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Opened 3 years ago
Closed 3 years ago
#7623 closed defect (can't reproduce)
Crash saving image
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Input/Output | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-3.10.0-1160.36.2.el7.x86_64-x86_64-with-glibc2.17
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x00007fed2ab60740 (most recent call first):
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/ImageFile.py", line 518 in _save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/PngImagePlugin.py", line 1349 in _save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/Image.py", line 2235 in save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/image_formats/save.py", line 123 in save_image
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/image_formats/__init__.py", line 45 in save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 89 in provider_save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 75 in cmd_save
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/run.py", line 36 in run
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 51 in display
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 127 in show_save_file_dialog
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 116 in
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/ChimeraX_main.py", line 867 in init
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/ChimeraX_main.py", line 1018 in
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/runpy.py", line 87 in _run_code
File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 7l2v_renum.pdb 5iwk_renum.pdb 5iwp_renum.pdb 5iwr_renum.pdb
> 5wo6_renum.pdb 5wo7_renum.pdb 5wo8_renum.pdb 5wo9_renum.pdb 6b5v_renum.pdb
> 6d7p_renum.pdb 6d7q_renum.pdb 6d7t_renum.pdb 6d7v_renum.pdb 6d7x_renum.pdb
> 6pvn_renum.pdb 6uw4_renum.pdb 7k4a_renum.pdb 7k4c_renum.pdb 7k4d_renum.pdb
> 6c8f_renum.pdb 6c8g_renum.pdb 7d2k_renum.pdb 7l2h_renum.pdb 7l2m_renum.pdb
> 7l2p_renum.pdb 7l2s_renum.pdb 7l2t_renum.pdb 7l2u_renum.pdb 7l2w_renum.pdb
> 7l2x_renum.pdb 7lp9_renum.pdb 7lpa_renum.pdb 7lqy_renum.pdb 7lqz_renum.pdb
> 7mij_renum.pdb 7mik_renum.pdb 7mim_renum.pdb 7min_renum.pdb 7mz6_renum.pdb
> 7mz7_renum.pdb 7mz9_renum.pdb 7mza_renum.pdb 7mzb_renum.pdb 7mzc_renum.pdb
> 7mzd_renum.pdb 7mze_renum.pdb 7s88_renum.pdb 7s8b_renum.pdb 7s8c_renum.pdb
> 7sq9_renum.pdb 7ugg_renum.pdb 7rqu_renum.pdb 7rqv_renum.pdb 7rqx_renum.pdb
No such file/path: 7l2v_renum.pdb
> delete solvent
> name cluster (#1:XPS & #1:902) | (#2:CA & #2:701) | (#3:CA & #3:701) |
> (#3:CA & #3:702) | (#4:BA & #4:701) | (#4:BA & #4:702) | (#5:CA & #5:701) |
> (#6:CA & #6:702) | (#7:CA & #7:702) | (#8:CA & #8:702) | (#8:CA & #8:703) |
> (#9:CA & #9:1002) | (#10:CA & #10:701) | (#11:CA & #11:703) | (#12:CA &
> #12:803) | (#13:CA & #13:702) | (#14:CA & #14:701) | (#14:CA & #14:702) |
> (#15:NA & #15:801) | (#16:NA & #16:806) | (#17:CA & #17:817) | (#18:CA &
> #18:702) | (#18:CA & #18:703) | (#19:CA & #19:702) | (#19:CA & #19:703) |
> (#20:CS & #20:1001) | (#21:BA & #21:1001) | (#22:CA & #22:701) | (#23:NA &
> #23:903) | (#24:NA & #24:902) | (#25:NA & #25:804) | (#26:NA & #26:803) |
> (#27:NA & #27:802) | (#28:NA & #28:803) | (#28:NA & #28:802) | (#29:NA &
> #29:902) | (#30:XPJ & #30:903) | (#31:NA & #31:911) | (#32:NA & #32:909) |
> (#33:NA & #33:911) | (#34:NA & #34:910) | (#35:NA & #35:913) | (#35:NA &
> #35:914) | (#36:NA & #36:911) | (#36:NA & #36:912) | (#37:NA & #37:911) |
> (#38:NA & #38:910) | (#38:NA & #38:911) | (#39:NA & #39:803) | (#40:NA &
> #40:902) | (#41:NA & #41:802) | (#42:NA & #42:802) | (#43:NA & #43:902) |
> (#44:NA & #44:902) | (#45:NA & #45:902) | (#46:NA & #46:802) | (#47:CA &
> #47:817) | (#48:R2R & #48:813) | (#49:CA & #49:709) | (#50:NA & #50:603) |
> (#51:NA & #51:909) | (#52:NA & #52:910) | (#53:NA & #53:907) | (#54:NA &
> #54:907)
"(#1:XPS & #1:902) | (#2:CA & #2:701) | (#3:CA & #3:701) | (#3:CA & #3:702) |
(#4:BA & #4:701) | (#4:BA & #4:702) | (#5:CA & #5:701) | (#6:CA & #6:702) |
(#7:CA & #7:702) | (#8:CA & #8:702) | (#8:CA & #8:703) | (#9:CA & #9:1002) |
(#10:CA & #10:701) | (#11:CA & #11:703) | (#12:CA & #12:803) | (#13:CA &
#13:702) | (#14:CA & #14:701) | (#14:CA & #14:702) | (#15:NA & #15:801) |
(#16:NA & #16:806) | (#17:CA & #17:817) | (#18:CA & #18:702) | (#18:CA &
#18:703) | (#19:CA & #19:702) | (#19:CA & #19:703) | (#20:CS & #20:1001) |
(#21:BA & #21:1001) | (#22:CA & #22:701) | (#23:NA & #23:903) | (#24:NA &
#24:902) | (#25:NA & #25:804) | (#26:NA & #26:803) | (#27:NA & #27:802) |
(#28:NA & #28:803) | (#28:NA & #28:802) | (#29:NA & #29:902) | (#30:XPJ &
#30:903) | (#31:NA & #31:911) | (#32:NA & #32:909) | (#33:NA & #33:911) |
(#34:NA & #34:910) | (#35:NA & #35:913) | (#35:NA & #35:914) | (#36:NA &
#36:911) | (#36:NA & #36:912) | (#37:NA & #37:911) | (#38:NA & #38:910) |
(#38:NA & #38:911) | (#39:NA & #39:803) | (#40:NA & #40:902) | (#41:NA &
#41:802) | (#42:NA & #42:802) | (#43:NA & #43:902) | (#44:NA & #44:902) |
(#45:NA & #45:902) | (#46:NA & #46:802) | (#47:CA & #47:817) | (#48:R2R &
#48:813) | (#49:CA & #49:709) | (#50:NA & #50:603) | (#51:NA & #51:909) |
(#52:NA & #52:910) | (#53:NA & #53:907) | (#54:NA & #54:907) ": contains extra
trailing text
> hide all & ~ cluster atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color all & ~ cluster grey
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> name close :2536 | :2538 | :2539 | :2541
":2536 | :2538 | :2539 | :2541 ": contains extra trailing text
> hide close ribbons
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> show close atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> setattr :2536 atoms bfactor 0.3586
Assigning bfactor attribute to 0 items
> setattr :2538 atoms bfactor 0.3152
Assigning bfactor attribute to 0 items
> setattr :2539 atoms bfactor 0.3299
Assigning bfactor attribute to 0 items
> setattr :2541 atoms bfactor 0.3467
Assigning bfactor attribute to 0 items
> color bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
> color byattribute bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
Expected a collection of one of 'atoms', 'cartoons', 'ribbons', or 'surfaces'
or a keyword
> color modify close saturation 50
Missing or invalid "adjuster" argument: Should be one of 'blackness', 'blue',
'contrast', 'green', 'hue', 'lightness', 'red', 'saturation', or 'whiteness'
> hide backbone & ~close target ab
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all & ~(close | cluster) label #1 &(:2536 | :2538 | :2539 | :2541)
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color cluster #005674
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> open 7l2v_renum.pdb 5iwk_renum.pdb 5iwp_renum.pdb 5iwr_renum.pdb
> 5wo6_renum.pdb 5wo7_renum.pdb 5wo8_renum.pdb 5wo9_renum.pdb 6b5v_renum.pdb
> 6d7p_renum.pdb 6d7q_renum.pdb 6d7t_renum.pdb 6d7v_renum.pdb 6d7x_renum.pdb
> 6pvn_renum.pdb 6uw4_renum.pdb 7k4a_renum.pdb 7k4c_renum.pdb 7k4d_renum.pdb
> 6c8f_renum.pdb 6c8g_renum.pdb 7d2k_renum.pdb 7l2h_renum.pdb 7l2m_renum.pdb
> 7l2p_renum.pdb 7l2s_renum.pdb 7l2t_renum.pdb 7l2u_renum.pdb 7l2w_renum.pdb
> 7l2x_renum.pdb 7lp9_renum.pdb 7lpa_renum.pdb 7lqy_renum.pdb 7lqz_renum.pdb
> 7mij_renum.pdb 7mik_renum.pdb 7mim_renum.pdb 7min_renum.pdb 7mz6_renum.pdb
> 7mz7_renum.pdb 7mz9_renum.pdb 7mza_renum.pdb 7mzb_renum.pdb 7mzc_renum.pdb
> 7mzd_renum.pdb 7mze_renum.pdb 7s88_renum.pdb 7s8b_renum.pdb 7s8c_renum.pdb
> 7sq9_renum.pdb 7ugg_renum.pdb 7rqu_renum.pdb 7rqv_renum.pdb 7rqx_renum.pdb
No such file/path: 7l2v_renum.pdb
>
> /home/iwe9/Documents/11_Script_tests/10_renumbered_PDBs/Transient_receptor_potential_channels
Unknown command:
/home/iwe9/Documents/11_Script_tests/10_renumbered_PDBs/Transient_receptor_potential_channels
> cd
> /home/iwe9/Documents/11_Script_tests/10_renumbered_PDBs/Transient_receptor_potential_channels
Current working directory is:
/home/iwe9/Documents/11_Script_tests/10_renumbered_PDBs/Transient_receptor_potential_channels
> open 7l2v_renum.pdb 5iwk_renum.pdb 5iwp_renum.pdb 5iwr_renum.pdb
> 5wo6_renum.pdb 5wo7_renum.pdb 5wo8_renum.pdb 5wo9_renum.pdb 6b5v_renum.pdb
> 6d7p_renum.pdb 6d7q_renum.pdb 6d7t_renum.pdb 6d7v_renum.pdb 6d7x_renum.pdb
> 6pvn_renum.pdb 6uw4_renum.pdb 7k4a_renum.pdb 7k4c_renum.pdb 7k4d_renum.pdb
> 6c8f_renum.pdb 6c8g_renum.pdb 7d2k_renum.pdb 7l2h_renum.pdb 7l2m_renum.pdb
> 7l2p_renum.pdb 7l2s_renum.pdb 7l2t_renum.pdb 7l2u_renum.pdb 7l2w_renum.pdb
> 7l2x_renum.pdb 7lp9_renum.pdb 7lpa_renum.pdb 7lqy_renum.pdb 7lqz_renum.pdb
> 7mij_renum.pdb 7mik_renum.pdb 7mim_renum.pdb 7min_renum.pdb 7mz6_renum.pdb
> 7mz7_renum.pdb 7mz9_renum.pdb 7mza_renum.pdb 7mzb_renum.pdb 7mzc_renum.pdb
> 7mzd_renum.pdb 7mze_renum.pdb 7s88_renum.pdb 7s8b_renum.pdb 7s8c_renum.pdb
> 7sq9_renum.pdb 7ugg_renum.pdb 7rqu_renum.pdb 7rqv_renum.pdb 7rqx_renum.pdb
Summary of feedback from opening 7l2v_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 ASN A
270 1 11
94 messages similar to the above omitted
Summary of feedback from opening 5iwk_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14224 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER A 28 SER A 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 GLU A 104 GLU A
108 5 5
26 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER B 28 SER B 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER B 47 ASN B 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN B 57 LYS B 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN B 91 ALA B 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 GLU B 104 GLU B
108 5 5
26 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER C 28 SER C 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER C 47 ASN C 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN C 57 LYS C 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR C 81 TYR C 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN C 91 ALA C 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 GLU C 104 GLU C
108 5 5
26 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER D 28 SER D 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER D 47 ASN D 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN D 57 LYS D 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR D 81 TYR D 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN D 91 ALA D 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 GLU D 104 GLU D
108 5 5
26 messages similar to the above omitted
Cannot find LINK/SSBOND residue LEU (64 )
Cannot find LINK/SSBOND residue GLY (332 )
Cannot find LINK/SSBOND residue ASP (541 )
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 5iwp_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14200 messages similar to the above omitted
Start residue of secondary structure not found: HELIX 1 AA1 TRP A 29 SER A 47
1 19
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
119 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 5iwr_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14320 messages similar to the above omitted
Start residue of secondary structure not found: HELIX 1 AA1 TRP A 29 SER A 47
1 19
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 101
1 11
115 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
Cannot find LINK/SSBOND residue ASP (541 )
Cannot find LINK/SSBOND residue GLY (619 )
