The following bug report has been submitted:
Platform: Windows-10-10.0.26100
ChimeraX Version: 1.10rc202505100155 (2025-05-10 01:55:54 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: code 0x8001010e
Thread 0x00003834 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000114c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000034b0 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 810 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 878 in wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000061b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001608 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001c84 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00003330 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001500 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000301c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000035b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00002f0c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00005bf8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000167c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00004314 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py"Windows fatal exception: , line code 0x1148001010e in
worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975Windows fatal exception: in code 0xrun8001010e
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pyWindows fatal exception: "code 0x, line 8001010e1038
in _bootstrap_inner
Windows fatal exception: File code 0x"8001010eC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py
", line 995Windows fatal exception: in code 0x_bootstrap8001010e
Thread 0x000024e8Windows fatal exception: (most recent call first):
code 0x File 8001010e"
C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line Windows fatal exception: 114code 0x in 8001010eworker
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pycode 0x"8001010e, line
975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000045c8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\qtpy\_utils.py", line 193 in _from_kwarg_name_to_kwarg_name_
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 312 in show_open_file_dialog
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 268 in
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1057 in init
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1220 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x00003834 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000114c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pycode 0x"8001010e, line
975 in run
Windows fatal exception: File code 0x"8001010eC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py
", line 1038Windows fatal exception: in code 0x_bootstrap_inner8001010e
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pyWindows fatal exception: "code 0x, line 8001010e995
in _bootstrap
Windows fatal exception:
code 0xThread 0x8001010e000034b0
(most recent call first):
File Windows fatal exception: "code 0xC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py8001010e"
, line 810 in Windows fatal exception: _exhaustive_waitcode 0x
8001010e File
"C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py"Windows fatal exception: , line code 0x8788001010e in
wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 502 in Windows fatal exception: _wait_for_updatescode 0x
8001010e File
"C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py"Windows fatal exception: , line code 0x5228001010e in
_handle_workers
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pycode 0x"8001010e, line
975 in runWindows fatal exception:
code 0x File 8001010e"
C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py"Windows fatal exception: , line code 0x10388001010e in
_bootstrap_inner
File Windows fatal exception: "code 0xC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py8001010e"
, line 995Windows fatal exception: in code 0x_bootstrap8001010e
Thread 0x000061b4Windows fatal exception: (most recent call first):
code 0x File 8001010e"
C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001608 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001c84 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00003330 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in runWindows fatal exception:
code 0x File 8001010e"
C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line Windows fatal exception: 1038code 0x in 8001010e_bootstrap_inner
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pycode 0x8001010e
", line Windows fatal exception: 995code 0x in 8001010e_bootstrap
Thread 0xWindows fatal exception: 00001500code 0x (most recent call first):
8001010e File
"C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py"Windows fatal exception: , line code 0x1148001010e in
worker
File Windows fatal exception: "code 0xC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py8001010e"
, line 975 in Windows fatal exception: runcode 0x
8001010e File
"C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000301c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000035b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00002f0c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py"Windows fatal exception: , line code 0x1148001010e in
worker
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pycode 0x"8001010e, line
975 in runWindows fatal exception:
code 0x File 8001010e"
C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py"Windows fatal exception: , line code 0x10388001010e in
_bootstrap_inner
File Windows fatal exception: "code 0xC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py8001010e"
, line 995 in Windows fatal exception: _bootstrapcode 0x
8001010e
Thread 0x00005bf8 (most recent call first):
Windows fatal exception: File code 0x"8001010eC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py
", line 114Windows fatal exception: in code 0xworker8001010e
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000167c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00004314 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000024e8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000045c8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\qtpy\_utils.py", line 193 in _from_kwarg_name_to_kwarg_name_
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 312 in show_open_file_dialog
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 268Windows fatal exception: in code 0x8001010e
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\ui\gui.py", line Windows fatal exception: 368code 0x in 8001010eevent_loop
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.pycode 0x"8001010e
Windows fatal exception: code 0x8001010e, line
1057 in initWindows fatal exception:
code 0x File 8001010e"
C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py"Windows fatal exception: code 0x, line 8001010e1220
in
Windows fatal exception: File code 0x"8001010e
", line Windows fatal exception: 88code 0x in 8001010e_run_code
File "", line 198 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x00003834 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 579Windows fatal exception: in code 0x_handle_results8001010e
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pyWindows fatal exception: "code 0x, line 8001010e975
in run
