChimeraX version: 1.12.dev202602120348
(2026-02-12)
© 2016-2026 Regents of the University of California. All rights reserved.
> open "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> 2.cxs"
Log from Mon Apr 27 10:11:34 2026UCSF ChimeraX version: 1.11.dev202511122144
(2025-11-12)
© 2016-2025 Regents of the University of California. All rights reserved.
> open /Users/tht13/Documents/VRs/8FZ0_VRs.cxs
Log from Thu Apr 23 13:23:45 2026UCSF ChimeraX version: 1.11.dev202511122144
(2025-11-12)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 9rwg
9rwg title:
Pentameric AAV2 Rep40 in complex with AAV8 [more info...]
Chain information for 9rwg #1
---
Chain | Description | UniProt
A B E F G H I Q R S U V W X Y | Capsid protein | Q8JQF8_9VIRU 1-738 152-738 350-738
a b c d e | Protein Rep68 | REP68_AAV2S 1-336
Non-standard residues in 9rwg #1
---
ADP — adenosine-5'-diphosphate
MG — magnesium ion
> open 9zcw
9zcw title:
Cryo-EM structure of the engineered vector AAV2.ATX002 [more info...]
Chain information for 9zcw #2
---
Chain | Description | UniProt
1 2 3 4 5 6 7 8 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h i j k l m n o p q r s t u v w x y z | Engineered AAV2 capsid protein VP3 | CAPSD_AAV2S 1-542
> ui tool show Matchmaker
> matchmaker #!1 to #2
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 9zcw, chain r (#2) with 9rwg, chain R (#1), sequence alignment
score = 2270
RMSD between 418 pruned atom pairs is 0.559 angstroms; (across all 433 pairs:
1.088)
> select #1/a,b,c,d
8715 atoms, 8921 bonds, 1093 residues, 1 model selected
> hide sel atoms
> select ~sel
281146 atoms, 289377 bonds, 103 pseudobonds, 35070 residues, 4 models selected
> hide sel atoms
> show sel cartoons
> color #2 #e7ef44ff
> select clear
> show atoms
> style stick
Changed 289861 atom styles
> color byhetero
> select #1/a,b,c,d
8715 atoms, 8921 bonds, 1093 residues, 1 model selected
> hide sel cartoons
> hide sel atoms
> hide #2 models
> select #1/V:330@CD
1 atom, 1 residue, 1 model selected
> view clip false
> show target m
> undo
> select clear
> close #1
> open 9rwg
9rwg title:
Pentameric AAV2 Rep40 in complex with AAV8 [more info...]
Chain information for 9rwg #1
---
Chain | Description | UniProt
A B E F G H I Q R S U V W X Y | Capsid protein | Q8JQF8_9VIRU 1-738 152-738 350-738
a b c d e | Protein Rep68 | REP68_AAV2S 1-336
Non-standard residues in 9rwg #1
---
ADP — adenosine-5'-diphosphate
MG — magnesium ion
> show #!1 surfaces
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C59DA54B-64B1-4F40-8E6B-33CF2F96963B/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C59DA54B-64B1-4F40-8E6B-33CF2F96963B/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE
MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9534.16 9011.16 6130.92 39.6692 379.849 -156.361 -1314.44 1594.07
-97.6146 -320.122 -175.499 -39.4595 0 36.0975 7962.07 -124.625 0 298.767
346.377 14036.7
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
#3
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #!1 models
> view #3 clip false
> sequence chain
> #2/1,2,3,4,5,6,7,8,A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v,w,x,y,z
Alignment identifier is 1
> sequence chain #1/A,B,E,F,G,H,I,Q,R,S,U,V,W,X,Y
Alignment identifier is 2
> sequence chain #1/a,b,c,d,e
Alignment identifier is 3
> sequence chain #3/A,B,C
Alignment identifier is 4
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C59DA54B-64B1-4F40-8E6B-33CF2F96963B/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C59DA54B-64B1-4F40-8E6B-33CF2F96963B/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE
MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9534.16 9011.16 6130.92 39.6692 379.849 -156.361 -1314.44 1594.07
-97.6146 -320.122 -175.499 -39.4595 0 36.0975 7962.07 -124.625 0 298.767
346.377 14036.7
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
#1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /B:890
14 atoms, 13 bonds, 1 residue, 1 model selected
> select clear
> select /A:363-364/B:882-883/C:1401-1402
81 atoms, 78 bonds, 6 residues, 1 model selected
> select /A:363-364/B:882-883/C:1401-1402
81 atoms, 78 bonds, 6 residues, 1 model selected
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/696EAAAF-E689-46AC-9028-87AD1CC93EB8/MATNLQRGNRQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/696EAAAF-E689-46AC-9028-87AD1CC93EB8/MATNLQRGNRQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9534.16 9011.16 6130.92 39.6692 379.849 -156.361 -1314.44 1594.07
-97.6146 -320.122 -175.499 -39.4595 0 36.0975 7962.07 -124.625 0 298.767
346.377 14036.7
3264 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A:363/B:882/C:1401
48 atoms, 45 bonds, 3 residues, 1 model selected
> select /A:363-380/B:882-899/C:1401-1418
789 atoms, 786 bonds, 54 residues, 1 model selected
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C58F556D-277F-435F-BCEC-114B11BF4400/VSTNLQAGNAAAESTGRERAAAQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C58F556D-277F-435F-BCEC-114B11BF4400/VSTNLQAGNAAAESTGRERAAAQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb
---
warnings | Ignored bad PDB record found on line 24586
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24587
#BEGIN_POSE_ENERGIES_TABLE
VSTNLQAGNAAAESTGRERAAAQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb
Ignored bad PDB record found on line 24588
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24589
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24590
pose -9668.85 8392.96 6231.38 39.7301 385.159 -161.71 -1340.89 1594.07
-96.3484 -326.241 -178.584 -39.4595 0 36.1935 8012.57 -123.566 0 297.232
1018.35 14072
1602 messages similar to the above omitted
Chain information for
VSTNLQAGNAAAESTGRERAAAQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #1
> sequence chain #2/A,B,C
Alignment identifier is 1
> select clear
[Repeated 1 time(s)]
> select /A:381
24 atoms, 23 bonds, 1 residue, 1 model selected
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B9EC3596-103F-4EC2-87E7-E67581DDFB7B/MATNNQRGNRAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B9EC3596-103F-4EC2-87E7-E67581DDFB7B/MATNNQRGNRAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24169
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24170
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24171
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24172
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24173
pose -9534.05 10284.8 6133.47 39.5952 379.321 -156.579 -1320.7 2174.61
-97.6146 -320.122 -175.508 -39.4595 0 35.642 7929.54 -111.613 0 290.432
381.106 15892.9
3264 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #2
> sequence chain #1/A,B,C
Alignment identifier is 1
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/AC426003-632A-4C19-84F1-1C5D8A4EC7DE/MATNLQRGNRQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/AC426003-632A-4C19-84F1-1C5D8A4EC7DE/MATNLQRGNRQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9534.16 9011.16 6130.92 39.6692 379.849 -156.361 -1314.44 1594.07
-97.6146 -320.122 -175.499 -39.4595 0 36.0975 7962.07 -124.625 0 298.767
346.377 14036.7
3264 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> close session
> open 9zcw
9zcw title:
Cryo-EM structure of the engineered vector AAV2.ATX002 [more info...]
Chain information for 9zcw #1
---
Chain | Description | UniProt
1 2 3 4 5 6 7 8 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h i j k l m n o p q r s t u v w x y z | Engineered AAV2 capsid protein VP3 | CAPSD_AAV2S 1-542
> show cartoons
> hide atoms
> select /Z:268
8 atoms, 7 bonds, 1 residue, 1 model selected
> view clip false
> show target m
> view clip false
> select clear
> close session
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #1
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #1
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> sym #1 assembly 1
Made 60 graphical clones for 6nz0 assembly 1
> view
> open /Users/tht13/Downloads/emd_0553.map.gz
File reader requires uncompressed file;
'/Users/tht13/Downloads/emd_0553.map.gz' is compressed
> open /Users/tht13/Downloads/emd_0553.map
Opened emd_0553.map as #3, grid size 384,384,384, pixel 1.05, shown at level
0.139, step 2, values float32
> volume #3 level 0.02652
> volume #3 level 0.1036
> show #!2 atoms
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4859BE1F-3DBE-4007-A046-30C30A2542AA/MATNLQRGNRQAATGTY_aav2_trimer_INPUTremodelled_0001.pdb
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUTremodelled_0001.pdb
#4
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #1-3
> sequence chain #4/A,B,C
Alignment identifier is 1
> select clear
> select /B:371
14 atoms, 13 bonds, 1 residue, 1 model selected
> select /A-C:363
48 atoms, 45 bonds, 3 residues, 1 model selected
> select /A-C:363-364
96 atoms, 93 bonds, 6 residues, 1 model selected
> select /A-C:363-364,377-379
240 atoms, 234 bonds, 15 residues, 1 model selected
> color sel red
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C9485B72-7C23-4D1C-A55E-3D798D8FD5C2/MATNNQRGNRAPATGTY__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C9485B72-7C23-4D1C-A55E-3D798D8FD5C2/MATNNQRGNRAPATGTY__2.pdb
---
warnings | Ignored bad PDB record found on line 24169
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24170
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24171
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24172
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24173
pose -9534.05 10284.8 6133.47 39.5952 379.321 -156.579 -1320.7 2174.61
-97.6146 -320.122 -175.508 -39.4595 0 35.642 7929.54 -111.613 0 290.432
381.106 15892.9
3264 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY__2.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> close
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/6A4CFD2F-D49E-484B-873F-5452301FDE3B/MATNLQRGNRQAATGTY__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/6A4CFD2F-D49E-484B-873F-5452301FDE3B/MATNLQRGNRQAATGTY__2.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9534.16 9011.16 6130.92 39.6692 379.849 -156.361 -1314.44 1594.07
-97.6146 -320.122 -175.499 -39.4595 0 36.0975 7962.07 -124.625 0 298.767
346.377 14036.7
3264 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY__2.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/79143B61-ECF6-4A90-9956-DEC3FCA5CBC8/VSTNLQRGNKMEADGRQAATADV__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/79143B61-ECF6-4A90-9956-DEC3FCA5CBC8/VSTNLQRGNKMEADGRQAATADV__2.pdb
---
warnings | Ignored bad PDB record found on line 24439
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24440
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24441
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24442
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24443
pose -9626.29 12978.4 6243.41 39.7166 385.008 -162.004 -1315.09 1594.07
-93.7199 -325.997 -175.499 -39.4595 0 37.0542 8005.28 -120.77 0 275.366
1041.23 18740.7
3300 messages similar to the above omitted
Chain information for VSTNLQRGNKMEADGRQAATADV__2.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #1
> sequence chain #2/A,B,C
Alignment identifier is 1
> select /A:363/B:888/C:1413
48 atoms, 45 bonds, 3 residues, 1 model selected
> select /A:363-385/B:888-910/C:1413-1435
996 atoms, 993 bonds, 69 residues, 1 model selected
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9B5E8858-C6CC-41C0-B77B-6BB8A4064915/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9B5E8858-C6CC-41C0-B77B-6BB8A4064915/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9079.89 20865.9 5586.89 19.6416 339.536 -150.27 -1550.83 1394.11
-97.6146 -320.122 -148.08 -83.1021 0 36.0975 2236.46 -124.625 0 298.767 1024.3
20247.2
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> close
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9B5E8858-C6CC-41C0-B77B-6BB8A4064915/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9B5E8858-C6CC-41C0-B77B-6BB8A4064915/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24175
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24176
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24177
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24178
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24179
pose -9079.89 20865.9 5586.89 19.6416 339.536 -150.27 -1550.83 1394.11
-97.6146 -320.122 -148.08 -83.1021 0 36.0975 2236.46 -124.625 0 298.767 1024.3
20247.2
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A-C:441
33 atoms, 30 bonds, 3 residues, 1 model selected
> select /A-C:441-453
594 atoms, 591 bonds, 39 residues, 1 model selected
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C7E5F42B-07DE-48B6-9BB5-ED2293F52428/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C7E5F42B-07DE-48B6-9BB5-ED2293F52428/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24169
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24170
#BEGIN_POSE_ENERGIES_TABLE MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24171
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24172
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24173
pose -9065.7 22108.6 5564.1 19.7388 335.39 -153.082 -1538.87 1974.65 -97.6146
-320.122 -131.878 -85.6713 0 35.642 2228.46 -111.613 0 290.432 1055.92 22108.3
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0004.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/20D8A92C-14FB-419E-8689-B342E33CBB6A/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/20D8A92C-14FB-419E-8689-B342E33CBB6A/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
---
warnings | Ignored bad PDB record found on line 24178
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24179
#BEGIN_POSE_ENERGIES_TABLE MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
Ignored bad PDB record found on line 24180
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24181
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24182
pose -9134.26 27867.1 5620.24 18.9283 347.547 -151.472 -1548.29 1401.25
-97.6146 -320.122 -153.912 -86.5529 0 35.9598 2231.38 -126.404 0 275.217
1025.61 27204.6
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0002.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A-C:442
51 atoms, 48 bonds, 3 residues, 1 model selected
> select /A-C:442-458
735 atoms, 738 bonds, 51 residues, 1 model selected
> select clear
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/0157699A-2324-4861-9939-283BC9E91B1F/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/0157699A-2324-4861-9939-283BC9E91B1F/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9102.01 27303.4 5603.19 19.8261 345.853 -155.665 -1552.93 1394.11
-97.6146 -320.122 -143.696 -85.658 0 35.8657 2262.14 -125.807 0 284.799
1024.78 26690.5
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A-C:442-443
81 atoms, 78 bonds, 6 residues, 1 model selected