Summary of feedback from opening 5wo6_renum.pdb
---
warnings | End residue of secondary structure not found: HELIX 1 AA1 SER A 28
SER A 47 1 20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 PHE A 67
1 11
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 PRO A 103 VAL A
106 5 4
25 messages similar to the above omitted
Summary of feedback from opening 5wo7_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 TRP A
29 SER A 47 1 19
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 GLU A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
27 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 5wo8_renum.pdb
---
warnings | End residue of secondary structure not found: HELIX 1 AA1 SER A 28
SER A 47 1 20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 PRO A 103 PHE A
107 5 5
27 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 5wo9_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 TRP A
29 SER A 47 1 19
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 GLU A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
27 messages similar to the above omitted
Cannot find LINK/SSBOND residue TYR (115 )
Cannot find LINK/SSBOND residue ASP (541 )
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 6b5v_renum.pdb
---
warnings | CONECT record to nonexistent atom: (18843, 18865)
CONECT record to nonexistent atom: (18845, 18866)
CONECT record to nonexistent atom: (18847, 18867)
CONECT record to nonexistent atom: (18848, 18868)
CONECT record to nonexistent atom: (18849, 18869)
10 messages similar to the above omitted
CONECT record for nonexistent atom: 18865
Start residue of secondary structure not found: HELIX 1 AA1 TRP A 29 ASP A 34
1 6
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 37 SER A 47
1 11
Start residue of secondary structure not found: HELIX 3 AA3 LEU A 50 LYS A 54
5 5
Start residue of secondary structure not found: HELIX 4 AA4 ILE A 63 GLN A 68
1 6
Start residue of secondary structure not found: HELIX 5 AA5 THR A 81 ALA A 87
1 7
142 messages similar to the above omitted
Summary of feedback from opening 6d7p_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14581 messages similar to the above omitted
Start residue of secondary structure not found: HELIX 1 AA1 TRP A 29 SER A 47
1 19
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 GLU A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
143 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
notes | Combining 4 symmetry atoms into CA /A:701 CA
Combining 4 symmetry atoms into CA /A:702 CA
Summary of feedback from opening 6d7q_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14341 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER A 28 SER A 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 GLU A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 101
1 11
Start residue of secondary structure not found: HELIX 6 AA6 ALA A 102 PHE A
107 5 6
28 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER B 28 SER B 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER B 47 GLU B 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN B 57 LYS B 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN B 91 ALA B 101
1 11
Start residue of secondary structure not found: HELIX 6 AA6 ALA B 102 PHE B
107 5 6
28 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER C 28 SER C 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER C 47 GLU C 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN C 57 LYS C 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR C 81 TYR C 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN C 91 ALA C 101
1 11
Start residue of secondary structure not found: HELIX 6 AA6 ALA C 102 PHE C
107 5 6
28 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER D 28 SER D 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER D 47 GLU D 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN D 57 LYS D 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR D 81 TYR D 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN D 91 ALA D 101
1 11
Start residue of secondary structure not found: HELIX 6 AA6 ALA D 102 PHE D
107 5 6
28 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 6d7t_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ALA A
30 SER A 47 1 18
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASP A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ALA A 102 PHE A
107 5 6
122 messages similar to the above omitted
Cannot find LINK/SSBOND residue HIS (426 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue HIS (426 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue HIS (426 )
3 messages similar to the above omitted
Summary of feedback from opening 6d7v_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14227 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER A 28 SER A 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 GLU A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 THR A 119 ASN A
127 1 9
28 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER B 28 SER B 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER B 47 GLU B 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN B 57 LYS B 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN B 91 ALA B 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 THR B 119 ASN B
127 1 9
28 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER C 28 SER C 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER C 47 GLU C 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN C 57 LYS C 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR C 81 TYR C 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN C 91 ALA C 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 THR C 119 ASN C
127 1 9
28 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER D 28 SER D 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER D 47 GLU D 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN D 57 LYS D 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR D 81 TYR D 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN D 91 ALA D 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 THR D 119 ASN D
127 1 9
28 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (287 )
note | Combining 4 symmetry atoms into CA /A:702 CA
Summary of feedback from opening 6d7x_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14416 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER A 28 SER A 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 PRO A 103 PHE A
107 5 5
27 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER B 28 SER B 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER B 47 ASN B 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN B 57 LYS B 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN B 91 ALA B 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 PRO B 103 PHE B
107 5 5
27 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER C 28 SER C 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER C 47 ASN C 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN C 57 LYS C 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR C 81 TYR C 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN C 91 ALA C 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 PRO C 103 PHE C
107 5 5
27 messages similar to the above omitted
End residue of secondary structure not found: HELIX 1 AA1 SER D 28 SER D 47 1
20
Start residue of secondary structure not found: HELIX 2 AA2 SER D 47 ASN D 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN D 57 LYS D 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR D 81 TYR D 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN D 91 ALA D 102
1 12
Start residue of secondary structure not found: HELIX 6 AA6 PRO D 103 PHE D
107 5 5
27 messages similar to the above omitted
Cannot find LINK/SSBOND residue LEU (88 )
Cannot find LINK/SSBOND residue TYR (115 )
Cannot find LINK/SSBOND residue GLY (421 )
Cannot find LINK/SSBOND residue ASP (541 )
notes | Combining 4 symmetry atoms into CA /A:702 CA
Combining 4 symmetry atoms into CA /A:701 CA
Summary of feedback from opening 6pvn_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
118 GLY A 130 1 13
Start residue of secondary structure not found: HELIX 2 AA2 VAL A 132 ARG A
149 1 18
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 153 THR A
163 1 11
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 172 ASN A
178 1 7
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 ASN A
197 1 16
118 messages similar to the above omitted
Summary of feedback from opening 6uw4_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
118 GLY A 130 1 13
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 131 CYS A
146 1 16
Start residue of secondary structure not found: HELIX 3 AA3 VAL A 154 THR A
163 1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 170 LEU A
177 1 8
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 GLU A
196 1 15
114 messages similar to the above omitted
Cannot find LINK/SSBOND residue GLY (638 )
Cannot find LINK/SSBOND residue GLY (638 )
Cannot find LINK/SSBOND residue GLY (638 )
Cannot find LINK/SSBOND residue GLY (638 )
Summary of feedback from opening 7k4a_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 GLU A
27 SER A 47 1 21
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ALA A 52
1 6
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 57 LEU A 65
1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 LEU A 92 ALA A 102
1 11
25 messages similar to the above omitted
End residue of secondary structure not found: HELIX 31 AD4 GLU A 588 LYS A 607
1 20
End residue of secondary structure not found: HELIX 32 AD5 SER B 28 SER B 47 1
20
Start residue of secondary structure not found: HELIX 33 AD6 SER B 47 ALA B 52
1 6
Start residue of secondary structure not found: HELIX 34 AD7 ASP B 57 LEU B 65
1 9
Start residue of secondary structure not found: HELIX 35 AD8 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 36 AD9 LEU B 92 ALA B
102 1 11
Start residue of secondary structure not found: HELIX 37 AE1 THR B 119 ASN B
127 1 9
24 messages similar to the above omitted
End residue of secondary structure not found: HELIX 62 AG8 GLU B 588 LYS B 607
1 20
Start residue of secondary structure not found: HELIX 63 AG9 GLU C 27 SER C 47
1 21
Start residue of secondary structure not found: HELIX 73 AI1 ILE C 204 GLN C
206 5 3
Start residue of secondary structure not found: HELIX 74 AI2 THR C 210 TYR C
222 1 13
Start residue of secondary structure not found: HELIX 75 AI3 THR C 242 GLU C
250 1 9
Start residue of secondary structure not found: HELIX 76 AI4 THR C 253 GLN C
261 1 9
16 messages similar to the above omitted
End residue of secondary structure not found: HELIX 93 AK3 GLU C 588 LYS C 607
1 20
Start residue of secondary structure not found: HELIX 94 AK4 GLU D 27 SER D 47
1 21
Start residue of secondary structure not found: HELIX 95 AK5 SER D 47 ALA D 52
1 6
Start residue of secondary structure not found: HELIX 96 AK6 ASP D 57 LEU D 65
1 9
Start residue of secondary structure not found: HELIX 97 AK7 THR D 81 TYR D 89
1 9
Start residue of secondary structure not found: HELIX 98 AK8 LEU D 92 ALA D
102 1 11
25 messages similar to the above omitted
End residue of secondary structure not found: HELIX 124 AN7 GLU D 588 LYS D