Windows fatal exception: File code 0x"8001010eC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py
", line Windows fatal exception: 1038code 0x in 8001010e_bootstrap_inner
File "Windows fatal exception: C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.pycode 0x"8001010e, line
995 in _bootstrapWindows fatal exception:
code 0x
8001010eThread 0x
0000114c (most recent call first):
Windows fatal exception: File code 0x"8001010eC:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py
", line Windows fatal exception: 531code 0x in 8001010e_handle_tasks
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000034b0 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 810 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 878 in wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000061b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001608 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001c84 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00003330 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001500 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000301c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000035b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00002f0c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00005bf8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000167c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00004314 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000024e8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000045c8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\qtpy\_utils.py", line 193 in _from_kwarg_name_to_kwarg_name_
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 312 in show_open_file_dialog
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 268 in
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1057 in init
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1220 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x00003834 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000114c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000034b0 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 810 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 878 in wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000061b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001608 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001c84 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00003330 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001500 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000301c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000035b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00002f0c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00005bf8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000167c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00004314 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000024e8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000045c8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\qtpy\_utils.py", line 193 in _from_kwarg_name_to_kwarg_name_
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 312 in show_open_file_dialog
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 268 in
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1057 in init
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1220 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x00003834 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000114c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000034b0 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 810 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 878 in wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000061b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001608 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001c84 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00003330 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001500 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000301c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000035b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00002f0c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00005bf8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000167c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00004314 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000024e8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000045c8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\qtpy\_utils.py", line 193 in _from_kwarg_name_to_kwarg_name_
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 312 in show_open_file_dialog
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\open_command\dialog.py", line 268 in
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1057 in init
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\__main__.py", line 1220 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x00003834 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000114c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000034b0 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 810 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\connection.py", line 878 in wait
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000061b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001608 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001c84 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00003330 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00001500 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000301c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000035b4 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00002f0c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00005bf8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x0000167c (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x00004314 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000024e8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 975 in run
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 1038 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\threading.py", line 995 in _bootstrap
Thread 0x000045c8 (most recent call first):
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\atomic\molc.py", line 339 in pointer
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\numpy\core\_methods.py", line 99 in _any
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\atomic\structure.py", line 1955 in _update_graphics_if_needed
File "", line 720 in __ior__
File "C:\Program Files\ChimeraX 1.10rc202505100155\bin\Lib\site-packages\chimerax\core\triggerset.py", line 259 in _activate
File ???, line 152818176 in ???
File Windows fatal exception: access violation
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
===== Log before crash start =====
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.10rc202505100155 (2025-05-10)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 1EMA
Summary of feedback from opening 1EMA fetched from pdb
---
notes | Fetching compressed mmCIF 1ema from http://files.rcsb.org/download/1ema.cif
Fetching CCD CRO from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/O/CRO/CRO.cif
1ema title:
Green fluorescent protein from aequorea victoria [more info...]