> select /A-C:442-459
801 atoms, 801 bonds, 54 residues, 1 model selected
> show sel atoms
> select clear
> show atoms
> close session
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/2_3_complex.pdb
Chain information for 2_3_complex.pdb #1
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/4_0_complex.pdb
Chain information for 4_0_complex.pdb #2
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/6_5_complex.pdb
Chain information for 6_5_complex.pdb #3
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/9_1_complex.pdb
Chain information for 9_1_complex.pdb #4
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/9_5_complex.pdb
Chain information for 9_5_complex.pdb #5
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/12_0_complex.pdb
Chain information for 12_0_complex.pdb #6
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/12_1_complex.pdb
Chain information for 12_1_complex.pdb #7
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/16_6_complex.pdb
Chain information for 16_6_complex.pdb #8
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
[Repeated 6 time(s)]
> hide #!2-8 target m
> show #!2 target m
> hide #!1 target m
> show #!3 target m
> hide #!2 target m
> show #!4 target m
> hide #!3 target m
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C21D5D8A-6861-4C49-B5AC-989A5B303235/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C21D5D8A-6861-4C49-B5AC-989A5B303235/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24178
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24179
#BEGIN_POSE_ENERGIES_TABLE MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24180
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24181
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24182
pose -9109.96 27827.9 5606.23 19.0777 343.34 -152.146 -1539.26 1401.25
-97.6146 -320.122 -148.487 -83.9707 0 35.9598 2240.15 -126.404 0 275.217
1025.61 27196.8
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #9
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #9 target m
> show #!5 target m
> hide #!4 target m
> show #!1 models
> hide #!1 models
> show #!6 target m
> hide #!5 target m
> show #!7 target m
> hide #!6 target m
> show #!8 target m
> hide #!7 target m
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C21D5D8A-6861-4C49-B5AC-989A5B303235/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C21D5D8A-6861-4C49-B5AC-989A5B303235/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24178
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24179
#BEGIN_POSE_ENERGIES_TABLE MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24180
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24181
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24182
pose -9109.96 27827.9 5606.23 19.0777 343.34 -152.146 -1539.26 1401.25
-97.6146 -320.122 -148.487 -83.9707 0 35.9598 2240.15 -126.404 0 275.217
1025.61 27196.8
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> show atoms
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A-C:442
51 atoms, 48 bonds, 3 residues, 1 model selected
> select /A-C:442-458
735 atoms, 738 bonds, 51 residues, 1 model selected
> color sel red
> color sel byhetero
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/88EEE323-16EF-4C2A-A5DD-8FFCD4E2359A/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/88EEE323-16EF-4C2A-A5DD-8FFCD4E2359A/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9142.33 27473.5 5586.36 20.256 345.859 -163.731 -1535.06 1394.11
-97.6146 -320.122 -144.743 -76.4443 0 35.8657 2226.12 -125.807 0 284.799
1024.78 26785.8
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D8670FE3-1458-43F0-9D4A-A4302DADBB73/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D8670FE3-1458-43F0-9D4A-A4302DADBB73/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9137.39 27376.2 5608.71 19.7773 343.596 -153.244 -1561.98 1394.11
-97.6146 -320.122 -149.24 -78.6113 0 35.8657 2279.79 -125.807 0 284.799
1024.78 26743.7
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7EB74E3F-60D2-4A20-AF35-CE9175A8835F/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7EB74E3F-60D2-4A20-AF35-CE9175A8835F/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9107.41 27280.4 5619.67 19.8533 346.127 -154.067 -1571.06 1394.11
-97.6146 -320.122 -143.696 -88.34 0 35.8657 2267.53 -125.807 0 284.799 1024.78
26665.1
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/F6D18785-0E57-45FA-
> AF05-3909E1C4FFF0/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/F6D18785-0E57-45FA-
AF05-3909E1C4FFF0/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9118.51 27312.6 5610.77 19.7221 343.823 -154.829 -1536.77 1394.11
-97.6146 -320.122 -141.868 -84.4239 0 35.8657 2265.97 -125.807 0 284.799
1024.78 26712.4
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7F167021-1332-401C-B2F6-2975B40923B3/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7F167021-1332-401C-B2F6-2975B40923B3/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9107.12 27291.2 5596.4 19.851 340.101 -158.632 -1538.15 1394.11 -97.6146
-320.122 -137.483 -86.3939 0 35.8657 2247.12 -125.807 0 284.799 1024.78
26662.9
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb #5
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 3 time(s)]
> show atoms
> hide #2-5 target m
> show #5 target m
> hide #1 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
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> hide #2 cartoons
> show #2 cartoons
> show target m
> close
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FB507953-9E60-4E3C-9BF4-7DEC42B128DC/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FB507953-9E60-4E3C-9BF4-7DEC42B128DC/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9101 6065.81 5590.78 21.0089 350.14 -185.857 -1709.35 885.409 -97.6146
-320.122 -213.557 -147.733 0 35.8657 3138.43 -125.807 1.69807 284.799 1024.78
5497.68
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9353D0E7-53AB-43D7-9E6F-4326BE143DE2/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9353D0E7-53AB-43D7-9E6F-4326BE143DE2/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9120.79 6360.95 5571.48 23.4994 349.474 -189.189 -1664.09 886.937
-97.6146 -320.122 -205.638 -120.26 0 35.8657 3110.3 -125.807 0.47178 284.799
1024.78 5805.05
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0002.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B6B3940D-8DF8-49AE-9E79-7C4749211A85/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B6B3940D-8DF8-49AE-9E79-7C4749211A85/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9089.09 6107.77 5617.34 21.5488 345.214 -185.105 -1706.42 886.593
-97.6146 -320.122 -216.524 -156.561 0 35.8657 3154.18 -125.807 1.76138 284.799
1024.78 5582.59
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0003.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FC1D1858-99AF-4CD6-9629-3C2B0ED4845F/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FC1D1858-99AF-4CD6-9629-3C2B0ED4845F/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9110.9 6350.37 5585.84 23.3535 350.675 -182.743 -1695.28 885.427
-97.6146 -320.122 -210.238 -132.813 0 35.8657 3111.04 -125.807 0.5193 284.799
1024.78 5777.15
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0004.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/1A50251F-08B1-4377-86CA-4B64567839A6/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/1A50251F-08B1-4377-86CA-4B64567839A6/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9096.84 6071.2 5590.53 21.8544 346.342 -187.106 -1701.54 887.577
-97.6146 -320.122 -212.923 -142.508 0 35.8657 3155.4 -125.807 1.55993 284.799
1024.78 5535.44
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0005.pdb #5
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 3 time(s)]
> show atoms
> open 3NTT
3ntt title:
Structural insights of Adeno-Associated virus 5. A gene therapy Vector for
Cystic Fibrosis [more info...]
Chain information for 3ntt #6
---
Chain | Description | UniProt
A | Capsid protein | Q9YIJ1_9VIRU 1-724
Non-standard residues in 3ntt #6
---
GOL — glycerol (glycerin; propane-1,2,3-triol)
NA — sodium ion
3ntt mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
6| crystal asymmetric unit, crystal frame
> ui tool show Matchmaker
> matchmaker #6 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb, chain A (#1)
with 3ntt, chain A (#6), sequence alignment score = 1631.9
RMSD between 447 pruned atom pairs is 0.716 angstroms; (across all 509 pairs:
3.260)
> sym #6 assembly 1
Made 60 graphical clones for 3ntt assembly 1
> view
> ui tool show Matchmaker
> matchmaker #7 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb, chain A (#1)
with 3ntt assembly 1, chain A (#7), sequence alignment score = 1631.9
RMSD between 447 pruned atom pairs is 0.716 angstroms; (across all 509 pairs:
3.260)
> close #7
> view clip false
> show #6 models
> show atoms
> hide #1 models
> hide #2 models
> hide #3 models
> hide #4 models
> color #5-6 byhetero
[Repeated 1 time(s)]
> hide #5 models
> show #5 models
> show #6 target m
> show target m
> hide #6 models
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C6CB6185-2E52-4EF7-A88C-07CB74BB8345/MATNNQRGNLAHDQVRPARAPATGTYNL_aav2_trimer_INPUT_remodeled_0001.pdb
Chain information for
MATNNQRGNLAHDQVRPARAPATGTYNL_aav2_trimer_INPUT_remodeled_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C2955B22-D837-4149-9F39-DCEB33142BB1/MATNLQRGNLAHDQVRPARQAATGTY__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C2955B22-D837-4149-9F39-DCEB33142BB1/MATNLQRGNLAHDQVRPARQAATGTY__2.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9714.63 18438.7 6257.29 39.9513 392.778 -153.755 -1310.81 1594.74
-91.131 -326.189 -177.352 -39.4595 0 37.6985 7998.53 -114.108 0 288.754
1055.89 24176.9
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__2.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #1 models
> show #1 models
> hide #2 models
> hide #1 models
> show #2 models
> close #1
> sequence chain #2/A,B,C
Alignment identifier is 1
> select /A:363-364/B:891-892/C:1419-1420
81 atoms, 78 bonds, 6 residues, 1 model selected
> select /A:363-389/B:891-917/C:1419-1445
1218 atoms, 1224 bonds, 81 residues, 1 model selected
> color sel red
> color sel byhetero
> show sel atoms
> select clear
> select /A:369/B:897/C:1425
72 atoms, 69 bonds, 3 residues, 1 model selected
> select /A:369-372/B:897-900/C:1425-1428
192 atoms, 189 bonds, 12 residues, 1 model selected
> select /A:369/B:897/C:1425
72 atoms, 69 bonds, 3 residues, 1 model selected
> select /A:369-371/B:897-899/C:1425-1427
135 atoms, 132 bonds, 9 residues, 1 model selected
> select /A:378/B:906/C:1434
72 atoms, 69 bonds, 3 residues, 1 model selected
> select /A:378-379/B:906-907/C:1434-1435
114 atoms, 114 bonds, 6 residues, 1 model selected
> select /A:381/B:909/C:1437
72 atoms, 69 bonds, 3 residues, 1 model selected
> select /A:381/B:909/C:1437
72 atoms, 69 bonds, 3 residues, 1 model selected
> select /A:369/B:897/C:1425
72 atoms, 69 bonds, 3 residues, 1 model selected
> select /A:369/B:897/C:1425
72 atoms, 69 bonds, 3 residues, 1 model selected
> select clear
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/50E186F9-8AD0-4530-A21D-B35F1A286484/MATNLQRGNLAHDQVRPARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/50E186F9-8AD0-4530-A21D-B35F1A286484/MATNLQRGNLAHDQVRPARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9693.27 16881.5 6247.75 40.142 388.052 -156.098 -1317.6 1804.74 -92.1992
-326.198 -177.402 -39.4595 0 36.2885 7991.58 -112.262 0 288.754 1066 22830.4
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C2955B22-D837-4149-9F39-DCEB33142BB1/MATNLQRGNLAHDQVRPARQAATGTY__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C2955B22-D837-4149-9F39-DCEB33142BB1/MATNLQRGNLAHDQVRPARQAATGTY__2.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9714.63 18438.7 6257.29 39.9513 392.778 -153.755 -1310.81 1594.74
-91.131 -326.189 -177.352 -39.4595 0 37.6985 7998.53 -114.108 0 288.754
1055.89 24176.9
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__2.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/EE385D4B-734F-444C-B081-CB1F8452C2B8/MATNLQRGNLAHDQVRPARQAATGTY__3.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/EE385D4B-734F-444C-B081-CB1F8452C2B8/MATNLQRGNLAHDQVRPARQAATGTY__3.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9725.71 19315.1 6264.27 39.9358 388.643 -152.798 -1311.76 1722.8
-90.9974 -331.142 -178.078 -43.8268 0 35.9503 7975.25 -106.892 0 288.754
1088.41 25177.9
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__3.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/75A8C9BB-2766-4245-A6DB-704742CD1138/MATNLQRGNLAHDQVRPARQAATGTY__4.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/75A8C9BB-2766-4245-A6DB-704742CD1138/MATNLQRGNLAHDQVRPARQAATGTY__4.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9699.69 31453.6 6269.89 39.917 388.672 -149.428 -1338.23 1782.68
-92.7522 -327.003 -175.599 -39.4595 0 38.5617 7976.37 -94.7846 0 288.754
1100.13 37421.7
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__4.pdb #4
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 2 time(s)]
> show atoms
> hide #2-4 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show target m
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/EAA52BEB-5FC2-4EAD-A81D-ED20B1DB8856/VSTNAQRGNNIKQGSTIDHRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/EAA52BEB-5FC2-4EAD-A81D-ED20B1DB8856/VSTNAQRGNNIKQGSTIDHRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9693.8 11144.7 6293.77 39.912 392.89 -162.123 -1289.39 1594.07 -90.1243
-325.946 -178.331 -39.4595 0 43.497 8030.65 -124.509 0 280.716 1031.64 16948.1
3324 messages similar to the above omitted
Chain information for VSTNAQRGNNIKQGSTIDHRQAATADV__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/3D8636F6-556C-4C18-8D62-E3B403CD5673/VSTNAQRGNNIKQGSTIDHRQAATADV__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/3D8636F6-556C-4C18-8D62-E3B403CD5673/VSTNAQRGNNIKQGSTIDHRQAATADV__2.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9698.35 13205.2 6311.38 39.7967 386.547 -151.648 -1335.54 1594.07
-95.0504 -331.192 -178.358 -39.4595 0 37.0494 8017.47 -117.94 0 280.716
1038.95 18963.6
3324 messages similar to the above omitted
Chain information for VSTNAQRGNNIKQGSTIDHRQAATADV__2.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/777851B4-B039-425B-BA21-2CD5DF79B2F0/VSTNAQRGNNIKQGSTIDHRQAATADV__3.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/777851B4-B039-425B-BA21-2CD5DF79B2F0/VSTNAQRGNNIKQGSTIDHRQAATADV__3.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9732.19 13471.8 6359.03 39.8116 387.797 -152.224 -1312.97 1594.07
-99.424 -326.136 -177.097 -43.7252 0 36.2248 8015 -119.612 0 280.716 1033.76
19254.8
3324 messages similar to the above omitted