607 1 20
Start residue of secondary structure not found: SHEET 1 AA1 4 THR A 269 TYR A
270 0
Start residue of secondary structure not found: SHEET 2 AA1 4 LEU A 273 TYR A
278 -1 O LEU A 273 N TYR A 270
Start residue of secondary structure not found: SHEET 3 AA1 4 TRP A 629 GLU A
634 -1 O VAL A 633 N THR A 276
Start residue of secondary structure not found: SHEET 4 AA1 4 ILE A 618 CYS A
619 -1 N ILE A 618 O PHE A 630
Start residue of secondary structure not found: SHEET 1 AA2 4 THR B 269 TYR B
270 0
11 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
3 messages similar to the above omitted
Summary of feedback from opening 7k4c_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ALA A
30 SER A 47 1 18
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASP A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 57 LEU A 65
1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
126 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Summary of feedback from opening 7k4d_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 TRP A
29 SER A 47 1 19
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASP A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 57 GLU A 68
1 12
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
118 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Summary of feedback from opening 6c8f_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14611 messages similar to the above omitted
Start residue of secondary structure not found: HELIX 1 AA1 ASN A 146 GLY A
157 1 12
Start residue of secondary structure not found: HELIX 2 AA2 SER A 158 GLU A
163 5 6
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 164 GLN A
172 1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 189 ASN A
197 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASP A 204 GLY A
217 1 14
119 messages similar to the above omitted
Summary of feedback from opening 6c8g_renum.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
14611 messages similar to the above omitted
Start residue of secondary structure not found: HELIX 1 AA1 ASN A 146 GLY A
157 1 12
Start residue of secondary structure not found: HELIX 2 AA2 SER A 158 GLU A
163 5 6
Start residue of secondary structure not found: HELIX 3 AA3 PRO A 167 GLN A
172 1 6
Start residue of secondary structure not found: HELIX 4 AA4 THR A 189 ASN A
197 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASP A 204 GLY A
217 1 14
119 messages similar to the above omitted
Summary of feedback from opening 7d2k_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ALA A
30 SER A 47 1 18
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASN A 56
1 10
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 57 LYS A 66
1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
29 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (541 )
Summary of feedback from opening 7l2h_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 4 AA4 GLN A 260 ASN A
270 1 11
Start residue of secondary structure not found: HELIX 5 AA5 THR A 286 VAL A
294 1 9
103 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7l2m_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
286 ALA A 295 1 10
Start residue of secondary structure not found: HELIX 2 AA2 THR A 298 HIS A
320 1 23
Start residue of secondary structure not found: HELIX 3 AA3 THR A 335 GLY A
344 1 10
Start residue of secondary structure not found: HELIX 4 AA4 LYS A 345 LEU A
353 1 9
Start residue of secondary structure not found: HELIX 5 AA5 CYS A 362 SER A
366 5 5
79 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (16 )
Cannot find LINK/SSBOND residue CYS (9 )
Cannot find LINK/SSBOND residue CYS (15 )
Cannot find LINK/SSBOND residue CYS (44 )
Cannot find LINK/SSBOND residue CYS (51 )
7 messages similar to the above omitted
Summary of feedback from opening 7l2p_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ASP A
113 SER A 124 1 12
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 126 GLU A
130 5 5
Start residue of secondary structure not found: HELIX 3 AA3 SER A 131 LYS A
140 1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 156 LEU A
163 1 8
Start residue of secondary structure not found: HELIX 5 AA5 ASP A 171 ASP A
184 1 14
103 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7l2s_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG D
114 SER D 124 1 11
Start residue of secondary structure not found: HELIX 2 AA2 CYS D 126 GLU D
130 5 5
Start residue of secondary structure not found: HELIX 3 AA3 SER D 131 LYS D
140 1 10
Start residue of secondary structure not found: HELIX 4 AA4 ASP D 145 LYS D
149 5 5
Start residue of secondary structure not found: HELIX 5 AA5 THR D 156 ASN D
164 1 9
128 messages similar to the above omitted
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7l2t_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
156 ASN A 164 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASP A 171 ASP A
184 1 14
Start residue of secondary structure not found: HELIX 3 AA3 LEU A 186 ASN A
191 1 6
Start residue of secondary structure not found: HELIX 4 AA4 THR A 203 ARG A
211 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 213 ASN A
223 1 11
118 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (16 )
Cannot find LINK/SSBOND residue CYS (9 )
Cannot find LINK/SSBOND residue CYS (15 )
Cannot find LINK/SSBOND residue CYS (44 )
12 messages similar to the above omitted
Summary of feedback from opening 7l2u_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 GLN A
269 1 10
107 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (16 )
Cannot find LINK/SSBOND residue CYS (9 )
Cannot find LINK/SSBOND residue CYS (15 )
Cannot find LINK/SSBOND residue CYS (44 )
Cannot find LINK/SSBOND residue CYS (51 )
10 messages similar to the above omitted
Summary of feedback from opening 7l2w_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 ASN A
270 1 11
93 messages similar to the above omitted
Summary of feedback from opening 7l2x_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 212 1 10
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 4 AA4 GLN A 260 ASN A
270 1 11
Start residue of secondary structure not found: HELIX 5 AA5 THR A 286 VAL A
294 1 9
92 messages similar to the above omitted
Summary of feedback from opening 7lp9_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ASP A
113 GLN A 123 1 11
Start residue of secondary structure not found: HELIX 2 AA2 GLU A 128 LYS A
140 1 13
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 145 LYS A
149 5 5
Start residue of secondary structure not found: HELIX 4 AA4 THR A 156 ASN A
164 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASP A 171 THR A
183 1 13
118 messages similar to the above omitted
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7lpa_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ASP A
113 SER A 124 1 12
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 126 SER A
139 1 14
Start residue of secondary structure not found: HELIX 3 AA3 THR A 156 ASN A
164 1 9
Start residue of secondary structure not found: HELIX 4 AA4 ASP A 171 THR A
183 1 13
Start residue of secondary structure not found: HELIX 5 AA5 THR A 203 ARG A
211 1 9
118 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
3 messages similar to the above omitted
Summary of feedback from opening 7lqy_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ASP A
115 GLN A 125 1 11
Start residue of secondary structure not found: HELIX 2 AA2 SER A 133 ARG A
142 1 10
Start residue of secondary structure not found: HELIX 3 AA3 THR A 158 ASN A
166 1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 174 THR A
185 1 12
Start residue of secondary structure not found: HELIX 5 AA5 SER A 187 ASN A
193 1 7
118 messages similar to the above omitted
Cannot find LINK/SSBOND residue GLY (645 )
Cannot find LINK/SSBOND residue GLY (645 )
Cannot find LINK/SSBOND residue GLY (645 )
Cannot find LINK/SSBOND residue GLY (645 )
Summary of feedback from opening 7lqz_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ASP A
115 GLN A 125 1 11
Start residue of secondary structure not found: HELIX 2 AA2 SER A 133 SER A
141 1 9
Start residue of secondary structure not found: HELIX 3 AA3 THR A 158 ASN A
166 1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 174 THR A
185 1 12
Start residue of secondary structure not found: HELIX 5 AA5 SER A 187 ASN A
193 1 7
130 messages similar to the above omitted
Cannot find LINK/SSBOND residue GLY (645 )
Cannot find LINK/SSBOND residue GLY (645 )
Cannot find LINK/SSBOND residue GLY (645 )
Cannot find LINK/SSBOND residue GLY (645 )
Summary of feedback from opening 7mij_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
118 GLY A 130 1 13
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 131 ARG A
148 1 18
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 153 MET A
159 1 7
Start residue of secondary structure not found: HELIX 4 AA4 THR A 170 LEU A
177 1 8
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 GLU A
196 1 15
138 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue GLY (638 )
3 messages similar to the above omitted
Summary of feedback from opening 7mik_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 LEU A
119 GLY A 130 1 12
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 131 ARG A
148 1 18
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 153 LEU A
158 1 6
Start residue of secondary structure not found: HELIX 4 AA4 THR A 170 ASN A
178 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 ASN A
197 1 16
134 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue GLY (638 )
3 messages similar to the above omitted
Summary of feedback from opening 7mim_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
118 GLY A 130 1 13
Start residue of secondary structure not found: HELIX 2 AA2 VAL A 132 ARG A
148 1 17
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 153 LEU A
162 1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 170 ASN A
178 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 ASN A
197 1 16
126 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue GLY (638 )
3 messages similar to the above omitted
Summary of feedback from opening 7min_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
118 GLY A 130 1 13
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 131 ARG A
148 1 18
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 153 LEU A
162 1 10
Start residue of secondary structure not found: HELIX 4 AA4 THR A 170 ASN A
178 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 ASN A
197 1 16
130 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue CYS (612 )
Cannot find LINK/SSBOND residue GLY (638 )
3 messages similar to the above omitted
Summary of feedback from opening 7mz6_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ASP A
113 GLN A 123 1 11
Start residue of secondary structure not found: HELIX 2 AA2 SER A 131 LYS A
140 1 10
Start residue of secondary structure not found: HELIX 3 AA3 THR A 156 LEU A
163 1 8
Start residue of secondary structure not found: HELIX 4 AA4 ASP A 171 ASP A
184 1 14
Start residue of secondary structure not found: HELIX 5 AA5 LEU A 186 ASN A
191 1 6
121 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mz7_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 LEU A
