Opened 12 months ago

Closed 12 months ago

#16326 closed defect (can't reproduce)

Crash running open/save dialog

Reported by: chimerax-bug-report@… Owned by: Eric Pettersen
Priority: normal Milestone:
Component: Window Toolkit Version:
Keywords: Cc: Tom Goddard
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description (last modified by Eric Pettersen) 

The following bug report has been submitted:
Platform:        macOS-15.1-arm64-arm-64bit
ChimeraX Version: 1.9rc202411082121 (2024-11-08 21:21:14 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Thread 0x0000000342d73000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000341d67000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000340d5b000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 930 in wait
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x000000033fd4f000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x000000033ed43000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x000000033dd37000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x000000033cd2b000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x000000033bd1f000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x000000033ad13000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000339d07000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000338cfb000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000337cef000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000336ce3000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000335cd7000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000000334ccb000 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Current thread 0x00000001f4997840 (most recent call first):
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/save_command/dialog.py", line 50 in display
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/save_command/dialog.py", line 138 in show_save_file_dialog
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/toolbar/providers.py", line 38 in _file_save
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/toolbar/providers.py", line 56 in run_provider
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/toolbar/__init__.py", line 37 in run_provider
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/toolshed/__init__.py", line 1419 in run_provider
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/toolshed/info.py", line 397 in run_provider
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/toolbar/tool.py", line 170 in callback
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
  File "/Applications/ChimeraX-1.9-rc2024.11.08.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 in 
  File "", line 88 in _run_code
  File "", line 198 in _run_module_as_main

Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, psutil._psutil_osx, psutil._psutil_posix, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, chimerax.segment._segment, lxml._elementpath, lxml.etree, PIL._imagingmath (total: 61)


{"app_name":"ChimeraX","timestamp":"2024-11-18 15:56:55.00 -0600","app_version":"1.9.0","slice_uuid":"17982d98-65bc-3327-8526-577ec996453c","build_version":"1.9.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 15.1 (24B83)","roots_installed":0,"name":"ChimeraX","incident_id":"277470A1-BBF7-4AA7-937B-58FC7898C213"}
{
  "uptime" : 80000,
  "procRole" : "Foreground",
  "version" : 2,
  "userID" : 503,
  "deployVersion" : 210,
  "modelCode" : "Mac14,13",
  "coalitionID" : 6752,
  "osVersion" : {
    "train" : "macOS 15.1",
    "build" : "24B83",
    "releaseType" : "User"
  },
  "captureTime" : "2024-11-18 15:56:54.2640 -0600",
  "codeSigningMonitor" : 1,
  "incident" : "277470A1-BBF7-4AA7-937B-58FC7898C213",
  "pid" : 80279,
  "translated" : false,
  "cpuType" : "ARM-64",
  "roots_installed" : 0,
  "bug_type" : "309",
  "procLaunch" : "2024-11-18 14:21:23.7772 -0600",
  "procStartAbsTime" : 1801485199151,
  "procExitAbsTime" : 1939017294269,
  "procName" : "ChimeraX",
  "procPath" : "\/Applications\/ChimeraX-1.9-rc2024.11.08.app\/Contents\/MacOS\/ChimeraX",
  "bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
  "storeInfo" : {"deviceIdentifierForVendor":"1F39C471-8B79-5DF6-BE60-89A9645D6815","thirdParty":true},
  "parentProc" : "launchd",
  "parentPid" : 1,
  "coalitionName" : "edu.ucsf.cgl.ChimeraX",
  "crashReporterKey" : "3CECEDAA-7E72-FCDF-55CF-BFE8609BAFD1",
  "codeSigningID" : "edu.ucsf.cgl.ChimeraX",
  "codeSigningTeamID" : "LWV8X224YF",
  "codeSigningFlags" : 570491649,
  "codeSigningValidationCategory" : 6,
  "codeSigningTrustLevel" : 4294967295,
  "instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRcuD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkWfg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
  "bootSessionUUID" : "9055DB8B-639E-417C-A94C-6993BCC2AA48",
  "wakeTime" : 5883,
  "sleepWakeUUID" : "E39D657B-E1E7-41F1-B7D3-602D544900C3",
  "sip" : "enabled",
  "vmRegionInfo" : "0x70c706344380 is not in any region.  Bytes after previous region: 18441083044737  \n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      MALLOC_NANO              600140000000-600160000000 [512.0M] rw-\/rwx SM=PRV  \n--->  \n      UNUSED SPACE AT END",
  "exception" : {"codes":"0x0000000000000001, 0x000070c706344380","rawCodes":[1,124000104891264],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x000070c706344380"},
  "termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":80279},
  "vmregioninfo" : "0x70c706344380 is not in any region.  Bytes after previous region: 18441083044737  \n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      MALLOC_NANO              600140000000-600160000000 [512.0M] rw-\/rwx SM=PRV  \n--->  \n      UNUSED SPACE AT END",
  "extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
  "faultingThread" : 0,
  "threads" : [{"threadState":{"x":[{"value":0},{"value":0},{"value":1},{"value":6099399960},{"value":80},{"value":116},{"value":105553141269920},{"value":1},{"value":14353710743643109246},{"value":14353710741286506302},{"value":14757395258967641293},{"value":4294967286},{"value":6099399890},{"value":0},{"value":54},{"value":4294967280},{"value":328},{"value":8535365712},{"value":0},{"value":11},{"value":259},{"value":8398666016,"symbolLocation":224,"symbol":"_main_thread"},{"value":2},{"value":1},{"value":4386063920,"symbolLocation":0,"symbol":"faulthandler_handlers"},{"value":11791448172606497699},{"value":1},{"value":8301506560},{"value":8301453312}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6703034224},"cpsr":{"value":1073745920},"fp":{"value":6099400032},"sp":{"value":6099400000},"esr":{"value":1442840704,"description":" Address size 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===== Log before crash start =====
UCSF ChimeraX version: 1.9rc202411082121 (2024-11-08)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open /Users/ndeese/Desktop/8uejNDeese.cxs