Chain information for 1ema #1
---
Chain | Description | UniProt
A | GREEN FLUORESCENT PROTEIN | GFP_AEQVI 2-238
Non-standard residues in 1ema #1
---
CRO —
{2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic
acid (peptide derived chromophore)
> select /A:203
7 atoms, 6 bonds, 1 residue, 1 model selected
> select /A:203
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add /A:184
16 atoms, 14 bonds, 2 residues, 1 model selected
> select subtract /A:184
7 atoms, 6 bonds, 1 residue, 1 model selected
> select up
71 atoms, 72 bonds, 9 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select /A:184
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
99 atoms, 101 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select clear
> select /A:184
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
99 atoms, 101 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select /A:183
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
99 atoms, 101 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select /A:183
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /A:109
11 atoms, 10 bonds, 1 residue, 1 model selected
> select add /A:108
18 atoms, 16 bonds, 2 residues, 1 model selected
> select add /A:107
25 atoms, 22 bonds, 3 residues, 1 model selected
> select add /A:124
31 atoms, 27 bonds, 4 residues, 1 model selected
> select /A:94
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
85 atoms, 87 bonds, 9 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select clear
> lighting soft
> select protein
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> color sel light sea green
> save "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/1EMA_1.cxs"
> save "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/1EMA_1.png" width 4000 height 2660 supersample 3
> transparentBackground true
> select protein
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> hide sel cartoons
> show sel atoms
> color sel byhetero
> hide sel atoms
> cartoon sel
> hide (sel-residues & (protein|nucleic)) target a
> cartoon hide sel-residues
> show (sel-residues & ((protein&@ca)|(nucleic&@p))) target ab
> hide sel cartoons
> ui tool show "Color Actions"
> color sel bychain
> show sel surfaces
> transparency (#!1 & sel) 70
> show sel cartoons
> hide sel cartoons
> show (#!1 & sel) target ab
> color (#!1 & sel) byhetero
> hide sel surfaces
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select clear
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> show surfaces
> ui tool show "Color Actions"
> color hot pink target s
> transparency 70
> show cartoons
> hide atoms
> ui tool show "Color Actions"
> color lime target c
> color lime green target c
> color olive drab target c
> color magenta target c
> color orchid target c
> color yellow target c
> color orange target c
> color deep sky blue target c
> color sea green target c
> color green target c
> color lime target c
> color chartreuse target c
> color lawn green target c
> color chartreuse target c
> color spring green target c
> color chartreuse target c
> save "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/1EMA_2.cxs"
> select ::name="HOH"
95 atoms, 95 residues, 1 model selected
> show sel atoms
> ui tool show "Color Actions"
> color sel orange red target a
> hide sel surfaces
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select /A:77@ND1
1 atom, 1 residue, 1 model selected
> select up
10 atoms, 10 bonds, 1 residue, 2 models selected
> select up
100 atoms, 103 bonds, 11 residues, 2 models selected
> select up
1771 atoms, 1815 bonds, 226 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 321 residues, 2 models selected
> hide sel surfaces
> select down
1 model selected
> select ::name="HOH"
95 atoms, 95 residues, 1 model selected
> style sel sphere
Changed 95 atom styles
> select ::name="HOH"
95 atoms, 95 residues, 1 model selected
> hide sel atoms
> select ::name="TYR"
108 atoms, 108 bonds, 9 residues, 1 model selected
> style sel ball
Changed 108 atom styles
> show sel atoms
> color (#!1 & sel) byhetero
> close session
> open 1EMA format mmcif fromDatabase pdb
1ema title:
Green fluorescent protein from aequorea victoria [more info...]