186 ASN A 191 1 6
Start residue of secondary structure not found: HELIX 2 AA2 THR A 203 ARG A
211 1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 4 AA4 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 5 AA5 LEU A 250 THR A
258 1 9
104 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mz9_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 GLN A
269 1 10
105 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mza_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
156 LEU A 163 1 8
Start residue of secondary structure not found: HELIX 2 AA2 ASP A 171 ASP A
184 1 14
Start residue of secondary structure not found: HELIX 3 AA3 LEU A 186 ASN A
191 1 6
Start residue of secondary structure not found: HELIX 4 AA4 THR A 203 ARG A
211 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 213 ASN A
223 1 11
103 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mzb_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 GLN A
269 1 10
98 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mzc_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 GLN A
269 1 10
95 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mzd_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 GLN A
269 1 10
96 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7mze_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 213 ASN A
223 1 11
Start residue of secondary structure not found: HELIX 3 AA3 GLY A 233 LYS A
237 5 5
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 5 AA5 GLN A 260 GLN A
269 1 10
96 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Cannot find LINK/SSBOND residue GLY (643 )
Summary of feedback from opening 7s88_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 GLN A
24 SER A 47 1 24
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASP A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 57 LEU A 65
1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
26 messages similar to the above omitted
End residue of secondary structure not found: HELIX 32 AD5 GLU A 588 LEU A 608
1 21
Start residue of secondary structure not found: HELIX 33 AD6 ARG B 25 SER B 47
1 23
Start residue of secondary structure not found: HELIX 34 AD7 SER B 47 ASP B 55
1 9
Start residue of secondary structure not found: HELIX 35 AD8 ASP B 57 LEU B 65
1 9
Start residue of secondary structure not found: HELIX 36 AD9 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 37 AE1 ASN B 91 ALA B
102 1 12
49 messages similar to the above omitted
End residue of secondary structure not found: HELIX 96 AK6 GLU C 588 LEU C 608
1 21
Start residue of secondary structure not found: HELIX 97 AK7 ARG D 25 SER D 47
1 23
Start residue of secondary structure not found: HELIX 98 AK8 SER D 47 ASP D 55
1 9
Start residue of secondary structure not found: HELIX 99 AK9 ASP D 57 LEU D 65
1 9
Start residue of secondary structure not found: HELIX 100 AL1 THR D 81 TYR D
89 1 9
Start residue of secondary structure not found: HELIX 101 AL2 ASN D 91 ALA D
102 1 12
26 messages similar to the above omitted
End residue of secondary structure not found: HELIX 128 AO2 GLU D 588 LEU D
608 1 21
Start residue of secondary structure not found: SHEET 1 AA1 4 LYS A 264 TYR A
270 0
Start residue of secondary structure not found: SHEET 2 AA1 4 LEU A 273 TYR A
278 -1 O SER A 275 N GLN A 267
Start residue of secondary structure not found: SHEET 3 AA1 4 TRP A 629 ARG A
636 -1 O LEU A 631 N TYR A 278
Start residue of secondary structure not found: SHEET 4 AA1 4 ILE A 618 CYS A
619 -1 N ILE A 618 O PHE A 630
Start residue of secondary structure not found: SHEET 1 AA2 2 LEU A 352 PRO A
354 0
19 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
3 messages similar to the above omitted
Summary of feedback from opening 7s8b_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 GLU A
27 ARG A 43 1 17
Start residue of secondary structure not found: HELIX 2 AA2 VAL A 58 TYR A 67
1 10
Start residue of secondary structure not found: HELIX 3 AA3 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 4 AA4 GLU A 93 ALA A 102
1 10
Start residue of secondary structure not found: HELIX 5 AA5 PRO A 103 VAL A
106 5 4
25 messages similar to the above omitted
End residue of secondary structure not found: HELIX 31 AD4 GLU A 588 LYS A 607
1 20
End residue of secondary structure not found: HELIX 32 AD5 SER B 28 ARG B 43 1
16
Start residue of secondary structure not found: HELIX 33 AD6 VAL B 58 TYR B 67
1 10
Start residue of secondary structure not found: HELIX 34 AD7 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 35 AD8 GLU B 93 ALA B
102 1 10
Start residue of secondary structure not found: HELIX 36 AD9 PRO B 103 VAL B
106 5 4
Start residue of secondary structure not found: HELIX 37 AE1 THR B 119 ASN B
127 1 9
24 messages similar to the above omitted
End residue of secondary structure not found: HELIX 62 AG8 GLU B 588 LYS B 607
1 20
End residue of secondary structure not found: HELIX 63 AG9 SER C 28 ARG C 43 1
16
Start residue of secondary structure not found: HELIX 73 AI1 SER C 175 GLU C
184 1 10
Start residue of secondary structure not found: HELIX 74 AI2 THR C 198 LEU C
205 1 8
Start residue of secondary structure not found: HELIX 75 AI3 ASN C 208 SER C
221 1 14
Start residue of secondary structure not found: HELIX 76 AI4 PRO C 231 VAL C
235 5 5
Start residue of secondary structure not found: HELIX 77 AI5 THR C 242 GLY C
251 1 10
15 messages similar to the above omitted
End residue of secondary structure not found: HELIX 93 AK3 GLU C 588 LYS C 607
1 20
End residue of secondary structure not found: HELIX 94 AK4 SER D 28 ARG D 43 1
16
Start residue of secondary structure not found: HELIX 95 AK5 VAL D 58 TYR D 67
1 10
Start residue of secondary structure not found: HELIX 96 AK6 THR D 81 TYR D 89
1 9
Start residue of secondary structure not found: HELIX 97 AK7 GLU D 93 ALA D
102 1 10
Start residue of secondary structure not found: HELIX 98 AK8 PRO D 103 VAL D
106 5 4
Start residue of secondary structure not found: HELIX 99 AK9 THR D 119 ASN D
127 1 9
24 messages similar to the above omitted
End residue of secondary structure not found: HELIX 124 AN7 GLU D 588 LYS D
607 1 20
Start residue of secondary structure not found: SHEET 1 AA1 4 LYS A 264 TYR A
270 0
Start residue of secondary structure not found: SHEET 2 AA1 4 LEU A 273 TYR A
278 -1 O SER A 275 N GLN A 267
Start residue of secondary structure not found: SHEET 3 AA1 4 TRP A 629 ARG A
636 -1 O LEU A 631 N TYR A 278
Start residue of secondary structure not found: SHEET 4 AA1 4 ILE A 618 CYS A
619 -1 N ILE A 618 O PHE A 630
Start residue of secondary structure not found: SHEET 1 AA2 2 LEU A 352 PRO A
354 0
19 messages similar to the above omitted
Summary of feedback from opening 7s8c_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 GLU A
27 GLU A 46 1 20
Start residue of secondary structure not found: HELIX 2 AA2 SER A 47 ASP A 55
1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 57 GLU A 68
1 12
Start residue of secondary structure not found: HELIX 4 AA4 THR A 81 TYR A 89
1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 91 ALA A 102
1 12
27 messages similar to the above omitted
End residue of secondary structure not found: HELIX 33 AD6 SER B 28 GLU B 46 1
19
Start residue of secondary structure not found: HELIX 34 AD7 SER B 47 ASP B 55
1 9
Start residue of secondary structure not found: HELIX 35 AD8 ASP B 57 GLU B 68
1 12
Start residue of secondary structure not found: HELIX 36 AD9 THR B 81 TYR B 89
1 9
Start residue of secondary structure not found: HELIX 37 AE1 ASN B 91 ALA B
102 1 12
Start residue of secondary structure not found: HELIX 38 AE2 PRO B 103 GLU B
108 5 6
49 messages similar to the above omitted
End residue of secondary structure not found: HELIX 97 AK7 SER D 28 GLU D 46 1
19
Start residue of secondary structure not found: HELIX 98 AK8 SER D 47 ASP D 55
1 9
Start residue of secondary structure not found: HELIX 99 AK9 ASP D 57 GLU D 68
1 12
Start residue of secondary structure not found: HELIX 100 AL1 THR D 81 TYR D
89 1 9
Start residue of secondary structure not found: HELIX 101 AL2 ASN D 91 ALA D
102 1 12
Start residue of secondary structure not found: HELIX 102 AL3 PRO D 103 GLU D
108 5 6
50 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
Cannot find LINK/SSBOND residue ASP (542 )
3 messages similar to the above omitted
Summary of feedback from opening 7sq9_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
42 PHE A 49 1 8
Start residue of secondary structure not found: HELIX 2 AA2 SER A 51 LYS A 59
1 9
Start residue of secondary structure not found: HELIX 3 AA3 PRO A 63 LEU A 106
1 44
Start residue of secondary structure not found: HELIX 4 AA4 THR A 121 ILE A
138 1 18
Start residue of secondary structure not found: HELIX 5 AA5 ILE A 138 SER A
143 1 6
114 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASN (230 )
Cannot find LINK/SSBOND residue ASN (230 )
Cannot find LINK/SSBOND residue ASN (230 )
Cannot find LINK/SSBOND residue ASN (230 )
Summary of feedback from opening 7ugg_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 LEU A
119 GLY A 130 1 12
Start residue of secondary structure not found: HELIX 2 AA2 CYS A 131 ARG A
148 1 18
Start residue of secondary structure not found: HELIX 3 AA3 VAL A 154 LEU A
162 1 9
Start residue of secondary structure not found: HELIX 4 AA4 THR A 170 ASN A
178 1 9
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 182 ALA A
194 1 13
142 messages similar to the above omitted
Summary of feedback from opening 7rqu_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
114 SER A 124 1 11
Start residue of secondary structure not found: HELIX 2 AA2 ASN A 125 SER A
139 1 15
Start residue of secondary structure not found: HELIX 3 AA3 THR A 156 ASN A
164 1 9
Start residue of secondary structure not found: HELIX 4 AA4 ASP A 171 THR A
183 1 13
Start residue of secondary structure not found: HELIX 5 AA5 THR A 203 ARG A
211 1 9
114 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
3 messages similar to the above omitted
Summary of feedback from opening 7rqv_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 ARG A
114 SER A 124 1 11
Start residue of secondary structure not found: HELIX 2 AA2 THR A 156 ASN A
164 1 9
Start residue of secondary structure not found: HELIX 3 AA3 ASP A 171 THR A
183 1 13
Start residue of secondary structure not found: HELIX 4 AA4 THR A 203 ARG A
212 1 10
Start residue of secondary structure not found: HELIX 5 AA5 ASN A 213 ASN A
223 1 11
118 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
3 messages similar to the above omitted
Summary of feedback from opening 7rqx_renum.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 AA1 THR A
203 ARG A 211 1 9
Start residue of secondary structure not found: HELIX 2 AA2 MET A 214 ASN A
223 1 10
Start residue of secondary structure not found: HELIX 3 AA3 LEU A 250 THR A
258 1 9
Start residue of secondary structure not found: HELIX 4 AA4 LEU A 261 GLN A
269 1 9
Start residue of secondary structure not found: HELIX 5 AA5 THR A 286 ALA A
295 1 10
102 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue CYS (386 )
Cannot find LINK/SSBOND residue GLY (643 )
3 messages similar to the above omitted
7l2v_renum.pdb title:
Cryo-em structure of RTX-bound minimal TRPV1 with NMDG At state B [more
info...]