Opened map.mrc as #1, grid size 400,400,400, pixel 1.12, shown at level
0.0263, step 2, values float32  
Opened 8uej-assembly1.cif map 4 as #3, grid size 236,251,238, pixel 1.33,
shown at level 0.0961, step 1, values float32  
Opened volume difference as #4, grid size 400,400,400, pixel 1.12, shown at
level 0.0183, step 1, values float32  
Log from Fri Nov 15 16:59:47 2024 Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.9rc202411082121 (2024-11-08)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/ndeese/Downloads/map.mrc

Opened map.mrc as #1, grid size 400,400,400, pixel 1.12, shown at level
0.0263, step 2, values float32  

> open /Users/ndeese/Downloads/8uej-assembly1.cif

Summary of feedback from opening /Users/ndeese/Downloads/8uej-assembly1.cif  
---  
note | Fetching CCD CA from https://files.wwpdb.org/pub/pdb/refdata/chem_comp/A/CA/CA.cif  
  
8uej-assembly1.cif title:  
ssRNA phage PhiCb5 virion [more info...]  
  
Chain information for 8uej-assembly1.cif #2  
---  
Chain | Description  
AA AB AC AG AH AI AM AN AO AS AT AU AY AZ BA BE BF BG BK BL BM BQ BR BS BW BX BY CC CD CE CI CJ CK CO CP CQ CU CV CW DA DB DC DG DH DI DM DN DO DS DT DU DY DZ EA EE EF EG EK EL EM EQ ER ES EW EX EY FC FD FE FI FJ FK FO FP FQ FU FV FW GA GB GC GG GH GI GM GN GO GS GT GU GY GZ HC HD HE HI HJ HK HO HP HQ HU HV HW IA IB IC IG IH II IM IN IO IS IT IU IY IZ JA JE JF JG JK JL JM JQ JR JS JW JX JY KC KD KE KI KJ KK KO KP KQ KU KV KW LA LB LC LG LH LI LM LN LO LS LT LU LY LZ MA ME MF MG MK ML MM MQ MR MS MW MX NA NB NC NG NH NI NM NN NO | Coat protein  
M | Maturation protein  
  