Chain information for VSTNAQRGNNIKQGSTIDHRQAATADV__3.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/8544BDDB-4741-48CD-9FD7-DDEAAE75ED42/VSTNAQRGNNIKQGSTIDHRQAATADV__4.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/8544BDDB-4741-48CD-9FD7-DDEAAE75ED42/VSTNAQRGNNIKQGSTIDHRQAATADV__4.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9734.2 15119.3 6322.08 39.7971 387.126 -163.616 -1310.06 1594.07
-93.4013 -326.116 -178.519 -39.4595 0 35.6371 8029.77 -118.947 0 280.716
1015.61 20859.7
3324 messages similar to the above omitted
Chain information for VSTNAQRGNNIKQGSTIDHRQAATADV__4.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/A45FECC6-8820-4AA7-93C4-239ADFEAB996/VSTNAQRGNNIKQGSTIDHRQAATADV__5.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/A45FECC6-8820-4AA7-93C4-239ADFEAB996/VSTNAQRGNNIKQGSTIDHRQAATADV__5.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9743.78 16324.2 6316.4 40.0556 388.379 -162.184 -1308.34 1594.07
-92.1249 -326.091 -175.499 -39.4595 0 37.6362 8012.52 -118.876 0 280.716
1037.06 22064.7
3324 messages similar to the above omitted
Chain information for VSTNAQRGNNIKQGSTIDHRQAATADV__5.pdb #5
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 3 time(s)]
> show atoms
> sequence chain #1/A,B,C#2/A,B,C#3/A,B,C#4/A,B,C#5/A,B,C
Alignment identifier is 1
> select #1/A:363-364/B:892-893/C:1421-1422 #2/A:363-364/B:892-893/C:1421-1422
> #3/A:363-364/B:892-893/C:1421-1422 #4/A:363-364/B:892-893/C:1421-1422
> #5/A:363-364/B:892-893/C:1421-1422
405 atoms, 390 bonds, 30 residues, 5 models selected
> select #1/A:363-389/B:892-918/C:1421-1447 #2/A:363-389/B:892-918/C:1421-1447
> #3/A:363-389/B:892-918/C:1421-1447 #4/A:363-389/B:892-918/C:1421-1447
> #5/A:363-389/B:892-918/C:1421-1447
5880 atoms, 5880 bonds, 405 residues, 5 models selected
1 [ID: 1] region 15 chains [363-389] RMSD: 4.539
> color sel red
> color sel byhetero
> select clear
> hide #2-5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #1 target m
> hide #5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> close session
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/2_3_complex.pdb
Chain information for 2_3_complex.pdb #1
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/4_0_complex.pdb
Chain information for 4_0_complex.pdb #2
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/6_5_complex.pdb
Chain information for 6_5_complex.pdb #3
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/9_1_complex.pdb
Chain information for 9_1_complex.pdb #4
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/9_5_complex.pdb
Chain information for 9_5_complex.pdb #5
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/12_0_complex.pdb
Chain information for 12_0_complex.pdb #6
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/12_1_complex.pdb
Chain information for 12_1_complex.pdb #7
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/16_6_complex.pdb
Chain information for 16_6_complex.pdb #8
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
[Repeated 6 time(s)]
> hide #!2-8 target m
> show #!2 target m
> hide #!1 target m
> show #!3 target m
> hide #!2 target m
> show #!4 target m
> hide #!3 target m
> show #!5 target m
> hide #!4 target m
> show #!6 target m
> hide #!5 target m
> hide #!6 models
> show #!4 models
> hide #!4 models
> show #!1 models
> hide #!1 models
> show #!5 models
> hide #!5 models
> show #!8 models
> close #1-8
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/3A813BEB-7174-469B-89CC-921E1B1A960D/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/3A813BEB-7174-469B-89CC-921E1B1A960D/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9143.85 8527.97 5651.86 22.2739 349.71 -177.569 -1675.53 922.066
-97.6146 -320.122 -216.081 -134.302 0 35.9598 3205.77 -128.62 0.37912 276.746
1023.29 8122.33
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/32A0AEAB-D9D0-420E-ADB3-63940AA6A382/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0002.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/32A0AEAB-D9D0-420E-ADB3-63940AA6A382/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0002.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0002.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9117.02 7706.84 5625.73 22.649 350.852 -181.608 -1669.55 926.629
-97.6146 -320.122 -218.63 -131.748 0 35.9598 3194.46 -128.62 0.42918 276.746
1023.29 7298.67
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0002.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/A849DE8E-AE00-47BE-B052-ABDE5A5A0163/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0003.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/A849DE8E-AE00-47BE-B052-ABDE5A5A0163/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0003.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0003.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9137.38 9697.37 5647.54 21.9261 352.729 -167.127 -1706.02 927.23
-97.6146 -320.122 -229.344 -132.574 0 35.9598 3198.15 -128.62 0.31514 276.746
1023.29 9262.45
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0003.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B211297F-41DD-4412-9C14-FDCF9A89662C/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B211297F-41DD-4412-9C14-FDCF9A89662C/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9162.98 9893.42 5643 24.0068 349.293 -179.448 -1679.05 918.393 -97.6146
-320.122 -235.579 -130.647 0 35.9598 3201.33 -128.62 0.4421 276.746 1023.29
9431.82
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0004.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B0417C23-B020-4B14-9DFE-3699A789905E/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0005.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B0417C23-B020-4B14-9DFE-3699A789905E/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0005.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0005.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9131.92 9785.71 5605.93 21.7837 353.384 -181.357 -1673.04 922.358
-97.6146 -320.122 -206.491 -137.073 0 35.9598 3210.14 -128.62 0.2484 276.746
1023.29 9359.32
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0005.pdb #5
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 3 time(s)]
> sequence chain #1/A,B,C#2/A,B,C#3/A,B,C#4/A,B,C#5/A,B,C
Alignment identifier is 1
> select #1/A-C:442-443 #2/A-C:442-443 #3/A-C:442-443 #4/A-C:442-443
> #5/A-C:442-443
405 atoms, 390 bonds, 30 residues, 5 models selected
> select #1/A-C:442-460 #2/A-C:442-460 #3/A-C:442-460 #4/A-C:442-460
> #5/A-C:442-460
4170 atoms, 4185 bonds, 285 residues, 5 models selected
1 [ID: 1] region 15 chains [363-381] RMSD: 0.000
> select clear
> close session
> open 3ntt
3ntt title:
Structural insights of Adeno-Associated virus 5. A gene therapy Vector for
Cystic Fibrosis [more info...]
Chain information for 3ntt #1
---
Chain | Description | UniProt
A | Capsid protein | Q9YIJ1_9VIRU 1-724
Non-standard residues in 3ntt #1
---
GOL — glycerol (glycerin; propane-1,2,3-triol)
NA — sodium ion
3ntt mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
6| crystal asymmetric unit, crystal frame
> close session
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #1
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #1
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> sym #1 assembly 1
Made 60 graphical clones for 6nz0 assembly 1
> view
> sequence chain #1/Z
Alignment identifier is 1/Z
> color sel red
> select /Z:405-499
1456 atoms, 1480 bonds, 190 residues, 2 models selected
> color sel red
> select clear
> sequence chain #1/Z#2/Z
Alignment identifier is 1
> sequence chain #1/A#2/A
Alignment identifier is 2
> select #1/A:735 #2/A:735
16 atoms, 14 bonds, 2 residues, 2 models selected
> select #1/A:726-735 #2/A:726-735
168 atoms, 168 bonds, 20 residues, 2 models selected
Capsid Protein VP1 [ID: 2] region 2 chains [726-735] RMSD: 0.000
> color sel green
> select clear
> show #!2 surfaces
> hide #!2 surfaces
> close session
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/2_3_complex.pdb
Chain information for 2_3_complex.pdb #1
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/4_0_complex.pdb
Chain information for 4_0_complex.pdb #2
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/6_5_complex.pdb
Chain information for 6_5_complex.pdb #3
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/9_1_complex.pdb
Chain information for 9_1_complex.pdb #4
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/9_5_complex.pdb
Chain information for 9_5_complex.pdb #5
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/12_0_complex.pdb
Chain information for 12_0_complex.pdb #6
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/12_1_complex.pdb
Chain information for 12_1_complex.pdb #7
---
Chain | Description
A | No description available
B | No description available
> open
> /Users/tht13/Documents/JanusBind/binder_selections/complex_pdbs_for_BCHO/16_6_complex.pdb
Chain information for 16_6_complex.pdb #8
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
[Repeated 6 time(s)]
> hide #!2-8 target m
> color /B red
> color /A blue
> show #!2 target m
> hide #!1 target m
> show #!3 target m
> hide #!2 target m
> show #!4 target m
> hide #!3 target m
> show #!5 target m
> hide #!4 target m
> show #!6 target m
> hide #!5 target m
> show #!7 target m
> hide #!6 target m
> show #!8 target m
> hide #!7 target m
> show #!1 target m
> hide #!8 target m
> show #!2 target m
> hide #!1 target m
> show #!3 target m
> hide #!2 target m
> show #!4 target m
> hide #!3 target m
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24589
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24590
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24591
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24592
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24593
pose -8082.38 64254.4 5586.92 39.7419 385.653 -194.911 -801.513 1866.45
-96.141 -187.551 -113.632 -23.7858 0 45.6005 7954.01 -101.174 0 294.097
1108.52 71934.3
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb #9
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #1-8
> show target m
[Repeated 1 time(s)]
> view clip false
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -8018.13 52021.8 5488.06 39.6483 384.485 -187.824 -800.964 1980.78
-94.9382 -187.551 -117.742 -23.7858 0 65.2895 7953.75 -108.491 0 292.567
1054.61 59741.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24589
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24590
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24591
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24592
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24593
pose -8082.38 64254.4 5586.92 39.7419 385.653 -194.911 -801.513 1866.45
-96.141 -187.551 -113.632 -23.7858 0 45.6005 7954.01 -101.174 0 294.097
1108.52 71934.3
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #1 models
> hide #2 models
> show #1 models
> show #2 models
> hide #1 models
> hide #2 models
> show #1 models
> show #2 models
> hide #2 models
> hide #1 models
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B81A095D-5C45-4A0C-B184-AAEA5E66FDCC/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B81A095D-5C45-4A0C-B184-AAEA5E66FDCC/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
---
warnings | Ignored bad PDB record found on line 24604
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24605
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24606
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24607
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24608
pose -9722.86 18158.7 6291.36 39.8525 387.324 -151.629 -1294.59 1594.07
-90.2176 -326.14 -177.866 -39.4595 0 37.774 7994.25 -123.308 0 288.993 1028.64
23894.9
3318 messages similar to the above omitted
Chain information for MSTNLQRGNLAEHGVRTARQAATADY__1.pdb #3
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FB507953-9E60-4E3C-9BF4-7DEC42B128DC/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FB507953-9E60-4E3C-9BF4-7DEC42B128DC/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9101 6065.81 5590.78 21.0089 350.14 -185.857 -1709.35 885.409 -97.6146
-320.122 -213.557 -147.733 0 35.8657 3138.43 -125.807 1.69807 284.799 1024.78
5497.68
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #4
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #1-3
> sequence chain #4/A,B,C
Alignment identifier is 1
> select /A-C:442
51 atoms, 48 bonds, 3 residues, 1 model selected
> select /A-C:442-458
759 atoms, 759 bonds, 51 residues, 1 model selected
> show sel atoms
> select clear
> show atoms
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9AAD0819-1F77-4105-8C90-484614A2DB67/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9AAD0819-1F77-4105-8C90-484614A2DB67/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24598
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24599
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24600
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24601
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24602
pose -9739.49 18122.9 6294.95 39.8143 388.026 -150.502 -1311.9 1594.07
-94.7271 -329.737 -177.791 -39.4595 0 35.9341 7971.42 -112.931 0 302.149
1038.34 23831.1
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAEHGVRTARQAATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/50E186F9-8AD0-4530-A21D-B35F1A286484/MATNLQRGNLAHDQVRPARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/50E186F9-8AD0-4530-A21D-B35F1A286484/MATNLQRGNLAHDQVRPARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9693.27 16881.5 6247.75 40.142 388.052 -156.098 -1317.6 1804.74 -92.1992
-326.198 -177.402 -39.4595 0 36.2885 7991.58 -112.262 0 288.754 1066 22830.4
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__1.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -8018.13 52021.8 5488.06 39.6483 384.485 -187.824 -800.964 1980.78
-94.9382 -187.551 -117.742 -23.7858 0 65.2895 7953.75 -108.491 0 292.567
1054.61 59741.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24589
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24590
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24591
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24592
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24593
pose -8082.38 64254.4 5586.92 39.7419 385.653 -194.911 -801.513 1866.45
-96.141 -187.551 -113.632 -23.7858 0 45.6005 7954.01 -101.174 0 294.097
1108.52 71934.3
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb #4
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 2 time(s)]
> hide #2-4 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #3 target m
> hide #4 target m
> show #2 target m
> hide #3 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #3 target m
> hide #4 target m
> show #2 target m
> hide #3 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #3 target m