Chain information for 1ema #1
---
Chain | Description | UniProt
A | GREEN FLUORESCENT PROTEIN | GFP_AEQVI 2-238
Non-standard residues in 1ema #1
---
CRO —
{2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic
acid (peptide derived chromophore)
> ui tool show "Show Sequence Viewer"
> sequence chain /A
Alignment identifier is 1/A
> select /A:44-45
17 atoms, 16 bonds, 2 residues, 1 model selected
> select /A:44
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /A:44
8 atoms, 7 bonds, 1 residue, 1 model selected
> select /A:45
9 atoms, 8 bonds, 1 residue, 1 model selected
> select /A:45
9 atoms, 8 bonds, 1 residue, 1 model selected
> view /A:45
> color sel yellow
> color sel byhetero
> view sel
> show sel atoms
> ui tool show H-Bonds
> hbonds sel select true reveal true
6 hydrogen bonds found
> select protein
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> view sel
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select up
1866 atoms, 1815 bonds, 4 pseudobonds, 321 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select down
1771 atoms, 1815 bonds, 4 pseudobonds, 226 residues, 2 models selected
> select clear
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select down
Nothing selected
> select add /A:213
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel forest green
> color sel byhetero
> select /A:212
6 atoms, 5 bonds, 1 residue, 1 model selected
> select /A:212
6 atoms, 5 bonds, 1 residue, 1 model selected
> select /A:210
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cyan
> color sel byhetero
> select /A:215
11 atoms, 10 bonds, 1 residue, 1 model selected
> select /A:215
11 atoms, 10 bonds, 1 residue, 1 model selected
> select down
11 atoms, 11 bonds, 1 residue, 1 model selected
> select down
11 atoms, 11 bonds, 1 residue, 1 model selected
> select clear
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
96 atoms, 97 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
96 atoms, 97 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
96 atoms, 97 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
96 atoms, 97 bonds, 12 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select down
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select down
96 atoms, 97 bonds, 12 residues, 1 model selected
> select down
9 atoms, 8 bonds, 1 residue, 1 model selected
> select down
2 atoms, 1 bond, 1 residue, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select down
1 bond, 1 model selected
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select add /A:213@OE2
3 atoms, 5 bonds, 1 residue, 1 model selected
> style sel ball
Changed 3 atom styles
> select down
3 atoms, 5 bonds, 1 residue, 1 model selected
> select down
3 atoms, 5 bonds, 1 residue, 1 model selected
> select down
3 atoms, 5 bonds, 1 residue, 1 model selected
> select down
3 atoms, 5 bonds, 1 residue, 1 model selected
> select down
3 atoms, 5 bonds, 1 residue, 1 model selected
> select clear
> select /A:45
9 atoms, 8 bonds, 1 residue, 1 model selected
> style sel ball
Changed 9 atom styles
> select add /A:210@CB
1 atom, 1 bond, 1 residue, 1 model selected
> select add /A:210@OD1
2 atoms, 1 bond, 1 residue, 1 model selected
> select subtract /A:210@OD1
1 atom, 3 bonds, 1 residue, 1 model selected
> select add /A:210@OD2
2 atoms, 4 bonds, 1 residue, 1 model selected
> select add /A:210@OD1
3 atoms, 4 bonds, 1 residue, 1 model selected
> style sel ball
Changed 3 atom styles
> save "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/1EMA_3.cxs"
> close session
> open 1EMA format mmcif fromDatabase pdb
1ema title:
Green fluorescent protein from aequorea victoria [more info...]
Chain information for 1ema #1
---
Chain | Description | UniProt
A | GREEN FLUORESCENT PROTEIN | GFP_AEQVI 2-238
Non-standard residues in 1ema #1
---
CRO —
{2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic
acid (peptide derived chromophore)
> ui tool show "Show Sequence Viewer"
> sequence chain /A
Alignment identifier is 1/A
> select /A:68
7 atoms, 6 bonds, 1 residue, 1 model selected
> select /A:68
7 atoms, 6 bonds, 1 residue, 1 model selected
> select /A:64
11 atoms, 11 bonds, 1 residue, 1 model selected
> select /A:64
11 atoms, 11 bonds, 1 residue, 1 model selected
> select /A:66
22 atoms, 23 bonds, 1 residue, 1 model selected
> select /A:66
22 atoms, 23 bonds, 1 residue, 1 model selected
> select ::name="CRO"
22 atoms, 23 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 22 atom styles
> style sel ball
Changed 22 atom styles
> style sel stick
Changed 22 atom styles
> style sel sphere
Changed 22 atom styles
> style sel stick
Changed 22 atom styles
> view sel
> select ~sel & ##selected
1844 atoms, 1792 bonds, 320 residues, 1 model selected
> hide sel cartoons
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
22 atoms, 23 bonds, 1 residue, 1 model selected
> style sel ball
Changed 22 atom styles
> open 1yfp
Summary of feedback from opening 1yfp fetched from pdb
---
warnings | Atom NH1 has no neighbors to form bonds with according to residue template for ARG /A:168
Atom NH1 has no neighbors to form bonds with according to residue template for
ARG /B:168
note | Fetching compressed mmCIF 1yfp from http://files.rcsb.org/download/1yfp.cif
1yfp title:
Structure of yellow-emission variant of GFP [more info...]