Chain information for 7l2v_renum.pdb
---
Chain | Description | UniProt
1.1/A 1.1/B 1.1/C 1.1/D | No description available | TRPV1_RAT
5iwk_renum.pdb title:
Structure of transient receptor potential (TRP) channel TRPV6 [more info...]
Chain information for 5iwk_renum.pdb #2
---
Chain | Description
A B C D | No description available
Non-standard residues in 5iwk_renum.pdb #2
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
5iwp_renum.pdb title:
Structure of transient receptor potential (TRP) channel TRPV6 In the presence
of calcium [more info...]
Chain information for 5iwp_renum.pdb #3
---
Chain | Description
A B C D | No description available
Non-standard residues in 5iwp_renum.pdb #3
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
5iwr_renum.pdb title:
Structure of transient receptor potential (TRP) channel TRPV6 In the presence
of barium [more info...]
Chain information for 5iwr_renum.pdb #4
---
Chain | Description
A B C D | No description available
Non-standard residues in 5iwr_renum.pdb #4
---
BA — barium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
5wo6_renum.pdb title:
Crystal structure of transient receptor potential (TRP) channel TRPV6CRYST
[more info...]
Chain information for 5wo6_renum.pdb #5
---
Chain | Description | UniProt
A | No description available | TRPV6_RAT
Non-standard residues in 5wo6_renum.pdb #5
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
5wo7_renum.pdb title:
Crystal structure of transient receptor potential (TRP) channel TRPV6* [more
info...]
Chain information for 5wo7_renum.pdb #6
---
Chain | Description | UniProt
A | No description available | TRPV6_RAT
Non-standard residues in 5wo7_renum.pdb #6
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
5wo8_renum.pdb title:
Crystal structure of transient receptor potential (TRP) channel TRPV6*-DEL1
[more info...]
Chain information for 5wo8_renum.pdb #7
---
Chain | Description | UniProt
A | No description available | TRPV6_RAT
Non-standard residues in 5wo8_renum.pdb #7
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
5wo9_renum.pdb title:
Crystal structure of transient receptor potential (TRP) channel TRPV6* In the
presence of calcium [more info...]
Chain information for 5wo9_renum.pdb #8
---
Chain | Description | UniProt
A | No description available | TRPV6_RAT
Non-standard residues in 5wo9_renum.pdb #8
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
6b5v_renum.pdb title:
Structure of TRPV5 In complex with econazole [more info...]
Chain information for 6b5v_renum.pdb #9
---
Chain | Description | UniProt
A B C D | No description available | TRPV5_RABIT
Non-standard residues in 6b5v_renum.pdb #9
---
CA — calcium ion
DUM — (DUM)
ECL —
1-[(2R)-2-[(4-chlorobenzyl)oxy]-2-(2,4-dichlorophenyl)ethyl]-1H-imidazole
(R-econazole)
6d7p_renum.pdb title:
Crystal structure of rat TRPV6*-Y466A [more info...]
Chain information for 6d7p_renum.pdb #10
---
Chain | Description
A B C D | No description available
Non-standard residues in 6d7p_renum.pdb #10
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
6d7q_renum.pdb title:
Crystal structure of rat TRPV6*-Y466A In complex with 2- aminoethoxydiphenyl
borate (2-apb) [more info...]
Chain information for 6d7q_renum.pdb #11
---
Chain | Description
A B C D | No description available
Non-standard residues in 6d7q_renum.pdb #11
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
FZ4 — 2-aminoethyl diphenylborinate
6d7t_renum.pdb title:
Cryo-em structure of human TRPV6-Y467A In complex with 2- aminoethoxydiphenyl
borate (2-apb) [more info...]
Chain information for 6d7t_renum.pdb #12
---
Chain | Description
A B C D | No description available
Non-standard residues in 6d7t_renum.pdb #12
---
CA — calcium ion
DUM — (DUM)
FZ4 — 2-aminoethyl diphenylborinate
6d7v_renum.pdb title:
Crystal structure of rat TRPV6*- In complex with brominated 2-
aminoethoxydiphenyl borate (2-apb-Br) [more info...]
Chain information for 6d7v_renum.pdb #13
---
Chain | Description
A B C D | No description available
Non-standard residues in 6d7v_renum.pdb #13
---
CA — calcium ion
DUM — (DUM)
FYY — 2-aminoethyl (4-bromophenyl)phenylborinate
6d7x_renum.pdb title:
Crystal structure of rat TRPV6*-Y466A- In complex with brominated 2-
aminoethoxydiphenyl borate (2-apb-Br) [more info...]
Chain information for 6d7x_renum.pdb #14
---
Chain | Description
A B C D | No description available
Non-standard residues in 6d7x_renum.pdb #14
---
CA — calcium ion
DTB — 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid (D-desthiobiotin)
DUM — (DUM)
FYY — 2-aminoethyl (4-bromophenyl)phenylborinate
6pvn_renum.pdb title:
Cryo-em structure of mouse TRPV3-Y564A In putative sensitized state At [more
info...]
Chain information for 6pvn_renum.pdb
---
Chain | Description | UniProt
15.1/A 15.1/B 15.1/C 15.1/D | No description available | TRPV3_MOUSE
6uw4_renum.pdb title:
Cryo-em structure of human TRPV3 determined In lipid nanodisc [more info...]
Chain information for 6uw4_renum.pdb
---
Chain | Description | UniProt
16.1/A 16.1/B 16.1/C 16.1/D | No description available | TRPV3_HUMAN
7k4a_renum.pdb title:
Cryo-em structure of human TRPV6 In the open state [more info...]
Chain information for 7k4a_renum.pdb
---
Chain | Description | UniProt
17.1/A 17.1/B 17.1/C 17.1/D | No description available | TRPV6_HUMAN
7k4c_renum.pdb title:
Cryo-em structure of human TRPV6 In complex with (4- [more info...]
Chain information for 7k4c_renum.pdb
---
Chain | Description | UniProt
18.1/A 18.1/B 18.1/C 18.1/D | No description available | TRPV6_HUMAN
7k4d_renum.pdb title:
Cryo-em structure of human TRPV6 In complex with (4- [more info...]
Chain information for 7k4d_renum.pdb
---
Chain | Description | UniProt
19.1/A 19.1/B 19.1/C 19.1/D | No description available | TRPV6_HUMAN
6c8f_renum.pdb title:
Crystal structure of transient receptor potential (TRP) channel TRPV4 In the
presence of cesium [more info...]
Chain information for 6c8f_renum.pdb #20
---
Chain | Description
A B C D | No description available
Non-standard residues in 6c8f_renum.pdb #20
---
CS — cesium ion
DUM — (DUM)
6c8g_renum.pdb title:
Crystal structure of transient receptor potential (TRP) channel TRPV4 In the
presence of barium [more info...]
Chain information for 6c8g_renum.pdb #21
---
Chain | Description
A B C D | No description available
Non-standard residues in 6c8g_renum.pdb #21
---
BA — barium ion
DUM — (DUM)
7d2k_renum.pdb title:
Crystal structure of rat TRPV6 In complex with (4- phenylcyclohexyl)
piperazine inhibitor Br-cis-22A [more info...]