> hide #4 target m
> show #2 target m
> hide #3 target m
> show #3 target m
> hide #2 target m
> show #2 target m
> hide #3 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #1 target m
> hide #4 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #1 target m
> hide #4 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #1 target m
> hide #4 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #1 target m
> hide #4 target m
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B81A095D-5C45-4A0C-B184-AAEA5E66FDCC/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B81A095D-5C45-4A0C-B184-AAEA5E66FDCC/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
---
warnings | Ignored bad PDB record found on line 24604
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24605
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24606
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24607
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24608
pose -9722.86 18158.7 6291.36 39.8525 387.324 -151.629 -1294.59 1594.07
-90.2176 -326.14 -177.866 -39.4595 0 37.774 7994.25 -123.308 0 288.993 1028.64
23894.9
3318 messages similar to the above omitted
Chain information for MSTNLQRGNLAEHGVRTARQAATADY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BF1C6DEA-0B27-4F2B-883A-88680521DB1A/MSTNLQRGNLAHDQVRPARQAATADY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BF1C6DEA-0B27-4F2B-883A-88680521DB1A/MSTNLQRGNLAHDQVRPARQAATADY__1.pdb
---
warnings | Ignored bad PDB record found on line 24625
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24626
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24627
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24628
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24629
pose -9713.98 18345.8 6273.78 39.8107 387.73 -158.494 -1303.73 1608.99
-97.0381 -326.063 -175.499 -39.4595 0 36.1793 8035.01 -124.935 0 275.597
1044.91 24108.6
3318 messages similar to the above omitted
Chain information for MSTNLQRGNLAHDQVRPARQAATADY__1.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/EAA52BEB-5FC2-4EAD-A81D-ED20B1DB8856/VSTNAQRGNNIKQGSTIDHRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/EAA52BEB-5FC2-4EAD-A81D-ED20B1DB8856/VSTNAQRGNNIKQGSTIDHRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9693.8 11144.7 6293.77 39.912 392.89 -162.123 -1289.39 1594.07 -90.1243
-325.946 -178.331 -39.4595 0 43.497 8030.65 -124.509 0 280.716 1031.64 16948.1
3324 messages similar to the above omitted
Chain information for VSTNAQRGNNIKQGSTIDHRQAATADV__1.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/374A012C-7437-44A0-B9C7-7E7BC9327C02/VSTNFQTHPVLSESSSGNRQAAAADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/374A012C-7437-44A0-B9C7-7E7BC9327C02/VSTNFQTHPVLSESSSGNRQAAAADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24526
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24527
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24528
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24529
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24530
pose -9745.76 13319.8 6328.9 39.6563 383.541 -152.569 -1327.02 1597.96
-94.3902 -320.122 -169.093 -41.1023 0 38.9892 8020.67 -123.044 0 279.14
1067.56 19103.1
3318 messages similar to the above omitted
Chain information for VSTNFQTHPVLSESSSGNRQAAAADV__1.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/A47619E7-4B82-4E65-94F8-1ABB70D621CB/VSTNLEGLRDSDAGIQRSNRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/A47619E7-4B82-4E65-94F8-1ABB70D621CB/VSTNLEGLRDSDAGIQRSNRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24610
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24611
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24612
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24613
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24614
pose -9769.03 13845.9 6346 39.8644 386.638 -163.74 -1351.76 1594.07 -97.6146
-323.413 -172.164 -40.3679 0 36.6254 8072.01 -114.713 0 275.974 1047.1 19611.4
3324 messages similar to the above omitted
Chain information for VSTNLEGLRDSDAGIQRSNRQAATADV__1.pdb #5
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/3CE322E6-A611-4674-98CF-
> EB323964A8EE/VSTNLGGKFVERTDGQRGNLQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/3CE322E6-A611-4674-98CF-
EB323964A8EE/VSTNLGGKFVERTDGQRGNLQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24607
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24608
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24609
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24610
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24611
pose -9732.07 15274.9 6277.36 39.9495 385.663 -156.339 -1316.14 1594.07
-99.2386 -322.402 -169.093 -39.4595 0 42.0265 8026.96 -114.748 0 291.232
1040.62 21023.3
3324 messages similar to the above omitted
Chain information for VSTNLGGKFVERTDGQRGNLQAATADV__1.pdb #6
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D449F17C-EE37-490B-9FED-2EF14F253FFE/VSTNLHRGNLMMEKGSEAQRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D449F17C-EE37-490B-9FED-2EF14F253FFE/VSTNLHRGNLMMEKGSEAQRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24640
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24641
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24642
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24643
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24644
pose -9687.15 8656.93 6255.74 39.723 384.605 -156.705 -1311.42 1594.07
-90.1243 -326.141 -170.605 -41.9298 0 37.7339 8016.17 -123.287 0 281.815
1027.92 14387.3
3324 messages similar to the above omitted
Chain information for VSTNLHRGNLMMEKGSEAQRQAATADV__1.pdb #7
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9934C4F7-D5D5-4DAE-88D2-B050A0AA6B15/VSTNLKQPQIQSGVDQRGNRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9934C4F7-D5D5-4DAE-88D2-B050A0AA6B15/VSTNLKQPQIQSGVDQRGNRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24646
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24647
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24648
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24649
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24650
pose -9848.86 18193.5 6457.65 40.0394 387.952 -156.818 -1362.86 1596.4
-99.9531 -325.181 -172.57 -43.9966 0 37.2542 8068.15 -116.909 0 270.576
1047.09 23971.4
3324 messages similar to the above omitted
Chain information for VSTNLKQPQIQSGVDQRGNRQAATADV__1.pdb #8
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/6A610587-B5DD-40EF-8064-9FA38260F849/VSTNLQRGNAAAAGNHAKYAAAARQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/6A610587-B5DD-40EF-8064-9FA38260F849/VSTNLQRGNAAAAGNHAKYAAAARQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24703
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24704
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24705
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24706
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24707
pose -9688.41 10080.4 6253.58 39.8007 386.37 -167.149 -1296.58 1594.07
-96.7887 -326.024 -175.499 -39.4595 0 36.5655 8006.38 -120.27 0 313.621
1024.55 15825.1
3348 messages similar to the above omitted
Chain information for VSTNLQRGNAAAAGNHAKYAAAARQAATADV__1.pdb #9
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 7 time(s)]
> hide #2-9 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #6 target m
> hide #5 target m
> show #7 target m
> hide #6 target m
> show #8 target m
> hide #7 target m
> show #9 target m
> hide #8 target m
> show #9 atoms
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B4C2AF32-2167-4541-AAEA-261EA7DDE048/MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B4C2AF32-2167-4541-AAEA-261EA7DDE048/MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24610
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24611
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24612
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24613
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24614
pose -7994.24 52100.6 5474.71 39.5868 385.322 -191.564 -791.336 1746.9
-94.9526 -187.551 -116.656 -23.7835 0 41.2829 7941.1 -101.434 0 280.701
1143.79 59652.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb #10
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #9 models
> view clip false
> show target m
> hide target m
> show #10 models
> show #9 models
> hide #9 models
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -8018.13 52021.8 5488.06 39.6483 384.485 -187.824 -800.964 1980.78
-94.9382 -187.551 -117.742 -23.7858 0 65.2895 7953.75 -108.491 0 292.567
1054.61 59741.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/BC1F25AE-54DA-4907-9544-6C5506739F2F/MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24589
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24590
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24591
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24592
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24593
pose -8082.38 64254.4 5586.92 39.7419 385.653 -194.911 -801.513 1866.45
-96.141 -187.551 -113.632 -23.7858 0 45.6005 7954.01 -101.174 0 294.097
1108.52 71934.3
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTYNL__1.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B4C2AF32-2167-4541-AAEA-261EA7DDE048/MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B4C2AF32-2167-4541-AAEA-261EA7DDE048/MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24610
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24611
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24612
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24613
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24614
pose -7994.24 52100.6 5474.71 39.5868 385.322 -191.564 -791.336 1746.9
-94.9526 -187.551 -116.656 -23.7835 0 41.2829 7941.1 -101.434 0 280.701
1143.79 59652.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B81A095D-5C45-4A0C-B184-AAEA5E66FDCC/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B81A095D-5C45-4A0C-B184-AAEA5E66FDCC/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
---
warnings | Ignored bad PDB record found on line 24604
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24605
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24606
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24607
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24608
pose -9722.86 18158.7 6291.36 39.8525 387.324 -151.629 -1294.59 1594.07
-90.2176 -326.14 -177.866 -39.4595 0 37.774 7994.25 -123.308 0 288.993 1028.64
23894.9
3318 messages similar to the above omitted
Chain information for MSTNLQRGNLAEHGVRTARQAATADY__1.pdb #4
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 2 time(s)]
> hide target m
> show #1 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #1 target m
> hide #4 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #2 target m
> hide #3 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/ADA12392-5DF2-4277-A205-6AA7C14347B3/VSTNFQTHPVLSESSSGNRQAAAADV__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/ADA12392-5DF2-4277-A205-6AA7C14347B3/VSTNFQTHPVLSESSSGNRQAAAADV__2.pdb
---
warnings | Ignored bad PDB record found on line 24526
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24527
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24528
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24529
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24530
pose -9719.16 17017.4 6310.46 39.815 380.016 -147.54 -1323.16 1652.98 -91.5231
-320.122 -178.393 -39.7047 0 37.2527 8019.37 -111.48 0 279.14 1076.91 22882.3
3318 messages similar to the above omitted
Chain information for VSTNFQTHPVLSESSSGNRQAAAADV__2.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A:363-367/B:891-895/C:1419-1423
225 atoms, 225 bonds, 15 residues, 1 model selected
> select /A:363-389/B:891-917/C:1419-1445
1125 atoms, 1131 bonds, 81 residues, 1 model selected
> show sel atoms
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9AAD0819-1F77-4105-8C90-484614A2DB67/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/9AAD0819-1F77-4105-8C90-484614A2DB67/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24598
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24599
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24600
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24601
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24602
pose -9739.49 18122.9 6294.95 39.8143 388.026 -150.502 -1311.9 1594.07
-94.7271 -329.737 -177.791 -39.4595 0 35.9341 7971.42 -112.931 0 302.149
1038.34 23831.1
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAEHGVRTARQAATGTY__1.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #2 target m
> show #2 target m
> hide #1 target m
> show #1 target m
> hide #2 target m
> show #2 target m
> hide #1 target m
> show #1 target m
> hide #2 target m
> show #2 target m
> hide #1 target m
> show #1 target m
> hide #2 target m
> show #2 target m
> hide #1 target m
> show #1 target m
> hide #2 target m
> select clear
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4C407BFD-D6AA-4F9F-9A41-FF2EE808115B/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4C407BFD-D6AA-4F9F-9A41-FF2EE808115B/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24178
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24179
#BEGIN_POSE_ENERGIES_TABLE MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24180
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24181
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24182
pose -9105.1 6324.71 5631.69 22.4099 347.633 -178.89 -1670.87 924.218 -97.6146
-320.122 -221.365 -127.065 0 35.9598 3182.81 -126.404 0.23392 275.217 1025.61
5923.06
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/18E8D34A-C544-4AC5-9DD3-1E96E5D5B1EE/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/18E8D34A-C544-4AC5-9DD3-1E96E5D5B1EE/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9117.17 6368.28 5645.87 21.9804 347.705 -191.167 -1683.29 884.273
-97.6146 -320.122 -207.396 -131.546 0 36.1999 3238.34 -128.117 0.2709 271.643
1021.26 5959.4
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb #4
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 1 time(s)]
> close #1-2
> sequence chain #3/A,B,C
Alignment identifier is 1
> sequence chain #4/A,B,C
Alignment identifier is 2
> hide #4 models
> select #3/A-C:442-443
81 atoms, 78 bonds, 6 residues, 1 model selected
> select #3/A-C:442-444
123 atoms, 120 bonds, 9 residues, 1 model selected
> select #3/A-C:442-443
81 atoms, 78 bonds, 6 residues, 1 model selected
> select #3/A-C:442-458
735 atoms, 738 bonds, 51 residues, 1 model selected
> show sel atoms
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/E2A92555-AD83-4873-ACFF-
> AD7EC5C532D9/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/E2A92555-AD83-4873-ACFF-