Chain information for 1yfp #2
---
Chain | Description | UniProt
A B | YELLOW FLUORESCENT PROTEIN | GFP_AEQVI 3-229
Non-standard residues in 1yfp #2
---
CRO —
{2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic
acid (peptide derived chromophore)
1yfp mmCIF Assemblies
---
1| author_defined_assembly
2| author_defined_assembly
> select add #2
3516 atoms, 3503 bonds, 553 residues, 2 models selected
> select add #1
5360 atoms, 5295 bonds, 873 residues, 2 models selected
> select subtract #1
3494 atoms, 3480 bonds, 552 residues, 1 model selected
> close
> open 1EMA format mmcif fromDatabase pdb
1ema title:
Green fluorescent protein from aequorea victoria [more info...]
Chain information for 1ema #1
---
Chain | Description | UniProt
A | GREEN FLUORESCENT PROTEIN | GFP_AEQVI 2-238
Non-standard residues in 1ema #1
---
CRO —
{2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic
acid (peptide derived chromophore)
> open 2yfp
Summary of feedback from opening 2yfp fetched from pdb
---
notes | Fetching compressed mmCIF 2yfp from http://files.rcsb.org/download/2yfp.cif
Fetching CCD CR2 from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/2/CR2/CR2.cif
2yfp title:
Structure of yellow-emission variant of GFP [more info...]
Chain information for 2yfp #2
---
Chain | Description | UniProt
A | PROTEIN (GREEN FLUORESCENT PROTEIN) | Q93125_AEQVI 1-238
Non-standard residues in 2yfp #2
---
CR2 —
{(4Z)-2-(aminomethyl)-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic
acid (chromophore (gly-tyr-gly))
> open 1bfp
Summary of feedback from opening 1bfp fetched from pdb
---
notes | Fetching compressed mmCIF 1bfp from http://files.rcsb.org/download/1bfp.cif
Fetching CCD IIC from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/C/IIC/IIC.cif
1bfp title:
Blue variant of green fluorescent protein [more info...]
Chain information for 1bfp #3
---
Chain | Description | UniProt
A | BLUE FLUORESCENT PROTEIN | GFP_AEQVI 1-238
Non-standard residues in 1bfp #3
---
IIC — 4-imidazolmethylene-5-imidazolone chromophore
> select ::name="CRO"
22 atoms, 23 bonds, 1 residue, 1 model selected
> show sel atoms
> select ~sel
5487 atoms, 5409 bonds, 885 residues, 3 models selected
> hide sel cartoons
> hide #1 models
> show #1 models
> show target m
> select add #1
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select subtract #1
3643 atoms, 3619 bonds, 565 residues, 2 models selected
> select add #1
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> show target m
> show sel cartoons
> select down
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select clear
> select ::name="CRO"
22 atoms, 23 bonds, 1 residue, 1 model selected
> style sel ball
Changed 22 atom styles
> color sel lime
> color sel byhetero
> select up
61 atoms, 63 bonds, 6 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select down
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select down
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select down
61 atoms, 63 bonds, 6 residues, 1 model selected
> select down
22 atoms, 23 bonds, 1 residue, 1 model selected
> select down
22 atoms, 23 bonds, 1 residue, 1 model selected
> select down
22 atoms, 23 bonds, 1 residue, 1 model selected
> select #2/A:18
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
88 atoms, 88 bonds, 12 residues, 1 model selected
> select up
1747 atoms, 1791 bonds, 226 residues, 1 model selected
> ui tool show "Show Sequence Viewer"
> sequence chain #2/A
Alignment identifier is 2/A
> select #2/A:202-203
18 atoms, 18 bonds, 2 residues, 1 model selected