Chain information for 7d2k_renum.pdb #22
---
Chain | Description
A | No description available
Non-standard residues in 7d2k_renum.pdb #22
---
CA — calcium ion
DUM — (DUM)
GQC —
1-(5-bromanylpyridin-3-yl)-4-[4-(3-methylphenyl)cyclohexyl]piperazin-4-ium
7l2h_renum.pdb title:
Cryo-em structure of unliganded full-length TRPV1 At neutral pH [more info...]
Chain information for 7l2h_renum.pdb
---
Chain | Description | UniProt
23.1/A 23.1/C 23.1/D | No description available | TRPV1_RAT
23.1/B | No description available | TRPV1_RAT
7l2m_renum.pdb title:
Cryo-em structure of DKTX/RTX-bound full-length TRPV1 [more info...]
Chain information for 7l2m_renum.pdb
---
Chain | Description | UniProt
24.1/A 24.1/B 24.1/C 24.1/D | No description available | TRPV1_RAT
24.1/E 24.1/F | No description available | DKTX_CYRSC
7l2p_renum.pdb title:
Cryo-em structure of unliganded minimal TRPV1 [more info...]
Chain information for 7l2p_renum.pdb
---
Chain | Description | UniProt
25.1/A | No description available | TRPV1_RAT
25.1/B | No description available | TRPV1_RAT
25.1/C | No description available | TRPV1_RAT
25.1/D | No description available | TRPV1_RAT
7l2s_renum.pdb title:
Cryo-em structure of DKTX-bound minimal TRPV1 At the pre-bound state [more
info...]
Chain information for 7l2s_renum.pdb
---
Chain | Description | UniProt
26.1/A 26.1/B 26.1/D | No description available | TRPV1_RAT
26.1/C | No description available | TRPV1_RAT
7l2t_renum.pdb title:
Cryo-em structure of DKTX-bound minimal TRPV1 In partial open state [more
info...]
Chain information for 7l2t_renum.pdb
---
Chain | Description | UniProt
27.1/A | No description available | TRPV1_RAT
27.1/B | No description available | TRPV1_RAT
27.1/C | No description available | TRPV1_RAT
27.1/D | No description available | TRPV1_RAT
27.1/E 27.1/F | No description available | DKTX_CYRSC
7l2u_renum.pdb title:
Cryo-em structure of DKTX-bound minimal TRPV1 In open state [more info...]
Chain information for 7l2u_renum.pdb
---
Chain | Description | UniProt
28.1/A | No description available | TRPV1_RAT
28.1/B | No description available | TRPV1_RAT
28.1/C | No description available | TRPV1_RAT
28.1/D | No description available | TRPV1_RAT
28.1/E 28.1/F | No description available | DKTX_CYRSC
7l2w_renum.pdb title:
Cryo-em structure of RTX-bound minimal TRPV1 with NMDG At state A [more
info...]
Chain information for 7l2w_renum.pdb
---
Chain | Description | UniProt
29.1/A 29.1/B 29.1/C 29.1/D | No description available | TRPV1_RAT
7l2x_renum.pdb title:
Cryo-em structure of RTX-bound minimal TRPV1 with NMDG At state C [more
info...]
Chain information for 7l2x_renum.pdb
---
Chain | Description | UniProt
30.1/A 30.1/B 30.1/C 30.1/D | No description available | TRPV1_RAT
7lp9_renum.pdb title:
Cryo-em structure of full-length TRPV1 At 4 degrees celsius [more info...]
Chain information for 7lp9_renum.pdb
---
Chain | Description | UniProt
31.1/A 31.1/B 31.1/C 31.1/D | No description available | TRPV1_RAT
7lpa_renum.pdb title:
Cryo-em structure of full-length TRPV1 with capsaicin At 4 degrees celsius
[more info...]
Chain information for 7lpa_renum.pdb
---
Chain | Description | UniProt
32.1/A 32.1/B 32.1/C 32.1/D | No description available | TRPV1_RAT
7lqy_renum.pdb title:
Structure of squirrel TRPV1 In apo state [more info...]
Chain information for 7lqy_renum.pdb
---
Chain | Description | UniProt
33.1/A 33.1/B 33.1/C 33.1/D | No description available | I3LZN5_ICTTR
7lqz_renum.pdb title:
Structure of squirrel TRPV1 In complex with RTX [more info...]
Chain information for 7lqz_renum.pdb
---
Chain | Description | UniProt
34.1/A 34.1/B 34.1/C 34.1/D | No description available | I3LZN5_ICTTR
7mij_renum.pdb title:
Mouse TRPV3 In MSP2N2 nanodiscs, closed state At 4 degrees celsius [more
info...]
Chain information for 7mij_renum.pdb
---
Chain | Description | UniProt
35.1/A 35.1/B 35.1/C 35.1/D | No description available | TRPV3_MOUSE
7mik_renum.pdb title:
Mouse TRPV3 In MSP2N2 nanodiscs, closed state At 42 degrees celsius [more
info...]
Chain information for 7mik_renum.pdb
---
Chain | Description | UniProt
36.1/A 36.1/B 36.1/C 36.1/D | No description available | TRPV3_MOUSE
7mim_renum.pdb title:
Mouse TRPV3 In CNW11 nanodiscs, closed state At 4 degrees celsius [more
info...]
Chain information for 7mim_renum.pdb
---
Chain | Description | UniProt
37.1/A 37.1/B 37.1/C 37.1/D | No description available | TRPV3_MOUSE
7min_renum.pdb title:
Mouse TRPV3 In CNW11 nanodiscs, closed state At 42 degrees celsius [more
info...]
Chain information for 7min_renum.pdb
---
Chain | Description | UniProt
38.1/A 38.1/B 38.1/C 38.1/D | No description available | TRPV3_MOUSE
7mz6_renum.pdb title:
Cryo-em structure of minimal TRPV1 with 1 perturbed π [more info...]
Chain information for 7mz6_renum.pdb
---
Chain | Description | UniProt
39.1/A 39.1/B 39.1/C 39.1/D | No description available | TRPV1_RAT
7mz7_renum.pdb title:
Cryo-em structure of minimal TRPV1 with 4 partially bound RTX [more info...]
Chain information for 7mz7_renum.pdb
---
Chain | Description | UniProt
40.1/A 40.1/B 40.1/C 40.1/D | No description available | TRPV1_RAT
7mz9_renum.pdb title:
Cryo-em structure of minimal TRPV1 with 1 partially bound RTX [more info...]
Chain information for 7mz9_renum.pdb
---
Chain | Description | UniProt
41.1/A | No description available | TRPV1_RAT
41.1/B | No description available | TRPV1_RAT
41.1/C | No description available | TRPV1_RAT
41.1/D | No description available | TRPV1_RAT
7mza_renum.pdb title:
Cryo-em structure of minimal TRPV1 with 2 bound RTX In adjacent pockets [more
info...]
Chain information for 7mza_renum.pdb
---
Chain | Description | UniProt
42.1/A | No description available | TRPV1_RAT
42.1/B | No description available | TRPV1_RAT
42.1/C 42.1/D | No description available | TRPV1_RAT
7mzb_renum.pdb title:
Cryo-em structure of minimal TRPV1 with 3 bound RTX and 1 perturbed π [more
info...]
Chain information for 7mzb_renum.pdb
---
Chain | Description | UniProt
43.1/A | No description available | TRPV1_RAT
43.1/B 43.1/C 43.1/D | No description available | TRPV1_RAT
7mzc_renum.pdb title:
Cryo-em structure of minimal TRPV1 with RTX bound In C1 state [more info...]
Chain information for 7mzc_renum.pdb
---
Chain | Description | UniProt
44.1/A 44.1/B 44.1/C 44.1/D | No description available | TRPV1_RAT
7mzd_renum.pdb title:
Cryo-em structure of minimal TRPV1 with RTX bound In C2 state [more info...]
Chain information for 7mzd_renum.pdb
---
Chain | Description | UniProt
45.1/A 45.1/B 45.1/C 45.1/D | No description available | TRPV1_RAT
7mze_renum.pdb title:
Cryo-em structure of minimal TRPV1 with 2 bound RTX In opposite pockets [more
info...]
Chain information for 7mze_renum.pdb
---
Chain | Description | UniProt
46.1/A | No description available | TRPV1_RAT
46.1/B 46.1/D | No description available | TRPV1_RAT
46.1/C | No description available | TRPV1_RAT
7s88_renum.pdb title:
Open apo-state cryo-em structure of human TRPV6 In glyco-diosgenin detergent
[more info...]
Chain information for 7s88_renum.pdb #47
---
Chain | Description
A B C D | No description available
Non-standard residues in 7s88_renum.pdb #47
---
CA — calcium ion
DUM — (DUM)
PCW — 1,2-dioleoyl-Sn-glycero-3-phosphocholine
((Z,Z)-4-hydroxy-N,N,N-trimethyl-10-oxo-7-[(1-oxo-9-octadecenyl)oxy]-3,5,9-trioxa-4-phosphaheptacos-18-en-1-aminium-4-oxide)
POV — (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl
2-(trimethylammonio)ethyl phosphate (POPC)
Y01 — cholesterol hemisuccinate
7s8b_renum.pdb title:
Cryo-em structure of human TRPV6 In complex with channel blocker ruthenium red
[more info...]
Chain information for 7s8b_renum.pdb #48
---
Chain | Description
A B C D | No description available
Non-standard residues in 7s8b_renum.pdb #48
---
CA — calcium ion
DUM — (DUM)
PCW — 1,2-dioleoyl-Sn-glycero-3-phosphocholine
((Z,Z)-4-hydroxy-N,N,N-trimethyl-10-oxo-7-[(1-oxo-9-octadecenyl)oxy]-3,5,9-trioxa-4-phosphaheptacos-18-en-1-aminium-4-oxide)
POV — (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl
2-(trimethylammonio)ethyl phosphate (POPC)
R2R — ruthenium(6+) azanide pentaamino(oxido)ruthenium(1/4/2)
Y01 — cholesterol hemisuccinate
7s8c_renum.pdb title:
Cryo-em structure of human TRPV6 In complex with inhibitor econazole [more
info...]