Non-standard residues in 8uej-assembly1.cif #2  
---  
CA — calcium ion  
  

> hide #2 models

> fit#2inmap#1

Unknown command: fit#2inmap#1  

> fit#2inmap#1

Unknown command: fit#2inmap#1  

> show #2 models

> fit#2inmap#1

Unknown command: fit#2inmap#1  

> fitmap #2 inMap #1

Fit molecule 8uej-assembly1.cif (#2) to map map.mrc (#1) using 172913 atoms  
average map value = 0.02774, steps = 64  
shifted from previous position = 5.32  
rotated from previous position = 0.352 degrees  
atoms outside contour = 103530, contour level = 0.026347  
  
Position of 8uej-assembly1.cif (#2) relative to map.mrc (#1) coordinates:  
Matrix rotation and translation  
0.99998204 0.00599197 -0.00014922 -1.79149795  
-0.00599176 0.99998112 0.00136605 6.32454468  
0.00015741 -0.00136513 0.99999906 -0.10520794  
Axis -0.22214011 -0.02493963 -0.97469574  
Axis point 1056.05477447 289.44125711 0.00000000  
Rotation angle (degrees) 0.35222353  
Shift along axis 0.34277746  
  

> molmap #2 4

Opened 8uej-assembly1.cif map 4 as #3, grid size 236,251,238, pixel 1.33,
shown at level 0.0961, step 1, values float32  

> vop subtract #1 #3

Opened volume difference as #4, grid size 400,400,400, pixel 1.12, shown at
step 1, values float32  

> toolshed show

> hide atoms

> hide surfaces

> volume #4 level 0.0183

> ui tool show "Segment Map"

> lighting soft

Segmenting volume difference, density threshold 0.018300  
Showing 193 region surfaces  
2041 watershed regions, grouped to 193 regions  
Showing volume difference.seg - 193 regions, 193 surfaces  

> save /Users/ndeese/Desktop/8uejNDeese.cxs

——— End of log from Fri Nov 15 16:59:47 2024 ———

opened ChimeraX session  
Showing volume difference.seg - 193 regions, 193 surfaces  

> open /Users/ndeese/Downloads/fold_fragment1/fold_fragment1_model_0.cif

Chain information for fold_fragment1_model_0.cif #6  
---  
Chain | Description  
A | .  
  
Computing secondary structure  

> hide #!4 models

> hide #2 models

> open /Users/ndeese/Downloads/fold_5th_loop/fold_5th_loop_model_0.cif

Chain information for fold_5th_loop_model_0.cif #7  
---  
Chain | Description  
A | .  
  
Computing secondary structure  

> hide #6 models

> show #6 models

> hide #7 models

> show #7 models

> select add #7

1487 atoms, 1659 bonds, 70 residues, 1 model selected  

> ui mousemode right "translate selected models"

> view matrix models #7,1,0,0,-1.1742,0,1,0,17.513,0,0,1,24.583

> view matrix models #7,1,0,0,-35.788,0,1,0,184.32,0,0,1,215.32

> view matrix models #7,1,0,0,-19.792,0,1,0,195.17,0,0,1,261.53

> view matrix models #7,1,0,0,-15.088,0,1,0,214.13,0,0,1,299.22

> select subtract #7

Nothing selected  

> select add #6

10917 atoms, 12193 bonds, 514 residues, 1 model selected  

> view matrix models #6,1,0,0,19.015,0,1,0,68.868,0,0,1,140.45

> select subtract #6

Nothing selected  

> open /Users/ndeese/Downloads/fold_pin4/fold_pin4_model_0.cif

Chain information for fold_pin4_model_0.cif #8  
---  
Chain | Description  
A | .  
  
Computing secondary structure  

> open /Users/ndeese/Downloads/fold_pin_3/fold_pin_3_model_0.cif

Chain information for fold_pin_3_model_0.cif #9  
---  
Chain | Description  
A | .  
  