AD7EC5C532D9/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9175.05 9874.11 5619.12 23.1652 352.333 -177.277 -1665.22 918.684
-97.6146 -320.122 -224.116 -124.927 0 35.9598 3175.51 -128.62 0.42371 276.746
1023.29 9386.39
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #1 models
> hide #3 models
> select add #3
24165 atoms, 24540 bonds, 1557 residues, 1 model selected
> sequence chain #3/A,B,C
Alignment identifier is 3
> select subtract #3
Nothing selected
> show #4 target m
[Repeated 1 time(s)]
> select clear
> show target m
> sequence chain #3/A,B,C
Alignment identifier is 1
> sequence chain #4/A,B,C
Alignment identifier is 2
> sequence chain #1/A,B,C
Alignment identifier is 3
> hide #3 models
> hide #4 models
> select #1/A-C:442-443
81 atoms, 78 bonds, 6 residues, 1 model selected
> select #1/A-C:442-460
834 atoms, 837 bonds, 57 residues, 1 model selected
> show sel atoms
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/18E8D34A-C544-4AC5-9DD3-1E96E5D5B1EE/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/18E8D34A-C544-4AC5-9DD3-1E96E5D5B1EE/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9117.17 6368.28 5645.87 21.9804 347.705 -191.167 -1683.29 884.273
-97.6146 -320.122 -207.396 -131.546 0 36.1999 3238.34 -128.117 0.2709 271.643
1021.26 5959.4
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/31D4F870-732C-40A7-B6AE-86BEE200440E/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0002.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/31D4F870-732C-40A7-B6AE-86BEE200440E/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0002.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0002.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9082.08 6366.94 5615.11 22.2027 341.919 -187.334 -1669.15 882.365
-97.6146 -320.122 -198.936 -124.579 0 36.1999 3213.45 -128.117 0.22178 271.643
1021.26 5963.37
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0002.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/27686B66-53BE-4439-8300-8FA62B1CB39F/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0003.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/27686B66-53BE-4439-8300-8FA62B1CB39F/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0003.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0003.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9117.3 6388.05 5604.23 23.456 348.62 -182.042 -1673.92 886.171 -97.6146
-320.122 -198.766 -135.858 0 36.1999 3136.77 -128.117 0.45119 271.643 1021.26
5863.12
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0003.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/336ECDD1-344C-4C93-894D-5F432B02058F/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0004.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/336ECDD1-344C-4C93-894D-5F432B02058F/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0004.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0004.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9083.22 6321.53 5609.77 22.0529 345.219 -182.239 -1674.69 886.456
-97.6146 -320.122 -213.152 -123.696 0 36.1999 3191.32 -128.117 0.19069 271.643
1021.26 5882.79
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0004.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/27EDDB98-83B5-4CB0-92BC-3BD3C1F4988C/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0005.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/27EDDB98-83B5-4CB0-92BC-3BD3C1F4988C/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0005.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0005.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9080.23 6306.18 5618.51 22.8739 349.274 -185.984 -1665.13 889.003
-97.6146 -320.122 -200.495 -127.01 0 36.1999 3205.75 -128.117 0.31226 271.643
1021.26 5916.31
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0005.pdb #5
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 3 time(s)]
> show atoms
> hide #2-5 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #2 models
> show #1 models
> hide #2 models
> show #2 models
> show #4 models
> hide #4 models
> show #5 models
> show #4 models
> hide #1 models
> hide #2 models
> hide #4 models
> hide #5 models
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -8018.13 52021.8 5488.06 39.6483 384.485 -187.824 -800.964 1980.78
-94.9382 -187.551 -117.742 -23.7858 0 65.2895 7953.75 -108.491 0 292.567
1054.61 59741.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> close
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D664E51E-4C75-4ABE-8AEE-5700FC630E22/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D664E51E-4C75-4ABE-8AEE-5700FC630E22/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -9714.01 18595.6 6285.73 39.8103 386.278 -153.587 -1321.63 1601.21
-95.6222 -330.922 -180.403 -39.4595 0 38.9146 7951.26 -114.391 0 292.567
1050.48 24291.9
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2CFF68D2-ACB0-450A-9086-79C18D7DC9DE/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -8018.13 52021.8 5488.06 39.6483 384.485 -187.824 -800.964 1980.78
-94.9382 -187.551 -117.742 -23.7858 0 65.2895 7953.75 -108.491 0 292.567
1054.61 59741.5
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> close #2
> show atoms
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/30DC2AF1-30F5-40A3-9497-F7EC478B63C8/MATNNQRGNLAEHGVRTARAPATGTY__2.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/30DC2AF1-30F5-40A3-9497-F7EC478B63C8/MATNNQRGNLAEHGVRTARAPATGTY__2.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -9739.53 21588.5 6300.16 40.0093 386.659 -151.136 -1328.65 1601.21
-94.8707 -325.933 -177.987 -39.4598 0 38.0782 7967.02 -120.728 0 292.567
1050.45 27286.4
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__2.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4B9634D3-C67A-423B-8A6B-35E751738FB7/MATNNQRGNLAEHGVRTARAPATGTY__3.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4B9634D3-C67A-423B-8A6B-35E751738FB7/MATNNQRGNLAEHGVRTARAPATGTY__3.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -9690.17 21936.6 6267.08 39.8845 386.943 -153.019 -1307.5 1601.21
-90.1243 -326.192 -177.987 -39.4595 0 35.594 7964.57 -122.256 0 292.567
1018.57 27636.3
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__3.pdb #3
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 1 time(s)]
> show atoms
> hide #2 models
> close
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/ECAD92AA-
> ED4F-4A8D-A51C-CD5EADF96729/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/ECAD92AA-
ED4F-4A8D-A51C-CD5EADF96729/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24598
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24599
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24600
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24601
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24602
pose -9742.69 24391.9 6286.89 39.8656 388.746 -155.762 -1313.27 1594.07
-96.9789 -326.022 -176.234 -39.4595 0 39.6845 7973.36 -116.36 0 302.149 1033.3
30083.2
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAEHGVRTARQAATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4BD4994A-72AD-4ACA-9BAA-D35666018028/MATNLQRGNLAHDQVRPARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4BD4994A-72AD-4ACA-9BAA-D35666018028/MATNLQRGNLAHDQVRPARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9714.19 17557.2 6259.26 39.854 388.713 -150.451 -1312.08 1597.34
-90.1243 -326.156 -179.167 -39.4595 0 38.9651 7991.66 -119.058 0 288.754
1019.71 23250.8
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAHDQVRPARQAATGTY__1.pdb #2
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/8741FC92-5346-496F-8E8C-C655AD9B22E0/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/8741FC92-5346-496F-8E8C-C655AD9B22E0/MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24202
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24203
#BEGIN_POSE_ENERGIES_TABLE MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24204
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24205
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24206
pose -9116.73 6245.17 5564.26 26.2134 349.637 -176.379 -1699.87 886.415
-97.6146 -320.122 -208.978 -141.029 0 35.8657 3159.11 -125.807 1.07721 284.799
1024.78 5690.79
1566 messages similar to the above omitted
Chain information for MATNLQRGNRQAATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #3
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D664E51E-4C75-4ABE-8AEE-5700FC630E22/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D664E51E-4C75-4ABE-8AEE-5700FC630E22/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -9714.01 18595.6 6285.73 39.8103 386.278 -153.587 -1321.63 1601.21
-95.6222 -330.922 -180.403 -39.4595 0 38.9146 7951.26 -114.391 0 292.567
1050.48 24291.9
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #4
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/8AC1A12D-C5E4-4251-8F40-428B2AF47603/MATNNQRGNLAHDQVRPARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/8AC1A12D-C5E4-4251-8F40-428B2AF47603/MATNNQRGNLAHDQVRPARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24595
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24596
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24597
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24598
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24599
pose -9696.02 16881.1 6254.91 39.6775 386.663 -155.123 -1316.82 1625.93
-94.2128 -326.259 -188.056 -39.4595 0 35.6094 7954.82 -119.478 0 279.172
1069.29 22591.7
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAHDQVRPARAPATGTY__1.pdb #5
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FBD1A9E2-6191-47E1-93FA-5F3DB0A43C5A/MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FBD1A9E2-6191-47E1-93FA-5F3DB0A43C5A/MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb
---
warnings | Ignored bad PDB record found on line 24610
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24611
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24612
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24613
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24614
pose -9747.87 21017.5 6253.56 39.6902 387.205 -156.524 -1328.7 1614.24
-94.6382 -328.006 -180.568 -40.6925 0 35.3967 7956.9 -128.673 0 280.701
1045.16 26624.6
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAHDQVRPARAPATGTYNL__1.pdb #6
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4C407BFD-D6AA-4F9F-9A41-FF2EE808115B/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/4C407BFD-D6AA-4F9F-9A41-FF2EE808115B/MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24178
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24179
#BEGIN_POSE_ENERGIES_TABLE MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24180
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24181
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24182
pose -9105.1 6324.71 5631.69 22.4099 347.633 -178.89 -1670.87 924.218 -97.6146
-320.122 -221.365 -127.065 0 35.9598 3182.81 -126.404 0.23392 275.217 1025.61
5923.06
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTY_aav2_trimer_INPUT_fixbb_0001.pdb #7
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/E2A92555-AD83-4873-ACFF-
> AD7EC5C532D9/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/E2A92555-AD83-4873-ACFF-
AD7EC5C532D9/MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24193
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24194
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24195
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24196
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24197
pose -9175.05 9874.11 5619.12 23.1652 352.333 -177.277 -1665.22 918.684
-97.6146 -320.122 -224.116 -124.927 0 35.9598 3175.51 -128.62 0.42371 276.746
1023.29 9386.39
1566 messages similar to the above omitted
Chain information for MATNNQRGNRAPATGTYNL_aav2_trimer_INPUT_fixbb_0001.pdb #8
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2C6C2B3B-111F-4B6A-A0A6-95E04626C9E0/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/2C6C2B3B-111F-4B6A-A0A6-95E04626C9E0/MSTNLQRGNLAEHGVRTARQAATADY__1.pdb
---
warnings | Ignored bad PDB record found on line 24604
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24605
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24606
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24607
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24608
pose -9665.81 17873.2 6259.61 39.8679 388.872 -163.798 -1302.76 1594.07
-91.3315 -328.004 -175.499 -39.4595 0 37.408 7993.91 -114.35 0 288.993 1045.31
23640.3
3318 messages similar to the above omitted
Chain information for MSTNLQRGNLAEHGVRTARQAATADY__1.pdb #9
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/604BA23C-45EA-4003-A237-936F023B8C8A/MSTNLQRGNLAHDQVRPARQAATADY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/604BA23C-45EA-4003-A237-936F023B8C8A/MSTNLQRGNLAHDQVRPARQAATADY__1.pdb
---
warnings | Ignored bad PDB record found on line 24625
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24626
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24627
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24628
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24629
pose -9772.36 20064.3 6315.06 40.1416 389.613 -153.773 -1330.94 1601.98
-95.4482 -329.013 -184.05 -39.4595 0 40.1689 8003.52 -122.509 0 275.597
1054.39 25757.2
3318 messages similar to the above omitted
Chain information for MSTNLQRGNLAHDQVRPARQAATADY__1.pdb #10
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/18E8D34A-C544-4AC5-9DD3-1E96E5D5B1EE/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/18E8D34A-C544-4AC5-9DD3-1E96E5D5B1EE/MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
---
warnings | Ignored bad PDB record found on line 24208
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24209
#BEGIN_POSE_ENERGIES_TABLE MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb
Ignored bad PDB record found on line 24210
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24211
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24212
pose -9117.17 6368.28 5645.87 21.9804 347.705 -191.167 -1683.29 884.273
-97.6146 -320.122 -207.396 -131.546 0 36.1999 3238.34 -128.117 0.2709 271.643
1021.26 5959.4
1566 messages similar to the above omitted
Chain information for MSTNLQRGNRQAATADY_aav2_trimer_INPUT_fixbb_0001.pdb #11
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7EF69882-C241-42EA-9C99-6FDE6F918FC1/VSTNLEGLRDSDAGIQRSNRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7EF69882-C241-42EA-9C99-6FDE6F918FC1/VSTNLEGLRDSDAGIQRSNRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24610
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24611
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24612
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24613