Chain information for 7s8c_renum.pdb #49
---
Chain | Description
A B C D | No description available
Non-standard residues in 7s8c_renum.pdb #49
---
CA — calcium ion
CL — chloride ion
DUM — (DUM)
ECL —
1-[(2R)-2-[(4-chlorobenzyl)oxy]-2-(2,4-dichlorophenyl)ethyl]-1H-imidazole
(R-econazole)
POV — (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl
2-(trimethylammonio)ethyl phosphate (POPC)
Y01 — cholesterol hemisuccinate
7sq9_renum.pdb title:
Cryo-em structure of mouse temsirolimus/π(3,5)P2-bound TRPML1 channel At 2.11
angstrom resolution [more info...]
Chain information for 7sq9_renum.pdb #50
---
Chain | Description
A B C D | No description available
Non-standard residues in 7sq9_renum.pdb #50
---
A4I —
(1R,2R,4S)-4-{(2R)-2-[(3S,6R,7E,9R,10R,12R,14S,15E,17E,19E,21S,23S,26R,27R,30S,34AS)-9,27-dihydroxy-10,21-dimethoxy-6,8,12,14,20,26-hexamethyl-1,5,11,28,29-pentaoxo-1,4,5,6,9,10,11,12,13,14,21,22,23,24,25,26,27,28,29,31,32,33,34,34A-tetracosahydro-3H-23,27-epoxypyrido[2,1-C][1,4]oxazacyclohentriacontin-3-yl]propyl}-2-methoxycyclohexyl
3-hydroxy-2-(hydroxymethyl)-2-methylpropanoate (temsirolimus)
DUM — (DUM)
EUJ —
(2R)-3-{[(S)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyldioctanoate
NA — sodium ion
NAG — 2-acetamido-2-deoxy-β-D-glucopyranose (N-acetyl-β-D-glucosamine;
2-acetamido-2-deoxy-β-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-acetyl-D-glucosamine)
7ugg_renum.pdb title:
Cryo-em structure of TRPV3 In complex with the anesthetic dyclonine [more
info...]
Chain information for 7ugg_renum.pdb #51
---
Chain | Description
A B C D | No description available
Non-standard residues in 7ugg_renum.pdb #51
---
DUM — (DUM)
N8R — dyclonine (1-(4-butoxyphenyl)-3-(piperidin-1-yl)propan-1-one)
NA — sodium ion
POV — (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl
2-(trimethylammonio)ethyl phosphate (POPC)
7rqu_renum.pdb title:
Cryo-em structure of the full-length TRPV1 with RTX At 4 degrees celsius, In A
closed state, class I [more info...]
Chain information for 7rqu_renum.pdb #52
---
Chain | Description
A B C D | No description available
Non-standard residues in 7rqu_renum.pdb #52
---
6EU — resiniferatoxin (RTX)
6OU — [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-
propan-2-yl] (~{Z})-octadec-9-enoate
DUM — (DUM)
LBN — 1-palmitoyl-2-oleoyl-Sn-glycero-3-phosphocholine
((2R)-2-[(9Z)-9-octadecenoyloxy]-3-(palmitoyloxy)PROPYL2-(trimethylammonio)ethyl
phosphate)
NA — sodium ion
YFP — 1-palmitoyl-2-oleoyl-Sn-glycero-3-phosphoglycerol
7rqv_renum.pdb title:
Cryo-em structure of the full-length TRPV1 with RTX At 4 degrees celsius, In
an intermediate-closed state, class II [more info...]
Chain information for 7rqv_renum.pdb #53
---
Chain | Description
A B C D | No description available
Non-standard residues in 7rqv_renum.pdb #53
---
6EU — resiniferatoxin (RTX)
6OU — [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-
propan-2-yl] (~{Z})-octadec-9-enoate
DUM — (DUM)
LBN — 1-palmitoyl-2-oleoyl-Sn-glycero-3-phosphocholine
((2R)-2-[(9Z)-9-octadecenoyloxy]-3-(palmitoyloxy)PROPYL2-(trimethylammonio)ethyl
phosphate)
NA — sodium ion
7rqx_renum.pdb title:
Cryo-em structure of the full-length TRPV1 with RTX At 25 degrees celsius, In
an intermediate-open state, class A [more info...]
Chain information for 7rqx_renum.pdb #54
---
Chain | Description
A B C D | No description available
Non-standard residues in 7rqx_renum.pdb #54
---
6EU — resiniferatoxin (RTX)
6OU — [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-
propan-2-yl] (~{Z})-octadec-9-enoate
DUM — (DUM)
LBN — 1-palmitoyl-2-oleoyl-Sn-glycero-3-phosphocholine
((2R)-2-[(9Z)-9-octadecenoyloxy]-3-(palmitoyloxy)PROPYL2-(trimethylammonio)ethyl
phosphate)
NA — sodium ion
> delete solvent
> name cluster (#1:XPS & #1:902) | (#2:CA & #2:701) | (#3:CA & #3:701) |
> (#3:CA & #3:702) | (#4:BA & #4:701) | (#4:BA & #4:702) | (#5:CA & #5:701) |
> (#6:CA & #6:702) | (#7:CA & #7:702) | (#8:CA & #8:702) | (#8:CA & #8:703) |
> (#9:CA & #9:1002) | (#10:CA & #10:701) | (#11:CA & #11:703) | (#12:CA &
> #12:803) | (#13:CA & #13:702) | (#14:CA & #14:701) | (#14:CA & #14:702) |
> (#15:NA & #15:801) | (#16:NA & #16:806) | (#17:CA & #17:817) | (#18:CA &
> #18:702) | (#18:CA & #18:703) | (#19:CA & #19:702) | (#19:CA & #19:703) |
> (#20:CS & #20:1001) | (#21:BA & #21:1001) | (#22:CA & #22:701) | (#23:NA &
> #23:903) | (#24:NA & #24:902) | (#25:NA & #25:804) | (#26:NA & #26:803) |
> (#27:NA & #27:802) | (#28:NA & #28:803) | (#28:NA & #28:802) | (#29:NA &
> #29:902) | (#30:XPJ & #30:903) | (#31:NA & #31:911) | (#32:NA & #32:909) |
> (#33:NA & #33:911) | (#34:NA & #34:910) | (#35:NA & #35:913) | (#35:NA &
> #35:914) | (#36:NA & #36:911) | (#36:NA & #36:912) | (#37:NA & #37:911) |
> (#38:NA & #38:910) | (#38:NA & #38:911) | (#39:NA & #39:803) | (#40:NA &
> #40:902) | (#41:NA & #41:802) | (#42:NA & #42:802) | (#43:NA & #43:902) |
> (#44:NA & #44:902) | (#45:NA & #45:902) | (#46:NA & #46:802) | (#47:CA &
> #47:817) | (#48:R2R & #48:813) | (#49:CA & #49:709) | (#50:NA & #50:603) |
> (#51:NA & #51:909) | (#52:NA & #52:910) | (#53:NA & #53:907) | (#54:NA &
> #54:907)
"(#1:XPS & #1:902) | (#2:CA & #2:701) | (#3:CA & #3:701) | (#3:CA & #3:702) |
(#4:BA & #4:701) | (#4:BA & #4:702) | (#5:CA & #5:701) | (#6:CA & #6:702) |
(#7:CA & #7:702) | (#8:CA & #8:702) | (#8:CA & #8:703) | (#9:CA & #9:1002) |
(#10:CA & #10:701) | (#11:CA & #11:703) | (#12:CA & #12:803) | (#13:CA &
#13:702) | (#14:CA & #14:701) | (#14:CA & #14:702) | (#15:NA & #15:801) |
(#16:NA & #16:806) | (#17:CA & #17:817) | (#18:CA & #18:702) | (#18:CA &
#18:703) | (#19:CA & #19:702) | (#19:CA & #19:703) | (#20:CS & #20:1001) |
(#21:BA & #21:1001) | (#22:CA & #22:701) | (#23:NA & #23:903) | (#24:NA &
#24:902) | (#25:NA & #25:804) | (#26:NA & #26:803) | (#27:NA & #27:802) |
(#28:NA & #28:803) | (#28:NA & #28:802) | (#29:NA & #29:902) | (#30:XPJ &
#30:903) | (#31:NA & #31:911) | (#32:NA & #32:909) | (#33:NA & #33:911) |
(#34:NA & #34:910) | (#35:NA & #35:913) | (#35:NA & #35:914) | (#36:NA &
#36:911) | (#36:NA & #36:912) | (#37:NA & #37:911) | (#38:NA & #38:910) |
(#38:NA & #38:911) | (#39:NA & #39:803) | (#40:NA & #40:902) | (#41:NA &
#41:802) | (#42:NA & #42:802) | (#43:NA & #43:902) | (#44:NA & #44:902) |
(#45:NA & #45:902) | (#46:NA & #46:802) | (#47:CA & #47:817) | (#48:R2R &
#48:813) | (#49:CA & #49:709) | (#50:NA & #50:603) | (#51:NA & #51:909) |
(#52:NA & #52:910) | (#53:NA & #53:907) | (#54:NA & #54:907) ": contains extra
trailing text
> hide all & ~ cluster atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color all & ~ cluster grey
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> name close :2536 | :2538 | :2539 | :2541
":2536 | :2538 | :2539 | :2541 ": contains extra trailing text
> hide close ribbons
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> show close atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> setattr :2536 atoms bfactor 0.3586
Assigning bfactor attribute to 1626 items
> setattr :2538 atoms bfactor 0.3152
Assigning bfactor attribute to 1037 items
> setattr :2539 atoms bfactor 0.3299
Assigning bfactor attribute to 1626 items
> setattr :2541 atoms bfactor 0.3467
Assigning bfactor attribute to 1622 items
> color bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
> color byattribute bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
Expected a collection of one of 'atoms', 'cartoons', 'ribbons', or 'surfaces'
or a keyword
> color modify close saturation 50
Missing or invalid "adjuster" argument: Should be one of 'blackness', 'blue',
'contrast', 'green', 'hue', 'lightness', 'red', 'saturation', or 'whiteness'
> hide backbone & ~close target ab
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all & ~(close | cluster) label #1 &(:2536 | :2538 | :2539 | :2541)
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color cluster #005674
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> set bgColor white
> hide all & ~cluster atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all & ~(cluster) atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all & ~(cluster) a
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color all & ~ cluster grey
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'
or a keyword
> cluster
Unknown command: cluster
> select cluster
Expected an objects specifier or a keyword