Computing secondary structure  

> select add #8

1609 atoms, 1794 bonds, 76 residues, 1 model selected  

> view matrix models #8,1,0,0,154.05,0,1,0,54.091,0,0,1,368.06

> select subtract #8

Nothing selected  

> select add #9

1614 atoms, 1802 bonds, 76 residues, 1 model selected  

> view matrix models #9,1,0,0,52.814,0,1,0,179.65,0,0,1,372.33

> select subtract #9

Nothing selected  

> open /Users/ndeese/Downloads/fold_pin_2/fold_pin_2_model_0.cif

Chain information for fold_pin_2_model_0.cif #10  
---  
Chain | Description  
A | .  
  
Computing secondary structure  

> open /Users/ndeese/Downloads/fold_pin_1/fold_pin_1_model_0.cif

Chain information for fold_pin_1_model_0.cif #11  
---  
Chain | Description  
A | .  
  
Computing secondary structure  

> hide #6 target m

> close #6

> select add #10

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models #10,1,0,0,22.158,0,1,0,5.803,0,0,1,161.92

> select subtract #10

Nothing selected  

> select add #11

2078 atoms, 2320 bonds, 98 residues, 1 model selected  

> view matrix models #11,1,0,0,67.759,0,1,0,-2.3156,0,0,1,73.076

> select subtract #11

Nothing selected  

> select add #7

1487 atoms, 1659 bonds, 70 residues, 1 model selected  

> view matrix models #7,1,0,0,63.435,0,1,0,259.11,0,0,1,258.62

> select add #8

3096 atoms, 3453 bonds, 146 residues, 2 models selected  

> select subtract #7

1609 atoms, 1794 bonds, 76 residues, 1 model selected  

> view matrix models #8,1,0,0,179.67,0,1,0,104.34,0,0,1,348.49

> select subtract #8

Nothing selected  

> select add #9

1614 atoms, 1802 bonds, 76 residues, 1 model selected  

> view matrix models #9,1,0,0,124.39,0,1,0,194.86,0,0,1,339.91

> select subtract #9

Nothing selected  

> select add #10

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models #10,1,0,0,140.46,0,1,0,56.329,0,0,1,103.83

> select subtract #10

Nothing selected  

> select add #11

2078 atoms, 2320 bonds, 98 residues, 1 model selected  

> view matrix models #11,1,0,0,59.198,0,1,0,304.72,0,0,1,22.077

> view matrix models #11,1,0,0,103.05,0,1,0,307.47,0,0,1,98.679

> select add #10

3796 atoms, 4238 bonds, 179 residues, 2 models selected  

> select subtract #11

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models #10,1,0,0,202.86,0,1,0,208.57,0,0,1,193.96

> select subtract #10

Nothing selected  

> select add #8

1609 atoms, 1794 bonds, 76 residues, 1 model selected  

> view matrix models #8,1,0,0,215.7,0,1,0,152.51,0,0,1,368.04

> view matrix models #8,1,0,0,215.31,0,1,0,158.87,0,0,1,350.44

> select subtract #8

Nothing selected  

> select add #10

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models #10,1,0,0,134.4,0,1,0,324.39,0,0,1,210.79

> select add #11

3796 atoms, 4238 bonds, 179 residues, 2 models selected  

> select subtract #10

2078 atoms, 2320 bonds, 98 residues, 1 model selected  

> view matrix models #11,1,0,0,129.98,0,1,0,295.81,0,0,1,119.47

> select subtract #11

Nothing selected  

> select add #7

1487 atoms, 1659 bonds, 70 residues, 1 model selected  

> view matrix models #7,1,0,0,83.05,0,1,0,265.44,0,0,1,249.28

> select subtract #7

Nothing selected  

> select add #9

1614 atoms, 1802 bonds, 76 residues, 1 model selected  

> view matrix models #9,1,0,0,132.67,0,1,0,193.84,0,0,1,327.67

> select subtract #9

Nothing selected  

> show #!4 models

> hide #!5 models

> select add #8

1609 atoms, 1794 bonds, 76 residues, 1 model selected  

> hide #9 models

> hide #10 models

> hide #11 models

> hide #7 models

> fitmap #8 inMap #4

Fit molecule fold_pin4_model_0.cif (#8) to map volume difference (#4) using
1609 atoms  
average map value = -0.0008462, steps = 412  
shifted from previous position = 62.1  
rotated from previous position = 13.2 degrees  
atoms outside contour = 1609, contour level = 0.0183  
  