> select #2/A:202-203
18 atoms, 18 bonds, 2 residues, 1 model selected
> select #2/A:203
12 atoms, 12 bonds, 1 residue, 1 model selected
> select #2/A:203
12 atoms, 12 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel ball
Changed 12 atom styles
> color sel yellow
> color sel byhetero
> select down
88 atoms, 88 bonds, 12 residues, 1 model selected
> select down
8 atoms, 7 bonds, 1 residue, 1 model selected
> select down
8 atoms, 7 bonds, 1 residue, 1 model selected
> select down
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #1/A:149
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
45 atoms, 46 bonds, 5 residues, 1 model selected
> select up
1771 atoms, 1815 bonds, 226 residues, 1 model selected
> select up
1866 atoms, 1815 bonds, 321 residues, 1 model selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> ui tool show "Show Sequence Viewer"
> sequence chain #3/A
Alignment identifier is 3/A
> select #3/A:145
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #3/A:145
11 atoms, 11 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel ball
Changed 11 atom styles
> color sel blue
> color sel byhetero
> view sel
> select up
158 atoms, 161 bonds, 19 residues, 1 model selected
> select up
1784 atoms, 1828 bonds, 227 residues, 1 model selected
> select up
1866 atoms, 1828 bonds, 309 residues, 1 model selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> select up
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> view sel
> select down
1866 atoms, 1828 bonds, 309 residues, 1 model selected
> select down
1784 atoms, 1828 bonds, 227 residues, 1 model selected
> select down
158 atoms, 161 bonds, 19 residues, 1 model selected
> select down
11 atoms, 11 bonds, 1 residue, 1 model selected
> select up
13 atoms, 12 bonds, 2 residues, 2 models selected
> select up
33 atoms, 34 bonds, 2 residues, 2 models selected
> select add #2/A:203@CG
34 atoms, 34 bonds, 3 residues, 3 models selected
> select up
45 atoms, 46 bonds, 3 residues, 3 models selected
> select ~sel
5464 atoms, 5382 bonds, 883 residues, 3 models selected
> hide sel cartoons
> select
5509 atoms, 5434 bonds, 886 residues, 3 models selected
> show sel cartoons
> select ::name="CRO"
22 atoms, 23 bonds, 1 residue, 1 model selected
> show sel atoms
> select #3/A
1866 atoms, 1828 bonds, 309 residues, 1 model selected
> select ::name="CRO"
22 atoms, 23 bonds, 1 residue, 1 model selected
> select protein
5302 atoms, 5434 bonds, 679 residues, 3 models selected
> ui tool show Matchmaker
> matchmaker #2-3 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 1ema, chain A (#1) with 2yfp, chain A (#2), sequence alignment
score = 1206.4
RMSD between 225 pruned atom pairs is 0.305 angstroms; (across all 225 pairs:
0.305)
Matchmaker 1ema, chain A (#1) with 1bfp, chain A (#3), sequence alignment
score = 1212.5
RMSD between 223 pruned atom pairs is 0.295 angstroms; (across all 225 pairs:
0.663)
> hide #3 models
> hide #2 models
> show #3 models
> save "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/4.cxs"
> close session
> open 1udt
Summary of feedback from opening 1udt fetched from pdb
---
notes | Fetching compressed mmCIF 1udt from http://files.rcsb.org/download/1udt.cif
Fetching CCD MG from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/G/MG/MG.cif
Fetching CCD VIA from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/A/VIA/VIA.cif
Fetching CCD ZN from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/N/ZN/ZN.cif
1udt title:
Crystal structure of Human Phosphodiesterase 5 complexed with
Sildenafil(Viagra) [more info...]