> name cluster (#1:XPS & #1:902) | (#2:CA & #2:701) | (#3:CA & #3:701) |
> (#3:CA & #3:702) | (#4:BA & #4:701) | (#4:BA & #4:702) | (#5:CA & #5:701) |
> (#6:CA & #6:702) | (#7:CA & #7:702) | (#8:CA & #8:702) | (#8:CA & #8:703) |
> (#9:CA & #9:1002) | (#10:CA & #10:701) | (#11:CA & #11:703) | (#12:CA &
> #12:803) | (#13:CA & #13:702) | (#14:CA & #14:701) | (#14:CA & #14:702) |
> (#15:NA & #15:801) | (#16:NA & #16:806) | (#17:CA & #17:817) | (#18:CA &
> #18:702) | (#18:CA & #18:703) | (#19:CA & #19:702) | (#19:CA & #19:703) |
> (#20:CS & #20:1001) | (#21:BA & #21:1001) | (#22:CA & #22:701) | (#23:NA &
> #23:903) | (#24:NA & #24:902) | (#25:NA & #25:804) | (#26:NA & #26:803) |
> (#27:NA & #27:802) | (#28:NA & #28:803) | (#28:NA & #28:802) | (#29:NA &
> #29:902) | (#30:XPJ & #30:903) | (#31:NA & #31:911) | (#32:NA & #32:909) |
> (#33:NA & #33:911) | (#34:NA & #34:910) | (#35:NA & #35:913) | (#35:NA &
> #35:914) | (#36:NA & #36:911) | (#36:NA & #36:912) | (#37:NA & #37:911) |
> (#38:NA & #38:910) | (#38:NA & #38:911) | (#39:NA & #39:803) | (#40:NA &
> #40:902) | (#41:NA & #41:802) | (#42:NA & #42:802) | (#43:NA & #43:902) |
> (#44:NA & #44:902) | (#45:NA & #45:902) | (#46:NA & #46:802) | (#47:CA &
> #47:817) | (#48:R2R & #48:813) | (#49:CA & #49:709) | (#50:NA & #50:603) |
> (#51:NA & #51:909) | (#52:NA & #52:910) | (#53:NA & #53:907) | (#54:NA &
> #54:907)
> hide all & ~ cluster atoms
> color all & ~ cluster grey
> name close :2536 | :2538 | :2539 | :2541
":2536 | :2538 | :2539 | :2541 ": contains extra trailing text
> hide close ribbons
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> show close atoms
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> setattr :2536 atoms bfactor 0.3586
Assigning bfactor attribute to 1626 items
> setattr :2538 atoms bfactor 0.3152
Assigning bfactor attribute to 1037 items
> setattr :2539 atoms bfactor 0.3299
Assigning bfactor attribute to 1626 items
> setattr :2541 atoms bfactor 0.3467
Assigning bfactor attribute to 1622 items
> color bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
> color byattribute bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
Expected a collection of one of 'atoms', 'cartoons', 'ribbons', or 'surfaces'
or a keyword
> color modify close saturation 50
Missing or invalid "adjuster" argument: Should be one of 'blackness', 'blue',
'contrast', 'green', 'hue', 'lightness', 'red', 'saturation', or 'whiteness'
> hide backbone & ~close target ab
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all & ~(close | cluster) label #1 &(:2536 | :2538 | :2539 | :2541)
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color cluster #005674
> select close
Expected an objects specifier or a keyword
> name close :2536 | :2538 | :2539 | :2541
> hide close ribbons
> show close atoms
> setattr :2536 atoms bfactor 0.3586
Assigning bfactor attribute to 1626 items
> setattr :2538 atoms bfactor 0.3152
Assigning bfactor attribute to 1037 items
> setattr :2539 atoms bfactor 0.3299
Assigning bfactor attribute to 1626 items
> setattr :2541 atoms bfactor 0.3467
Assigning bfactor attribute to 1622 items
> color bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
5911 atoms, 840 residues, atom bfactor range 0.315 to 0.359
> color modify close saturation 50
> hide backbone & ~close target ab
> hide all & ~(close | cluster) label #1 &(:2536 | :2538 | :2539 | :2541)
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> color cluster #005674
> show close atoms
> setattr :2536 atoms bfactor 0.3586
Assigning bfactor attribute to 1626 items
> setattr :2538 atoms bfactor 0.3152
Assigning bfactor attribute to 1037 items
> setattr :2539 atoms bfactor 0.3299
Assigning bfactor attribute to 1626 items
> setattr :2541 atoms bfactor 0.3467
Assigning bfactor attribute to 1622 items
> color bfactor close range 0,1 palette "#2F0596:#BA3388:#F0F921"
5911 atoms, 840 residues, atom bfactor range 0.315 to 0.359
> color modify close saturation 50
> hide backbone & ~close target ab
> hide all & ~(close | cluster)
> label #1 &(:2536 | :2538 | :2539 | :2541)
> color cluster #005674
> hide close ribbons
> hide all & ~(close | cluster)
> select close
5911 atoms, 5445 bonds, 840 residues, 54 models selected
> select cluseter
Expected an objects specifier or a keyword
> select cluster
133 atoms, 24 bonds, 18 pseudobonds, 91 residues, 55 models selected
> hide all &~(cluster | close)
> hide all &~(cluster | close) ribbons
> hide all &~(cluster | close) ar
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all &~(cluster | close) ra
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide all &~(cluster | close) ribbons a
Expected ',' or a keyword
> hide all &~(cluster | close) ribbons atoms
Expected ',' or a keyword
> style
> (#10,12,22,47,49-50#15.1#16.1#17.1#18.1#19.1#25.1#26.1#29.1#30.1#33.1#35.1#36.1#37.1#38.1#39.1#40.1#41.1#42.1#43.1#44.1#45.1#46.1#!2-9,11,13-14,20-21,48,51-54#!1.1#!23.1#!24.1#!27.1#!28.1#!31.1#!32.1#!34.1
> & sel) stick
Changed 133 atom styles
> select close
5911 atoms, 5445 bonds, 840 residues, 54 models selected
> style sel stick
Changed 5911 atom styles
> hide close & ~#1
> hide backbone close
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide backbone close ab
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide backbone
> ui mousemode right pivot
> ui tool show "Side View"
> hide :XPS :XPJ :R2R
> color cluster byelement
> ui mousemode right select
> select #22/A:701@CA
1 atom, 1 residue, 1 model selected
> label sel
> select #20/D:1001@CS
1 atom, 1 residue, 1 model selected
> label sel
> undo
> label delete :701
> label delete :1001
> show #2 & close
> label #2 & close
> hide #2 & close
> hide #1 & close
> show #3 & close
> label #3 & close
QXcbConnection: XCB error: 148 (Unknown), sequence: 55909, resource id: 0,
major code: 140 (Unknown), minor code: 20
QXcbConnection: XCB error: 148 (Unknown), sequence: 13037, resource id: 0,
major code: 140 (Unknown), minor code: 20
> hide #3 & close
> show #4 & close
> label #4 & close
> hide #4 & close
> show #5 & close
> hide #5 & close
> show #6 & close
> label #6 & close
> hide #6 & close
> show #7 & close
> hide #7 & close
> show #8 & close
> hide #!8 models
> show #!8 models
> hide #!8 models
> hide #!9 models
> show #!9 models
> show #!8 models
> hide #8 & close
> show #9 & close
> label #8 & close
> label #9 & close
> hide backbone
> save
> /home/iwe9/Pictures/ChimeraX/Transient_receptor_potential_channels/4_labeled_1_Ions.png
> width 1339 height 814 supersample 3
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 3.3.0 NVIDIA 470.57.02
OpenGL renderer: NVIDIA GeForce RTX 2080 SUPER/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: bluechip Computer AG
Model: bluechip BUSINESSline Workstat
OS: CentOS Linux 7 Core
Architecture: 64bit ELF
Virutal Machine: none
CPU: 24 AMD Ryzen 9 3900X 12-Core Processor
Cache Size: 512 KB
Memory:
total used free shared buff/cache available
Mem: 62G 6.0G 49G 109M 7.4G 56G
Swap: 31G 0B 31G
Graphics:
07:00.0 VGA compatible controller [0300]: NVIDIA Corporation TU104 [GeForce RTX 2080 SUPER] [10de:1e81] (rev a1)
Subsystem: ASUSTeK Computer Inc. Device [1043:8712]
Kernel driver in use: nvidia
Locale: ('en_US', 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.10.8
cftime: 1.5.1.1
charset-normalizer: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-Clipper: 0.17.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ISOLDE: 1.3
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-LinuxSupport: 1.0
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
distro: 1.6.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
line-profiler: 3.3.0
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.3
ParmEd: 3.2.0
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.3
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 3 years ago
| Component: | Unassigned → Input/Output |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash saving image |
comment:2 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
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Crashed in Pillow trying to write out the png file for an image that has already been rendered and is not large. Unclear how this can crash. Saw a previous report of same crash, possibly the same user. Using older ChimeraX 1.3.