Position of fold_pin4_model_0.cif (#8) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.99554951 -0.08671666 -0.03689701 199.43134896  
0.07711620 0.97466510 -0.20995486 132.74395146  
0.05416881 0.20617510 0.97701462 404.56117394  
Axis 0.91177166 -0.19953199 0.35896995  
Axis point 0.00000000 -1318.81940680 1077.04265394  
Rotation angle (degrees) 13.19103678  
Shift along axis 300.57449303  
  

> fitmap #8 inMap #4

Fit molecule fold_pin4_model_0.cif (#8) to map volume difference (#4) using
1609 atoms  
average map value = -0.0008464, steps = 84  
shifted from previous position = 0.0208  
rotated from previous position = 0.181 degrees  
atoms outside contour = 1609, contour level = 0.0183  
  
Position of fold_pin4_model_0.cif (#8) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.99554781 -0.08768066 -0.03459287 199.44204021  
0.07843229 0.97413970 -0.21189672 132.72164021  
0.05227754 0.20824012 0.97667964 404.56311234  
Axis 0.91322239 -0.18882420 0.36106825  
Axis point 0.00000000 -1298.99182690 1055.02238704  
Rotation angle (degrees) 13.29882972  
Shift along axis 303.14877363  
  

> view matrix models
> #8,0.99555,-0.087681,-0.034593,213.33,0.078432,0.97414,-0.2119,179.14,0.052278,0.20824,0.97668,315.7

> view matrix models
> #8,0.99555,-0.087681,-0.034593,212.1,0.078432,0.97414,-0.2119,191.84,0.052278,0.20824,0.97668,290

> fitmap #8 inMap #4

Fit molecule fold_pin4_model_0.cif (#8) to map volume difference (#4) using
1609 atoms  
average map value = 0.01197, steps = 1300  
shifted from previous position = 9.12  
rotated from previous position = 80.3 degrees  
atoms outside contour = 1141, contour level = 0.0183  
  
Position of fold_pin4_model_0.cif (#8) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.77112481 0.36627868 -0.52077486 218.68412257  
0.27110515 0.55119357 0.78910560 193.98102670  
0.57608031 -0.74968365 0.32573900 283.87356115  
Axis -0.81327293 -0.57970422 -0.05030062  
Axis point 0.00000000 250.12352674 120.19003530  
Rotation angle (degrees) 71.09326124  
Shift along axis -304.58051324  
  

> view matrix models
> #8,0.77112,0.36628,-0.52077,218.01,0.27111,0.55119,0.78911,199.65,0.57608,-0.74968,0.32574,284.92

> ui mousemode right "rotate selected models"

> view matrix models
> #8,-0.15614,0.49189,-0.85654,214.99,-0.76686,0.48618,0.41899,196.64,0.62253,0.72227,0.3013,282.55

> fitmap #8 inMap #4

Fit molecule fold_pin4_model_0.cif (#8) to map volume difference (#4) using
1609 atoms  
average map value = 0.01822, steps = 1144  
shifted from previous position = 22.6  
rotated from previous position = 133 degrees  
atoms outside contour = 774, contour level = 0.0183  
  
Position of fold_pin4_model_0.cif (#8) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.15409245 -0.98641887 -0.05686235 216.89892020  
0.46154872 0.12274644 -0.87858186 172.72455117  
0.87362938 0.10913808 0.47419467 277.65802942  
Axis 0.49773147 -0.46889305 0.72965930  
Axis point -155.77526163 237.63661634 0.00000000  
Rotation angle (degrees) 97.15091329  
Shift along axis 229.56383908  
  