Chain information for 1udt #1
---
Chain | Description | UniProt
A | cGMP-specific 3',5'-cyclic phosphodiesterase | PDE5A_HUMAN 537-860
Non-standard residues in 1udt #1
---
MG — magnesium ion
VIA —
5-{2-ethoxy-5-[(4-methylpiperazin-1-yl)sulfonyl]phenyl}-1-methyl-3-propyl-1H,6H,7H-pyrazolo[4,3-D]pyrimidin-7-one
(sildenafil; viagra)
ZN — zinc ion
> select protein
2542 atoms, 2590 bonds, 1 pseudobond, 313 residues, 2 models selected
> select ~sel
113 atoms, 36 bonds, 7 pseudobonds, 81 residues, 3 models selected
> color (#!1 & sel) lime
> color sel byhetero
> style sel ball
Changed 113 atom styles
> ui tool show H-Bonds
> hbonds sel select true reveal true
192 hydrogen bonds found
> close session
> open cif4
'cif4' has no suffix
> open CIF4
'CIF4' has no suffix
> open C:/Users/Alberto/Downloads/fold_2025_06_15_23_52.zip
Unrecognized file suffix '.zip'
> open
> C:/Users/Alberto/Downloads/fold_2025_06_15_23_52/fold_2025_06_15_23_52_model_4.cif
Chain information for fold_2025_06_15_23_52_model_4.cif #1
---
Chain | Description
A | .
B | .
Computing secondary structure
> select protein
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> color bfactor sel
9766 atoms, 1286 residues, atom bfactor range 17.8 to 98.6
> select down
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> select up
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> select down
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> select down
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> select down
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> select down
9766 atoms, 9991 bonds, 1286 residues, 1 model selected
> select clear
> select /A:58
7 atoms, 6 bonds, 1 residue, 1 model selected
> select up
502 atoms, 517 bonds, 70 residues, 1 model selected
> select up
4882 atoms, 4995 bonds, 643 residues, 1 model selected
> select down
502 atoms, 517 bonds, 70 residues, 1 model selected
> select add /B:39
507 atoms, 521 bonds, 71 residues, 1 model selected
> select up
1004 atoms, 1034 bonds, 140 residues, 1 model selected
> hide sel atoms
> hide sel cartoons
> save "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/cif4.cxs"
> close session
> open C:/Users/Alberto/Downloads/model_01.cif/model.cif
Summary of feedback from opening
C:/Users/Alberto/Downloads/model_01.cif/model.cif
---
notes | Fetching CCD 1MS from https://files.wwpdb.org/pub/pdb/refdata/chem_comp/S/1MS/1MS.cif
Fetching CCD TDM from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/M/TDM/TDM.cif
model.cif title:
Untitled Project [more info...]
Chain information for model.cif #1
---
Chain | Description
A B C D | .
Non-standard residues in model.cif #1
---
1MS — N-[(4-methylpyrimidin-2-yl)carbamoyl]-2-nitrobenzenesulfonamide
MG — magnesium ion
TDM —
2-[(2E)-3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-2-(1-hydroxyethylidene)-4-methyl-2,3-dihydro-1,3-thiazol-5-yl]ethyltrihydrogen
diphosphate
Color model.cif by residue attribute QMEANDisCo_score
Alignment identifier is 1
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 1
Alignment identifier is 2
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 2
Alignment identifier is 3
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 3
Alignment identifier is 4
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 4
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Computing secondary structure
> open "C:/Users/Alberto/Documents/UPV/asignaturas/aplicaciones DISEÑO nuevos
> caracteres/cif4.cxs"
> view name session-start
opened ChimeraX session
> close
> open C:\Users\Alberto\Downloads\model_01.cif\model.cif format mmcif
model.cif title:
Untitled Project [more info...]
Chain information for model.cif #1
---
Chain | Description
A B C D | .