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24614
pose -9809.02 15560 6395.53 39.9501 385.686 -160.451 -1317.22 1594.07 -97.6146
-320.122 -175.277 -40.3679 0 40.5587 8059.55 -111.637 0 275.974 1065.42
21385.1
3324 messages similar to the above omitted
Chain information for VSTNLEGLRDSDAGIQRSNRQAATADV__1.pdb #12
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/1EFDAAC7-A02B-4024-A050-90E4A72B1B52/VSTNLGGKFVERTDGQRGNLQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/1EFDAAC7-A02B-4024-A050-90E4A72B1B52/VSTNLGGKFVERTDGQRGNLQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24607
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24608
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24609
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24610
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24611
pose -9777.62 15874 6334.04 40.0188 386.101 -156.855 -1342.39 1594.07 -101.843
-323.43 -169.093 -39.4595 0 36.9433 8027.07 -123.185 0 291.232 1033.13 21582.7
3324 messages similar to the above omitted
Chain information for VSTNLGGKFVERTDGQRGNLQAATADV__1.pdb #13
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FEAED0D6-DCF6-450C-8D7C-E04B2E38435B/VSTNLHRGNLMMEKGSEAQRQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/FEAED0D6-DCF6-450C-8D7C-E04B2E38435B/VSTNLHRGNLMMEKGSEAQRQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24640
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24641
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24642
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24643
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24644
pose -9720.54 10140.9 6286.97 39.8096 384.442 -154.809 -1308.26 1594.07
-94.0565 -326.138 -170.489 -39.4595 0 35.8396 8004.8 -117.082 0 281.815
1028.83 15866.6
3324 messages similar to the above omitted
Chain information for VSTNLHRGNLMMEKGSEAQRQAATADV__1.pdb #14
---
Chain | Description
A B C | No description available
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7BD89B01-74CA-4EDA-A2BD-10344C30C221/VSTNLPRNYVDTISMQRGNQAAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/7BD89B01-74CA-4EDA-A2BD-10344C30C221/VSTNLPRNYVDTISMQRGNQAAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24634
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24635
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24636
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24637
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24638
pose -9825.4 12766 6354.04 39.9549 384.286 -146.891 -1324.49 1595.59 -99.3655
-320.122 -169.576 -39.4595 0 37.7428 8004.78 -130.307 0 293.511 1034.2 18454.5
3324 messages similar to the above omitted
Chain information for VSTNLPRNYVDTISMQRGNQAAATADV__1.pdb #15
---
Chain | Description
A B C | No description available
Computing secondary structure
[Repeated 13 time(s)]
> show atoms
> hide #2-15 target m
> show #2 target m
> hide #1 target m
> show #3 target m
> hide #2 target m
> show #4 target m
> hide #3 target m
> show #5 target m
> hide #4 target m
> show #6 target m
> hide #5 target m
> show #7 target m
> hide #6 target m
> show #8 target m
> hide #7 target m
> show #7 target m
> hide #8 target m
> show #6 target m
> hide #7 target m
> show #7 target m
> hide #6 target m
> show #8 target m
> hide #7 target m
> show #9 target m
> hide #8 target m
> show #10 target m
> hide #9 target m
> show #11 target m
> hide #10 target m
> show #12 target m
> hide #11 target m
> show #11 target m
> hide #12 target m
> show #12 target m
> hide #11 target m
> show #13 target m
> hide #12 target m
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/75AAC0DD-6AE8-4B65-BC87-337893A8A8F5/VSTNLQRGNAAASARAGAPAARQAATADV__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/75AAC0DD-6AE8-4B65-BC87-337893A8A8F5/VSTNLQRGNAAASARAGAPAARQAATADV__1.pdb
---
warnings | Ignored bad PDB record found on line 24598
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24599
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24600
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24601
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24602
pose -9673.17 8897.3 6247.33 39.7231 383.313 -154.833 -1331.25 1730.48
-98.7505 -329.548 -177.323 -39.4595 0 35.0922 7992.4 -111.141 0 308.884
1029.25 14748.3
3336 messages similar to the above omitted
Chain information for VSTNLQRGNAAASARAGAPAARQAATADV__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> show atoms
> close session
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D664E51E-4C75-4ABE-8AEE-5700FC630E22/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/D664E51E-4C75-4ABE-8AEE-5700FC630E22/MATNNQRGNLAEHGVRTARAPATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -9714.01 18595.6 6285.73 39.8103 386.278 -153.587 -1321.63 1601.21
-95.6222 -330.922 -180.403 -39.4595 0 38.9146 7951.26 -114.391 0 292.567
1050.48 24291.9
3318 messages similar to the above omitted
Chain information for MATNNQRGNLAEHGVRTARAPATGTY__1.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> sequence chain #1/A,B,C
Alignment identifier is 1
> select /A:363-364/B:891-892/C:1419-1420
81 atoms, 78 bonds, 6 residues, 1 model selected
> select /A:363-388/B:891-916/C:1419-1444
1131 atoms, 1137 bonds, 78 residues, 1 model selected
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/55DDBF5B-E4FF-406D-BC53-59586D37B05E/MATNNQRGNLAEHGVRTARAPATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/55DDBF5B-E4FF-406D-BC53-59586D37B05E/MATNNQRGNLAEHGVRTARAPATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
---
warnings | Ignored bad PDB record found on line 24574
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24575
#BEGIN_POSE_ENERGIES_TABLE
MATNNQRGNLAEHGVRTARAPATGTY_aav2_trimer_INPUT_remodeled_0001.pdb
Ignored bad PDB record found on line 24576
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24577
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24578
pose -9714.01 18595.6 6285.73 39.8103 386.278 -153.587 -1321.63 1601.21
-95.6222 -330.922 -180.403 -39.4595 0 38.9146 7951.26 -114.391 0 292.567
1050.48 24291.9
1593 messages similar to the above omitted
Chain information for
MATNNQRGNLAEHGVRTARAPATGTY_aav2_trimer_INPUT_remodeled_0001.pdb #2
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #2 models
> show #2 models
> hide #1 models
> show #1 models
> sequence chain #1/A,B,C
Alignment identifier is 2
> close #1
> sequence chain #2/A,B,C
Alignment identifier is 1
> select /A:363-364/B:891-892/C:1419-1420
81 atoms, 78 bonds, 6 residues, 1 model selected
> select /A:363-373/B:891-901/C:1419-1429
480 atoms, 477 bonds, 33 residues, 1 model selected
> select clear
> show atoms
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B2A4069E-0E06-4B4E-AF89-AB8D59124817/VSTNAQRGNNIKQGSTIDHRQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/B2A4069E-0E06-4B4E-AF89-AB8D59124817/VSTNAQRGNNIKQGSTIDHRQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb
---
warnings | Ignored bad PDB record found on line 24619
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24620
#BEGIN_POSE_ENERGIES_TABLE
VSTNAQRGNNIKQGSTIDHRQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb
Ignored bad PDB record found on line 24621
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24622
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24623
pose -9719.96 9723.05 6321.33 40.0247 387.934 -152.519 -1345.58 1594.07 -97.72
-331.403 -177.759 -39.4595 0 38.0061 8029.02 -114.574 0 280.716 1057.96
15493.1
1596 messages similar to the above omitted
Chain information for
VSTNAQRGNNIKQGSTIDHRQAATADV_aav2_trimer_INPUT_remodeled_0001.pdb #1
---
Chain | Description
A B C | No description available
Computing secondary structure
> close
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/C8711C7F-45EC-464C-B078-0DE7419FB070/MSTNLQRGNRQAATADY_cg.pdb
> style sphere
Changed 1255 atom styles
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/0D4BAA1E-3D5F-4E1F-8D1B-5F56AD3CD7BE/MATNLQRGNLAEHGVRTARQAATGTY_cleaned_chainA_noH.pdb
Chain information for MATNLQRGNLAEHGVRTARQAATGTY_cleaned_chainA_noH.pdb #2
---
Chain | Description
A | No description available
Computing secondary structure
> open
> /Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/ECAD92AA-
> ED4F-4A8D-A51C-CD5EADF96729/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
Summary of feedback from opening
/Users/tht13/Library/Caches/com.binarynights.ForkLift/FileCache/ECAD92AA-
ED4F-4A8D-A51C-CD5EADF96729/MATNLQRGNLAEHGVRTARQAATGTY__1.pdb
---
warnings | Ignored bad PDB record found on line 24598
# All scores below are weighted scores, not raw scores.
Ignored bad PDB record found on line 24599
#BEGIN_POSE_ENERGIES_TABLE
Ignored bad PDB record found on line 24600
label fa_atr fa_rep fa_sol fa_intra_rep fa_intra_sol_xover4 lk_ball_wtd
fa_elec pro_close hbond_sr_bb hbond_lr_bb hbond_bb_sc hbond_sc dslf_fa13 omega
fa_dun p_aa_pp yhh_planarity ref rama_prepro total
Ignored bad PDB record found on line 24601
weights 1 0.55 1 0.005 1 1 1 1.25 1 1 1 1 1.25 0.4 0.7 0.6 0.625 1 0.45 NA
Ignored bad PDB record found on line 24602
pose -9742.69 24391.9 6286.89 39.8656 388.746 -155.762 -1313.27 1594.07
-96.9789 -326.022 -176.234 -39.4595 0 39.6845 7973.36 -116.36 0 302.149 1033.3
30083.2
3318 messages similar to the above omitted
Chain information for MATNLQRGNLAEHGVRTARQAATGTY__1.pdb #3
---
Chain | Description
A B C | No description available
Computing secondary structure
> hide #!1 models
> close session
> open 8fz0
Summary of feedback from opening 8fz0 fetched from pdb
---
note | Fetching compressed mmCIF 8fz0 from http://files.rcsb.org/download/8fz0.cif
8fz0 title:
Cryo-EM Structure of empty AAV2 capsid [more info...]
Chain information for 8fz0 #1
---
Chain | Description | UniProt
1 2 3 4 5 6 7 8 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h i j k l m n o p q r s t u v w x y z | Capsid protein VP1 | CAPSD_AAV2S 1-735
960 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> show cartoons
> hide atoms
> color #1 #deefdfff
> sequence chain
> #1/A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v,w,x,y,z,1,2,3,4,5,6,7,8
Alignment identifier is 1
> color #1:381-386 red
> color #1:529-538 red
> color #1:529-538 blue
> color #1:553-563 green
> color #1 #eef2f1ff
> color #1 white
> color #1:553-563 redd
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms',
'fromcartoons', 'fromribbons', or 'random' or a keyword
> color #1:553-563 red
> select add /L:593
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add /O:446
11 atoms, 9 bonds, 2 residues, 1 model selected
> select add /L:509
21 atoms, 19 bonds, 3 residues, 1 model selected
> select add /r:459
32 atoms, 29 bonds, 4 residues, 1 model selected
> select up
206 atoms, 207 bonds, 24 residues, 1 model selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select up
249120 atoms, 256500 bonds, 31140 residues, 1 model selected
> select down
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select ~sel & ##selected
236664 atoms, 243675 bonds, 29583 residues, 1 model selected
> hide sel atoms
> hide sel cartoons
> undo
> select clear
> color #1:489-496 blue
> namesel
Unknown command: namesel
> name
Missing or invalid "name" argument: Expected a text string
> name VR-I #1:262-269
> select VR-I
3120 atoms, 3060 bonds, 480 residues, 1 model selected
> select up
4920 atoms, 4980 bonds, 660 residues, 1 model selected
> select down
3120 atoms, 3060 bonds, 480 residues, 1 model selected
> select VR-II
Expected an objects specifier or a keyword
> select clear
> select all
249120 atoms, 256500 bonds, 31140 residues, 1 model selected
> color sel white
> select clear
> name VR-IX #1:707-723
> color VR-IX red
> name VR-II #1:327-339
> name VR-III #1:381-386
> name VR-IV #1:447-457
> name VR-V #1:489-496
> name VR-VI #1:529-538
> name VR-VII #1:553-563
> name VR-VIII #1:585-593
> name VR-IX #1:707-723
> color all white
Cell requested for row 37 is out of bounds for table with 37 rows! Resizing
table model.
> save /Users/tht13/Documents/VRs/8FZ0_VRs.cxs
——— End of log from Thu Apr 23 13:23:45 2026 ———
> view name session-start
opened ChimeraX session
> select VR-III
2400 atoms, 2340 bonds, 360 residues, 1 model selected
> color sel red
> select clear
> color VR-VII green
> color VR-I yellow
> name
Missing or invalid "name" argument: Expected a text string
> name VR-I :262-268
> name VR-II :326-330
> name VR-III :380-388
> name VR-IV :449-468
> name VR-V :487-504
> name VR-VI :525-541
> name VR-VII :544-556
> name VR-VIII :579-594
> name VR-IX :704-711
> color all white
> save /Users/tht13/Documents/VRs/8FZ0_VRs.cxs
> color VR-VII red
> color VR-IX blue
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #2
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #2
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> view #2 clip false
> ui tool show Matchmaker
> matchmaker #!2 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 8fz0, chain A (#1) with 6nz0, chain A (#2), sequence alignment
score = 3322.3
RMSD between 495 pruned atom pairs is 0.699 angstroms; (across all 499 pairs:
0.741)
> align
Missing or invalid "atoms" argument: empty atom specifier
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #3
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #3
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> align #3/A toAtoms #1/n
Unequal number of atoms to pair, 4155 and 4152
> select #2/Z:446
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
80 atoms, 83 bonds, 8 residues, 1 model selected
> select up
728 atoms, 740 bonds, 95 residues, 1 model selected
> delete sel
> align #3/A toAtoms #1/n
Unequal number of atoms to pair, 4155 and 4152
> close #3
> select #2/Z:601@MG
1 atom, 1 residue, 1 model selected
> delete sel
> undo
Undo failed, probably because structures have been modified.
> close #2
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #2
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #2
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> ui tool show Matchmaker
> matchmaker #!2 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 8fz0, chain A (#1) with 6nz0, chain A (#2), sequence alignment
score = 3322.3
RMSD between 495 pruned atom pairs is 0.699 angstroms; (across all 499 pairs:
0.741)
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #3
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #3
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> ui tool show Matchmaker
> matchmaker #!3 to #1/n 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 8fz0, chain n (#1) with 6nz0, chain A (#3), sequence alignment
score = 3322.3
RMSD between 495 pruned atom pairs is 0.700 angstroms; (across all 499 pairs:
0.742)
> open 6nz0
6nz0 title:
Cryo-EM structure of AAV-2 in complex with AAVR PKD domains 1 and 2 [more
info...]