> view matrix models
> #8,0.14195,-0.98697,-0.075738,216.88,0.47223,0.13477,-0.87111,172.74,0.86997,0.087888,0.48521,277.66

> fitmap #8 inMap #4

Fit molecule fold_pin4_model_0.cif (#8) to map volume difference (#4) using
1609 atoms  
average map value = 0.01822, steps = 64  
shifted from previous position = 0.0596  
rotated from previous position = 1.72 degrees  
atoms outside contour = 774, contour level = 0.0183  
  
Position of fold_pin4_model_0.cif (#8) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.15139467 -0.98726541 -0.04885347 216.88857114  
0.46666922 0.11495619 -0.87692925 172.73479542  
0.87137793 0.10996400 0.47813013 277.69281674  
Axis 0.49752375 -0.46391742 0.73297391  
Axis point -153.80516785 235.32090274 0.00000000  
Rotation angle (degrees) 97.34014203  
Shift along axis 231.31412251  
  

> select subtract #8

Nothing selected  

> ui mousemode right translate

> show #!5 models

> select add #5.97

1 model selected  

> select subtract #5.97

Nothing selected  

> select add #5.97

1 model selected  

> select add #5.15

2 models selected  

> select add #5.174

3 models selected  

> select add #5.162

4 models selected  
Grouped 4 regions  
Saving 1 regions to mrc file...  
Opened First SegFit.mrc as #6, grid size 62,41,105, pixel 1.12, shown at step
1, values float32  
Wrote First SegFit.mrc  

> hide #!4 models

> hide #!5 models

> show #!5 models

> select add #5

191 models selected  

> select subtract #5

Nothing selected  

> hide #!6 models

> show #!6 models

> hide #!5 models

> show #!4 models

> hide #!4 models

> volume #6 level 0.01921

> show #!4 models

> show #!5 models

> select add #5.15

1 model selected  

> select add #5.57

2 models selected  
Drag select of 2685, 563 of 2796 triangles, 2690, 47 of 8544 triangles, 2695,
107 of 10020 triangles, 2867, 266 of 11016 triangles, 2899, 979 of 11540
triangles, 2913, 822 of 39604 triangles, 4 volume difference , 1 shapes, 6
First SegFit.mrc  

> select add #5.15

6 atoms, 1 residue, 10 models selected  

> select #5.58

1 model selected  

> select #5.58

1 model selected  

> select add #5

191 models selected  

> select subtract #5

Nothing selected  

> select add #8/A:70

20 atoms, 21 bonds, 1 residue, 1 model selected  

> select add #5.15

20 atoms, 21 bonds, 1 residue, 2 models selected  

> select subtract #8/A:70

1 model selected  

> select add #5.57

2 models selected  
Saving 2 regions to mrc file...  
Opened First SegFit.mrc as #12, grid size 62,41,105, pixel 1.12, shown at step
1, values float32  
Wrote First SegFit.mrc  

> hide #!4 models

> hide #!5 models

> hide #!6 models

> volume #6 level 0.01913

> hide #!6 models

> volume #6 level 0.01843

> hide #!12 models

> hide #!6 models

> show #!12 models

> volume #12 level 0.01897

> volume #6 level 0.01913

> transparency #6.1#12.1 50

> hide #12.1 models

> hide #!12 models

> show #!12 models

> hide #!12 models

> show #!4 models

> show #!5 models

> select add #5

191 models selected  

> select subtract #5

Nothing selected  

> hide #8 models

> show #9 models

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> select add #9

1614 atoms, 1802 bonds, 76 residues, 1 model selected  

> ui mousemode right "translate selected models"

> ui mousemode right "move picked models"

> view matrix models #9,1,0,0,132.74,0,1,0,194.76,0,0,1,326.91

> view matrix models #9,1,0,0,133.23,0,1,0,224.06,0,0,1,301.28

> ui mousemode right "rotate selected models"