Non-standard residues in model.cif #1
---
1MS — N-[(4-methylpyrimidin-2-yl)carbamoyl]-2-nitrobenzenesulfonamide
MG — magnesium ion
TDM —
2-[(2E)-3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-2-(1-hydroxyethylidene)-4-methyl-2,3-dihydro-1,3-thiazol-5-yl]ethyltrihydrogen
diphosphate
Color model.cif by residue attribute QMEANDisCo_score
Alignment identifier is 1
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 1
Alignment identifier is 2
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 2
Alignment identifier is 3
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 3
Alignment identifier is 4
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Showing conservation header ("seq_conservation" residue attribute) for
alignment 4
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Associated model.cif chain A to target with 0 mismatches
Associated model.cif chain B to target with 0 mismatches
Associated model.cif chain C to target with 0 mismatches
Associated model.cif chain D to target with 0 mismatches
Computing secondary structure
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.10rc202505100155 (2025-05-10)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 3.3.0 - Build 32.0.101.5542
OpenGL renderer: Intel(R) Iris(R) Xe Graphics
OpenGL vendor: Intel
Python: 3.11.4
Locale: es_ES.cp1252
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: windows
Manufacturer: HP
Model: HP Laptop 15s-fq5xxx
OS: Microsoft Windows 11 Home (Build 26100)
Memory: 16,835,268,608
MaxProcessMemory: 137,438,953,344
CPU: 12 12th Gen Intel(R) Core(TM) i5-1235U
OSLanguage: es-ES
Installed Packages:
alabaster: 1.0.0
appdirs: 1.4.4
asttokens: 3.0.0
auditwheel: 6.3.0
babel: 2.17.0
beautifulsoup4: 4.13.3
blockdiag: 3.0.0
blosc2: 3.3.2
build: 1.2.2.post1
certifi: 2025.4.26
cftime: 1.6.4.post1
charset-normalizer: 3.4.2
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.7
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.20.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Aniso: 1.1.3
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.60.5
ChimeraX-AtomicLibrary: 14.1.18
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.5.1
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.2.6
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.10rc202505100155
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.4
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.1
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.6.2
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.2.1
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.10.1
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.19
ChimeraX-ModelPanel: 1.5.1
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14.1
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.10
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.3
ChimeraX-ProfileGrids: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.3
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.7
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.1
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.45.1
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.5
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
comtypes: 1.4.10
contourpy: 1.3.2
coverage: 7.8.0
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.12
debugpy: 1.8.14
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.0
filelock: 3.18.0
fonttools: 4.58.0
funcparserlib: 2.0.0a0
glfw: 2.9.0
grako: 3.16.5
h5py: 3.13.0
html2text: 2024.2.26
idna: 3.10
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.1.0
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.7
jedi: 0.19.1
Jinja2: 3.1.6
jupyter_client: 8.6.3
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.15
kiwisolver: 1.4.8
line_profiler: 4.2.0
lxml: 5.3.1
lz4: 4.4.4
MarkupSafe: 3.0.2
matplotlib: 3.10.1
matplotlib-inline: 0.1.7
msgpack: 1.1.0
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
OpenMM: 8.2.0
openvr: 1.26.701
packaging: 24.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pickleshare: 0.7.5
pillow: 10.4.0
pip: 25.0.1
pkginfo: 1.11.1
platformdirs: 4.3.8
pluggy: 1.5.0
prompt_toolkit: 3.0.51
psutil: 7.0.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.32
Pygments: 2.18.0
pynmrstar: 3.3.5
pynrrd: 1.0.0
PyOpenGL: 3.1.9
PyOpenGL-accelerate: 3.1.9
pyopenxr: 1.1.4501
pyparsing: 3.2.3
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.8.1
PyQt6-Qt6: 6.8.2
PyQt6-WebEngine-commercial: 6.8.0
PyQt6-WebEngine-Qt6: 6.8.2
PyQt6_sip: 13.10.0
pytest: 8.3.5
pytest-cov: 6.1.1
python-dateutil: 2.9.0.post0
pytz: 2025.2
pywin32: 310
pyzmq: 26.4.0
qtconsole: 5.5.2
QtPy: 2.4.3
qtshim: 1.1
RandomWords: 0.4.0
requests: 2.32.3
roman-numerals-py: 3.1.0
scipy: 1.14.0
setuptools: 78.1.0
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.7
Sphinx: 8.2.3
sphinx-autodoc-typehints: 3.1.0
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.7.1
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.13.2
tzdata: 2025.2
urllib3: 2.4.0
wcwidth: 0.2.13
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.14
WMI: 1.5.1
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Last stack has _update_graphics_if_needed