Chain information for 6nz0 #4
---
Chain | Description | UniProt
A | Capsid protein VP1 | CAPSD_AAV2S 1-735
Z | Dyslexia-associated protein KIAA0319-like protein | K319L_HUMAN 311-597
Non-standard residues in 6nz0 #4
---
MG — magnesium ion
6nz0 mmCIF Assemblies
---
1| complete icosahedral assembly
2| icosahedral asymmetric unit
3| icosahedral pentamer
4| icosahedral 23 hexamer
5| icosahedral asymmetric unit, std point frame
> ui tool show Matchmaker
> matchmaker #!4 to #1/f 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 8fz0, chain f (#1) with 6nz0, chain A (#4), sequence alignment
score = 3316.3
RMSD between 495 pruned atom pairs is 0.700 angstroms; (across all 499 pairs:
0.742)
> hide #1 models
> select #4/A:318
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
211 atoms, 216 bonds, 24 residues, 1 model selected
> select up
4012 atoms, 4131 bonds, 499 residues, 1 model selected
> delete sel
> select #3/A:318
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
211 atoms, 216 bonds, 24 residues, 1 model selected
> select up
4012 atoms, 4131 bonds, 499 residues, 1 model selected
> select up
4155 atoms, 4131 bonds, 642 residues, 1 model selected
> delete sel
> select #2/A:317
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
211 atoms, 216 bonds, 24 residues, 1 model selected
> select up
4012 atoms, 4131 bonds, 499 residues, 1 model selected
> delete sel
> show #1 models
> color all white
> color #2-4 blue
> save /Users/tht13/Documents/VRs/8FZ0_VRs.cxs
> select #1:652-669
7800 atoms, 8100 bonds, 1080 residues, 1 model selected
> select clear
> select VR-IV
8988 atoms, 9048 bonds, 1260 residues, 4 models selected
> show sel atoms
> style sel stick
Changed 8988 atom styles
> color sel byhetero
> sequence chain
> #1/A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v,w,x,y,z,1,2,3,4,5,6,7,8
Alignment identifier is 2
> sequence chain #2/Z#3/Z#4/Z
Alignment identifier is 3
> select clear
> color VR-V red
> color VR-IV red
> color all white
> select #3/Z:410
5 atoms, 4 bonds, 1 residue, 1 model selected
> select clear
> select #3/Z:489
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #2/Z:489
14 atoms, 12 bonds, 2 residues, 2 models selected
> select add #4/Z:490
21 atoms, 18 bonds, 3 residues, 3 models selected
> select up
234 atoms, 231 bonds, 33 residues, 3 models selected
> select up
2184 atoms, 2220 bonds, 285 residues, 3 models selected
> color sel blue
> select clear
> name VR-I #1:262-268
> name VR-II #2:326-330
> name VR-II #1:326-330
> name VR-III #1:380-388
> name VR-IV #1:449-468
> name VR-V #1:487-504
> name VR-VI #1:525-541
> name VR-VII #1:544-556
> name VR-VIII #1:579-594
> name VR-IX #1:704-711
> save /Users/tht13/Documents/VRs/8FZ0_VRs.cxs
——— End of log from Mon Apr 27 10:11:34 2026 ———
> view name session-start
opened ChimeraX session
> show surfaces
> lighting soft
> select add #2
872 atoms, 740 bonds, 5 pseudobonds, 239 residues, 2 models selected
> select add #3
1601 atoms, 1480 bonds, 10 pseudobonds, 335 residues, 5 models selected
> select add #4
2473 atoms, 2220 bonds, 15 pseudobonds, 574 residues, 8 models selected
> color sel orange
> select subtract #2
1601 atoms, 1480 bonds, 10 pseudobonds, 335 residues, 7 models selected
> select subtract #3
872 atoms, 740 bonds, 5 pseudobonds, 239 residues, 4 models selected
> select subtract #4
1 model selected
> select add #4
872 atoms, 740 bonds, 5 pseudobonds, 239 residues, 2 models selected
> select add #3
1601 atoms, 1480 bonds, 10 pseudobonds, 335 residues, 5 models selected
> select add #2
2473 atoms, 2220 bonds, 15 pseudobonds, 574 residues, 8 models selected
> color sel cornflower blue
> select add #1
251593 atoms, 258720 bonds, 15 pseudobonds, 31714 residues, 10 models selected
> select subtract #2
250721 atoms, 257980 bonds, 10 pseudobonds, 31475 residues, 68 models selected
> select subtract #3
249992 atoms, 257240 bonds, 5 pseudobonds, 31379 residues, 65 models selected
> select subtract #4
249120 atoms, 256500 bonds, 31140 residues, 62 models selected
> color sel orange
> select clear
> select #1/f:454@CG2
1 atom, 1 residue, 1 model selected
> select add #1/n:455@CG2
2 atoms, 2 residues, 2 models selected
> select add #1/A:454@CG2
3 atoms, 3 residues, 3 models selected
> select up
21 atoms, 18 bonds, 3 residues, 4 models selected
> select up
114 atoms, 114 bonds, 18 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> select up
249120 atoms, 256500 bonds, 31140 residues, 4 models selected
> select up
249120 atoms, 256500 bonds, 31140 residues, 61 models selected
> select down
60 models selected
> select clear
> select #1/n:455@CB
1 atom, 1 residue, 1 model selected
> select #1/n:455@CG2
1 atom, 1 residue, 1 model selected
> select add #1/A:454@OG1
2 atoms, 2 residues, 2 models selected
> select add #1/f:454@OG1
3 atoms, 3 residues, 3 models selected
> select up
21 atoms, 18 bonds, 3 residues, 4 models selected
> select up
114 atoms, 114 bonds, 18 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> hide sel surfaces
> select clear
> color #1 light gray
> select add #1/f:553
8 atoms, 8 bonds, 1 residue, 1 model selected
> select add #1/n:543
12 atoms, 11 bonds, 2 residues, 2 models selected
> select up
14 atoms, 11 bonds, 3 residues, 3 models selected
> select up
19 atoms, 17 bonds, 3 residues, 3 models selected
> select up
163 atoms, 162 bonds, 22 residues, 3 models selected
> select up
8304 atoms, 8550 bonds, 1038 residues, 3 models selected
> select up
249120 atoms, 256500 bonds, 31140 residues, 3 models selected
> select down
8304 atoms, 8550 bonds, 1038 residues, 61 models selected
> select clear
> select #1/J:302@CG
1 atom, 1 residue, 1 model selected
> select add #1/n:461
10 atoms, 9 bonds, 2 residues, 2 models selected
> select up
12 atoms, 9 bonds, 3 residues, 3 models selected
> select up
26 atoms, 23 bonds, 3 residues, 4 models selected
> select up
168 atoms, 169 bonds, 19 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> select up
249120 atoms, 256500 bonds, 31140 residues, 4 models selected
> select down
12456 atoms, 12825 bonds, 1557 residues, 61 models selected
> color sel orange
> select #1/f:543
4 atoms, 3 bonds, 1 residue, 1 model selected
> select up
23 atoms, 23 bonds, 3 residues, 2 models selected
> select up
4152 atoms, 4275 bonds, 519 residues, 2 models selected
> color sel orange
> select clear
> select #1/y:454@CG2
1 atom, 1 residue, 1 model selected
> select add #1/e:454@CG2
2 atoms, 2 residues, 2 models selected
> select add #1/a:454@CG2
3 atoms, 3 residues, 3 models selected
> select up
21 atoms, 18 bonds, 3 residues, 4 models selected
> select up
114 atoms, 114 bonds, 18 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> color sel orange
> hide sel surfaces
> preset cartoons/nucleotides licorice/ovals
Using preset: Cartoons/Nucleotides / Licorice/Ovals
Changed 240600 atom styles
Preset expands to these ChimeraX commands:
show nucleic
hide protein|solvent|H
surf hide
style (protein|nucleic|solvent) & @@draw_mode=0 stick
~worm
cartoon
cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
cartoon style ~(nucleic|strand) x round
cartoon style (nucleic|strand) x rect
cartoon style protein modeh default arrows f x round width 1 thick 1
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides tube/slab shape ellipsoid
> undo
> show sel surfaces
> hide sel surfaces
> select ~sel & ##selected
236664 atoms, 243675 bonds, 29583 residues, 1 model selected
> select up
249120 atoms, 256500 bonds, 31140 residues, 58 models selected
> select down
236664 atoms, 243675 bonds, 29583 residues, 61 models selected
> show sel surfaces
> select #1/f:454@OG1
1 atom, 1 residue, 1 model selected
> select add #1/n:454@CG2
2 atoms, 2 residues, 2 models selected
> select add #1/A:454@CG2
3 atoms, 3 residues, 3 models selected
> select up
21 atoms, 18 bonds, 3 residues, 4 models selected
> select up
114 atoms, 114 bonds, 18 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> hide sel surfaces
> select clear
> select #1/n:489
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #1/n:462
17 atoms, 16 bonds, 2 residues, 2 models selected
> select add #1/f:449
25 atoms, 23 bonds, 3 residues, 2 models selected
> select add #2/Z:488
31 atoms, 28 bonds, 4 residues, 4 models selected
> select add #3/Z:473
43 atoms, 40 bonds, 5 residues, 6 models selected
> select add #4/Z:489
50 atoms, 46 bonds, 6 residues, 8 models selected
> select up
397 atoms, 396 bonds, 51 residues, 9 models selected
> select up
10488 atoms, 10770 bonds, 1323 residues, 9 models selected
> select up
10491 atoms, 10770 bonds, 1326 residues, 9 models selected
> select up
251593 atoms, 258720 bonds, 31714 residues, 9 models selected
> select down
10491 atoms, 10770 bonds, 1326 residues, 67 models selected
> select add #1/A:277
10498 atoms, 10776 bonds, 1327 residues, 9 models selected
> select up
10579 atoms, 10864 bonds, 1336 residues, 9 models selected
> select up
14643 atoms, 15045 bonds, 1845 residues, 10 models selected
> save "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> 2.cxs"
> preset cartoons/nucleotides licorice/ovals
Using preset: Cartoons/Nucleotides / Licorice/Ovals
Changed 240600 atom styles
Preset expands to these ChimeraX commands:
show nucleic
hide protein|solvent|H
surf hide
style (protein|nucleic|solvent) & @@draw_mode=0 stick
~worm
cartoon
cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
cartoon style ~(nucleic|strand) x round
cartoon style (nucleic|strand) x rect
cartoon style protein modeh default arrows f x round width 1 thick 1
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides tube/slab shape ellipsoid
> select clear
> show surfaces
> select add #3/Z:451@CD1
1 atom, 1 residue, 1 model selected
> select #2/Z:451@CD1
1 atom, 1 residue, 1 model selected
> select add #3/Z:451@CD1
2 atoms, 2 residues, 3 models selected
> select add #4/Z:451@CD1
3 atoms, 3 residues, 5 models selected
> select add #1/n:454@CG2
4 atoms, 4 residues, 7 models selected
> select add #1/f:454@CG2
5 atoms, 5 residues, 8 models selected
> select add #1/A:454@CG2
6 atoms, 6 residues, 9 models selected
> select up
45 atoms, 39 bonds, 6 residues, 10 models selected
> select up
414 atoms, 414 bonds, 57 residues, 10 models selected
> select up
14640 atoms, 15045 bonds, 1842 residues, 10 models selected
> hide sel surfaces
> select clear
> select #1/e:587@ND2
1 atom, 1 residue, 1 model selected
> select add #1/a:587@O
2 atoms, 2 residues, 2 models selected
> select add #1/y:454@CB
3 atoms, 3 residues, 3 models selected
> select up
23 atoms, 20 bonds, 3 residues, 4 models selected
> select up
208 atoms, 206 bonds, 28 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> hide sel surfaces
> select clear
> save "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> 2.cxs"
> select #1/J:454@CG2
1 atom, 1 residue, 1 model selected
> select up
7 atoms, 6 bonds, 1 residue, 2 models selected
> select up
38 atoms, 38 bonds, 6 residues, 2 models selected
> select up
4152 atoms, 4275 bonds, 519 residues, 2 models selected
> color #1 light gray
> select clear
> select #1/y:593
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #1/a:593
10 atoms, 8 bonds, 2 residues, 2 models selected
> select add #1/e:591
15 atoms, 12 bonds, 3 residues, 3 models selected
> select up
139 atoms, 136 bonds, 19 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> color sel orange
> select #1/f:497
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #1/A:497
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #1/n:496
24 atoms, 21 bonds, 3 residues, 3 models selected
> select up
387 atoms, 393 bonds, 51 residues, 4 models selected
> select up
12456 atoms, 12825 bonds, 1557 residues, 4 models selected
> color sel orange
> select clear
> save "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> 2.cxs"
> select #1/n
4152 atoms, 4275 bonds, 519 residues, 1 model selected
> select #1/n:VR-IV
Nothing selected
> select #1/n:VR-IV
Nothing selected
> select VR-IV
8520 atoms, 8580 bonds, 1200 residues, 1 model selected
> select #1/VR-IV
Nothing selected
> select #1/n:"VR-IV"
1855 atoms, 1735 bonds, 241 residues, 1 model selected
> select clear
> select VR-IV #1/n
Expected a keyword
> select VR-IV /n
Expected a keyword
> select VR-IV /n,A,f
Expected a keyword
> select VR-IV /n
Expected a keyword
> select VR-IV
8520 atoms, 8580 bonds, 1200 residues, 1 model selected
> select VR-IV /n
Expected a keyword
> color VR-IV goldenrod
> color VR-IV tomato
> select clear
> surface color light gray
> color VR-VII tomato
> surface color light gray
> hide sel surfaces
> select clear
> show surfaces
> select VR-IV
8520 atoms, 8580 bonds, 1200 residues, 1 model selected
> select #1/a,N,f
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> hide sel surfaces
> show sel surfaces
> select #1/A,n,f
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> hide sel surfaces
> select clear
> select #2/Z:450@CG
1 atom, 1 residue, 1 model selected
> select add #4/Z:472@CB
2 atoms, 2 residues, 3 models selected
> select add #3/Z:449@CA
3 atoms, 3 residues, 5 models selected
> select up
19 atoms, 17 bonds, 3 residues, 6 models selected
> select up
277 atoms, 278 bonds, 36 residues, 6 models selected
> select up
2184 atoms, 2220 bonds, 285 residues, 6 models selected
> select up
2187 atoms, 2220 bonds, 288 residues, 6 models selected
> select up
2473 atoms, 2220 bonds, 574 residues, 6 models selected
> select up
2473 atoms, 2220 bonds, 5 pseudobonds, 574 residues, 7 models selected
> select up
2473 atoms, 2220 bonds, 10 pseudobonds, 574 residues, 8 models selected
> hide sel surfaces
> select clear
> open 6zcw
Summary of feedback from opening 6zcw fetched from pdb
---
notes | Fetching compressed mmCIF 6zcw from http://files.rcsb.org/download/6zcw.cif
Fetching CCD PQQ from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/Q/PQQ/PQQ.cif
Fetching CCD PR from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/R/PR/PR.cif
6zcw title:
Crystal structure of lanthanide-dependent alcohol dehydrogenase PedH from
Pseudomonas putida KT2440 [more info...]