> view matrix models
> #9,0.20805,0.31762,-0.92511,133.47,0.43739,0.81576,0.37845,223.83,0.87487,-0.48337,0.030796,300.08

> ui mousemode right "move picked models"

> view matrix models #5.74,1,0,0,2.5218,0,1,0,2.1851,0,0,1,0.11891

> view matrix models
> #9,0.20805,0.31762,-0.92511,135.65,0.43739,0.81576,0.37845,223.97,0.87487,-0.48337,0.030796,301.74

> view matrix models
> #9,0.20805,0.31762,-0.92511,157.71,0.43739,0.81576,0.37845,224.16,0.87487,-0.48337,0.030796,319.59

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> ui mousemode right "move picked models"

> view matrix models
> #9,0.20805,0.31762,-0.92511,160.28,0.43739,0.81576,0.37845,226.48,0.87487,-0.48337,0.030796,319.85

> view matrix models
> #9,0.20805,0.31762,-0.92511,173.68,0.43739,0.81576,0.37845,275.56,0.87487,-0.48337,0.030796,296.09

> ui mousemode right "rotate selected models"

> view matrix models
> #9,0.35106,0.47429,-0.80735,173.37,0.57744,0.56909,0.58541,275.78,0.73711,-0.6717,-0.074085,296.41

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> hide #!5 models

> hide #!6 models

> fitmap #9 inMap #4

Fit molecule fold_pin_3_model_0.cif (#9) to map volume difference (#4) using
1614 atoms  
average map value = 0.0109, steps = 684  
shifted from previous position = 65.5  
rotated from previous position = 37.5 degrees  
atoms outside contour = 1340, contour level = 0.0183  
  
Position of fold_pin_3_model_0.cif (#9) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.67340023 0.36474111 -0.64303658 205.27313300  
0.69142846 -0.00288773 0.72243916 252.77568269  
0.26164635 -0.93110450 -0.25413698 244.83694759  
Axis -0.86439404 -0.47292524 0.17077662  
Axis point 0.00000000 193.75681548 86.11970808  
Rotation angle (degrees) 106.96648331  
Shift along axis -255.16844759  
  

> fitmap #9 inMap #4

Fit molecule fold_pin_3_model_0.cif (#9) to map volume difference (#4) using
1614 atoms  
average map value = 0.0109, steps = 40  
shifted from previous position = 0.0348  
rotated from previous position = 1.08 degrees  
atoms outside contour = 1337, contour level = 0.0183  
  
Position of fold_pin_3_model_0.cif (#9) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.67177785 0.35162157 -0.65197913 205.24974220  
0.69897246 -0.00947958 0.71508576 252.77494569  
0.24525909 -0.93609423 -0.25214196 244.84371115  
Axis -0.86402043 -0.46950191 0.18175987  
Axis point 0.00000000 194.69495442 86.49683576  
Rotation angle (degrees) 107.15285096  
Shift along axis -251.51552826  
  

> view matrix models
> #9,0.79703,0.60077,-0.061832,204.83,-0.17123,0.32296,0.93079,253.51,0.57916,-0.73128,0.36028,244.28

> fitmap #9 inMap #4

Fit molecule fold_pin_3_model_0.cif (#9) to map volume difference (#4) using
1614 atoms  
average map value = 0.01664, steps = 1156  
shifted from previous position = 23.7  
rotated from previous position = 74 degrees  
atoms outside contour = 943, contour level = 0.0183  
  
Position of fold_pin_3_model_0.cif (#9) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.72035552 -0.44664601 -0.53065551 186.55504984  
0.60694417 0.03560658 0.79394644 267.19999130  
-0.33571818 -0.89400197 0.29673859 244.86102788  
Axis -0.84426736 -0.09750252 0.52697807  
Axis point 0.00000000 289.18359807 21.41513663  
Rotation angle (degrees) 88.49006185  
Shift along axis -54.51861936  
  

> fitmap #9 inMap #4

Fit molecule fold_pin_3_model_0.cif (#9) to map volume difference (#4) using
1614 atoms  
average map value = 0.01664, steps = 52  
shifted from previous position = 0.226  
rotated from previous position = 2.07 degrees  
atoms outside contour = 943, contour level = 0.0183  
  