Chain information for 6zcw #5
---
Chain | Description | UniProt
A | Quinoprotein ethanol dehydrogenase | Q88JH0_PSEPK 28-595
Non-standard residues in 6zcw #5
---
PQQ — pyrroloquinoline quinone
PR — praseodymium ion
81 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
4354 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> close #5
> open 9zcw
9zcw title:
Cryo-EM structure of the engineered vector AAV2.ATX002 [more info...]
Chain information for 9zcw #5
---
Chain | Description | UniProt
1 2 3 4 5 6 7 8 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h i j k l m n o p q r s t u v w x y z | Engineered AAV2 capsid protein VP3 | CAPSD_AAV2S 1-542
> ui tool show Matchmaker
> matchmaker #5 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 8fz0, chain A (#1) with 9zcw, chain O (#5), sequence alignment
score = 2624.5
RMSD between 515 pruned atom pairs is 0.828 angstroms; (across all 517 pairs:
0.852)
> select add #5
252900 atoms, 260400 bonds, 31560 residues, 1 model selected
> color sel hot pink
> preset cartoons/nucleotides licorice/ovals
Using preset: Cartoons/Nucleotides / Licorice/Ovals
Changed 252900 atom styles
Preset expands to these ChimeraX commands:
show nucleic
hide protein|solvent|H
surf hide
style (protein|nucleic|solvent) & @@draw_mode=0 stick
~worm
cartoon
cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
cartoon style ~(nucleic|strand) x round
cartoon style (nucleic|strand) x rect
cartoon style protein modeh default arrows f x round width 1 thick 1
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides tube/slab shape ellipsoid
> select clear
> hide #!1 models
> hide #!4 models
> hide #!3 models
> hide #!2 models
> color #5 light gray
> hide #5 models
> show #!4 models
> show #!3 models
> show #!2 models
> show #!1 models
> hide #!1 models
> select add #1.1
4152 atoms, 519 residues, 1 model selected
> select add #1.2
8304 atoms, 1038 residues, 2 models selected
> select add #1.3
12456 atoms, 1557 residues, 3 models selected
> select add #1.4
16608 atoms, 2076 residues, 4 models selected
> select add #1.5
20760 atoms, 2595 residues, 5 models selected
> select add #1.6
24912 atoms, 3114 residues, 6 models selected
> select add #1.7
29064 atoms, 3633 residues, 7 models selected
> select add #1.8
33216 atoms, 4152 residues, 8 models selected
> select add #1.9
37368 atoms, 4671 residues, 9 models selected
> select add #1.10
41520 atoms, 5190 residues, 10 models selected
> select add #1.11
45672 atoms, 5709 residues, 11 models selected
> select add #1.12
49824 atoms, 6228 residues, 12 models selected
> select add #1.13
53976 atoms, 6747 residues, 13 models selected
> select add #1.14
58128 atoms, 7266 residues, 14 models selected
> select add #1.15
62280 atoms, 7785 residues, 15 models selected
> select add #1.16
66432 atoms, 8304 residues, 16 models selected
> select add #1.17
70584 atoms, 8823 residues, 17 models selected
> select add #1.18
74736 atoms, 9342 residues, 18 models selected
> select add #1.19
78888 atoms, 9861 residues, 19 models selected
> select add #1.20
83040 atoms, 10380 residues, 20 models selected
> select add #1.21
87192 atoms, 10899 residues, 21 models selected
> select #1
249120 atoms, 256500 bonds, 31140 residues, 1 model selected
> show #!2-4 surfaces
[Repeated 1 time(s)]
> show #!1 models
> show sel surfaces
> select subtract #1
60 models selected
> select add #2
872 atoms, 740 bonds, 5 pseudobonds, 239 residues, 2 models selected
> select add #3
1601 atoms, 1480 bonds, 10 pseudobonds, 335 residues, 5 models selected
> select add #4
2473 atoms, 2220 bonds, 15 pseudobonds, 574 residues, 8 models selected
> hide sel surfaces
> select #1/a,N,f
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select #1/A,n,f
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> hide sel surfaces
> select clear
> show #5 models
> hide #5 models
> select #1/d:454@CG2
1 atom, 1 residue, 1 model selected
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> hide sel surfaces
> select clear
> save "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> 2.cxs"
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-VIII
351 bonds, 1 model selected
> color sel yellow
> color sel orange
> select #1/v,b,d intersect VR-VIII
Expected a keyword
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-IX
195 atoms, 195 bonds, 24 residues, 1 model selected
> color (#!1 & sel) light sea green
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-V
423 atoms, 429 bonds, 54 residues, 1 model selected
> color (#!1 & sel) hot pink
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-VI
417 atoms, 426 bonds, 51 residues, 1 model selected
> color (#!1 & sel) cornflower blue
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-III
177 atoms, 174 bonds, 27 residues, 1 model selected
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-II
102 atoms, 99 bonds, 15 residues, 1 model selected
> ui tool show "Color Actions"
> color sel light green
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-III
177 atoms, 174 bonds, 27 residues, 1 model selected
> ui tool show "Color Actions"
> color sel pale green
> color sel sky blue
> color sel dark khaki
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-VII
306 atoms, 303 bonds, 39 residues, 1 model selected
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-VIII
354 atoms, 351 bonds, 48 residues, 1 model selected
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-IV
426 atoms, 429 bonds, 60 residues, 1 model selected
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-VII
306 atoms, 303 bonds, 39 residues, 1 model selected
> ui tool show "Color Actions"
> color sel tan
> select clear
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-X
Missing or invalid "objects" argument: invalid objects specifier
> select #1/v,b,d
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select intersect VR-IX
195 atoms, 195 bonds, 24 residues, 1 model selected
> cartoon style protein modeHelix default arrows false xsection round width 2
> thickness 2
> select clear
> cartoon style protein modeHelix default arrows false xsection round width
> 1.5 thickness 1.5
> graphics silhouettes true
> select clear
> set bgColor white
> undo
> set bgColor gray
> set bgColor black
> set bgColor white
> save "/Users/miguel/Tresorit/Avista/Projects/AAVmers/Linked_AAVs/8FZ0_VRs
> MB.cxs"
——— End of log from Mon Apr 27 11:43:14 2026 ———
> view name session-start
opened ChimeraX session
> preset cartoons/nucleotides cylinders/stubs
Using preset: Cartoons/Nucleotides / Cylinders/Stubs
Changed 0 atom styles
Preset expands to these ChimeraX commands:
show nucleic
hide protein|solvent|H
surf hide
style (protein|nucleic|solvent) & @@draw_mode=0 stick
~worm
cartoon
cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
cartoon style ~(nucleic|strand) x round
cartoon style (nucleic|strand) x rect
cartoon style protein modeh tube rad 2 sides 24 thick 0.6
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides stubs
> select #1/A,n,f
12456 atoms, 12825 bonds, 1557 residues, 1 model selected
> select /v,b,d,A,n,f
50488 atoms, 51690 bonds, 6556 residues, 4 models selected
> select ~sel & ##selected
453276 atoms, 466690 bonds, 10 pseudobonds, 56622 residues, 6 models selected
> show sel & #!1-2,4 surfaces
> select add #1
478188 atoms, 492340 bonds, 10 pseudobonds, 59736 residues, 62 models selected
> select add #2
478331 atoms, 492340 bonds, 10 pseudobonds, 59879 residues, 68 models selected
> select add #4
478474 atoms, 492340 bonds, 10 pseudobonds, 60022 residues, 68 models selected
> select add #5
503764 atoms, 518380 bonds, 10 pseudobonds, 63178 residues, 68 models selected
> select subtract #1
254644 atoms, 261880 bonds, 10 pseudobonds, 32038 residues, 67 models selected
> select add #3
255373 atoms, 262620 bonds, 15 pseudobonds, 32134 residues, 9 models selected
> select subtract #5
2473 atoms, 2220 bonds, 15 pseudobonds, 574 residues, 9 models selected
> hide sel surfaces
> select clear
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/triggerset.py", line 149, in invoke
return self._func(self._name, data)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 2832, in res_hover
_residue_mouse_hover(pick, session.logger)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 2825, in _residue_mouse_hover
log.status("chain %s: %s" % (chain.chain_id, chain.description))
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 522, in status
StatusLogger.status(self, msg, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 220, in status
if l.status(msg, color, secondary) and getattr(
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 1149, in status
sbar.status(msg, color, secondary)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/triggerset.py", line 149, in invoke
return self._func(self._name, data)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 2832, in res_hover
_residue_mouse_hover(pick, session.logger)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 2825, in _residue_mouse_hover
log.status("chain %s: %s" % (chain.chain_id, chain.description))
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 522, in status
StatusLogger.status(self, msg, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 220, in status
if l.status(msg, color, secondary) and getattr(
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 1149, in status
sbar.status(msg, color, secondary)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 104, in _expose_event
self.status(self._last_message, self._last_color)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 170, in status
r.draw_background()
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1264, in draw_background
GL.glClear(flags)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Error processing trigger "mouse hover":
OpenGL.error.GLError: GLError(
err = 1286,
description = b'invalid framebuffer operation',
baseOperation = glClear,
cArguments = (16640,)
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M5
OpenGL vendor: Apple
Python: 3.11.9
Locale: en_US.UTF-8
Qt version: PyQt6 6.10.2, Qt 6.10.0
Qt runtime version: 6.10.1
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac17,2
Model Number: MDE64LL/A
Chip: Apple M5
Total Number of Cores: 10 (4 performance and 6 efficiency)
Memory: 24 GB
System Firmware Version: 13822.61.10
OS Loader Version: 13822.61.10
Software:
System Software Overview:
System Version: macOS 26.2 (25C56)
Kernel Version: Darwin 25.2.0
Time since boot: 22 days, 2 hours, 29 minutes
Graphics/Displays:
Apple M5:
Chipset Model: Apple M5
Type: GPU
Bus: Built-In
Total Number of Cores: 10
Vendor: Apple (0x106b)
Metal Support: Metal 4
Displays:
DELL S2725QC:
Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus)
UI Looks like: 2560 x 1440 @ 120.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
accessible-pygments: 0.0.5
aiohappyeyeballs: 2.6.1
aiohttp: 3.13.1
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.13.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.1
attrs: 26.1.0
babel: 2.18.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 4.1.2
bs4: 0.0.2
build: 1.3.0
certifi: 2025.7.14
cftime: 1.6.5
charset-normalizer: 3.4.7
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.8
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.2
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.2
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.67.1
ChimeraX-AtomicLibrary: 14.4
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4.1
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.4
ChimeraX-Cluster: 1.0
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.1
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.12.dev202604290127
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.2.1
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.8.2
ChimeraX-Label: 1.4
ChimeraX-LightingGUI: 1.0
ChimeraX-ListInfo: 1.3.1
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.2
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-MatchAlign: 1.1
ChimeraX-MatchMaker: 2.4
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.2.0
ChimeraX-MDcrds: 2.19
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.3.8
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.23
ChimeraX-ModelPanel: 1.6.1
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: 1.0.1
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: 1.15.4
ChimeraX-OpenFold: 1.0
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.13
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.6
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.8.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.12
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.18
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
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-SNFG: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.3
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: 2.5.3
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.4
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.50.5
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.6.1
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: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.3.3
colorama: 0.4.6
comm: 0.2.3
contourpy: 1.3.3
coverage: 7.13.5
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.2.4
debugpy: 1.8.20
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.1
filelock: 3.19.1
fonttools: 4.62.1
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.0
grako: 3.16.5
h11: 0.16.0
h5py: 3.16.0
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
idna: 3.13
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 2.0.0
iniconfig: 2.3.0
ipykernel: 7.1.0
ipython: 9.9.0
ipython_pygments_lexers: 1.1.1
jedi: 0.19.2
Jinja2: 3.1.6
jsonschema: 4.26.0
jsonschema-specifications: 2025.9.1
jupyter_client: 8.8.0
jupyter_core: 5.9.1
kiwisolver: 1.5.0
line_profiler: 5.0.0
lxml: 6.0.2
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.1
mcp: 1.18.0
msgpack: 1.1.1
multidict: 6.7.1
narwhals: 2.20.0
ndindex: 1.10.1
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.14.1
numpy: 1.26.4
OpenMM: 8.4.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.6
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.9.6
plotly: 6.7.0
pluggy: 1.6.0
prompt_toolkit: 3.0.52
propcache: 0.4.1
psutil: 7.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydantic: 2.13.3
pydantic-settings: 2.14.0
pydantic_core: 2.46.3
pydata-sphinx-theme: 0.17.1
pydicom: 2.4.4
Pygments: 2.18.0
pynmrstar: 3.5.1
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.10.2
PyQt6-Qt6: 6.10.1
PyQt6-WebEngine-commercial: 6.10.0
PyQt6-WebEngine-Qt6: 6.10.1
PyQt6_sip: 13.10.3
pytest: 9.0.3
pytest-cov: 7.1.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.2
python-multipart: 0.0.27
pyzmq: 27.1.0
qtconsole: 5.7.0
QtPy: 2.4.3
qtshim: 1.2.2
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.32.5
roman-numerals: 4.1.0
rpds-py: 0.30.0
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
six: 1.17.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.8.3
Sphinx: 9.0.4
sphinx-autodoc-typehints: 3.6.1
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
sse-starlette: 3.4.1
stack-data: 0.6.3
starlette: 1.0.0
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 3.2.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.5
tqdm: 4.67.3
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
Unidecode: 1.4.0
urllib3: 2.6.3
uvicorn: 0.46.0
wcwidth: 0.6.0
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
yarl: 1.23.0
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