Position of fold_pin_3_model_0.cif (#9) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.69608402 -0.47075818 -0.54208281 186.56544987  
0.62429779 0.02399487 0.78081785 267.34953355  
-0.35456919 -0.88193593 0.31059573 245.02937210  
Axis -0.83147469 -0.09376784 0.54759240  
Axis point 0.00000000 288.16590787 23.33039455  
Rotation angle (degrees) 89.12120246  
Shift along axis -46.01701686  
  

> view matrix models
> #9,0.68962,-0.55602,-0.46396,186.65,0.59191,0.063685,0.80348,267.38,-0.41721,-0.82872,0.37303,245.09

> fitmap #9 inMap #4

Fit molecule fold_pin_3_model_0.cif (#9) to map volume difference (#4) using
1614 atoms  
average map value = 0.01664, steps = 76  
shifted from previous position = 0.246  
rotated from previous position = 6.38 degrees  
atoms outside contour = 940, contour level = 0.0183  
  
Position of fold_pin_3_model_0.cif (#9) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.66442374 -0.49959063 -0.55583297 186.58230384  
0.64529723 0.00832206 0.76388627 267.54701333  
-0.37700475 -0.86622165 0.32791383 245.24818235  
Axis -0.81505400 -0.08941412 0.57244396  
Axis point 0.00000000 286.54578961 25.91724702  
Rotation angle (degrees) 89.98110292  
Shift along axis -35.60629209  
  

> ui mousemode right "translate selected models"

> show #!3 models

> hide #!3 models

> show #!5 models

> ui mousemode right "rotate selected models"

> select add #5.146

1614 atoms, 1802 bonds, 76 residues, 2 models selected  

> select add #5.25

1614 atoms, 1802 bonds, 76 residues, 3 models selected  

> select add #5.38

1614 atoms, 1802 bonds, 76 residues, 4 models selected  

> select add #5.165

1614 atoms, 1802 bonds, 76 residues, 5 models selected  

> select add #5.37

1614 atoms, 1802 bonds, 76 residues, 6 models selected  

> select add #5.72

1614 atoms, 1802 bonds, 76 residues, 7 models selected  
Grouped 6 regions  
Saving 1 regions to mrc file...  
Opened SecSegFit.mrc as #13, grid size 48,89,84, pixel 1.12, shown at step 1,
values float32  
Wrote SecSegFit.mrc  

> hide #!4 models

> hide #!5 models

> select add #5

1614 atoms, 1802 bonds, 76 residues, 187 models selected  

> select subtract #5

1614 atoms, 1802 bonds, 76 residues, 1 model selected  

> volume #13 level 0.01834

> transparency #13.1 50

> show #!4 models

> show #!5 models

> hide #!13 models

> select subtract #9

Nothing selected  

> hide #9 models

> show #10 models

> select add #10

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models
> #10,0.86238,-0.45224,0.22755,134.85,0.31276,0.82936,0.46298,323.79,-0.3981,-0.32809,0.85666,211.74

> view matrix models
> #10,0.44938,-0.89334,0.00047002,135.61,0.89306,0.44926,0.024524,322.73,-0.022119,-0.010601,0.9997,211.05

> ui mousemode right "translate selected models"

> view matrix models
> #10,0.44938,-0.89334,0.00047002,133.32,0.89306,0.44926,0.024524,285.4,-0.022119,-0.010601,0.9997,239.21

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = -0.03119, steps = 196  
shifted from previous position = 11.4  
rotated from previous position = 14.5 degrees  
atoms outside contour = 1646, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.45395821 -0.85681987 0.24450279 135.40047301  
0.88709335 0.46035031 -0.03380744 283.78883367  
-0.08359005 0.23224397 0.96905903 227.73971593  
Axis 0.14827245 0.18284860 0.97189592  
Axis point -139.94236221 196.45397641 0.00000000  
Rotation angle (degrees) 63.78863749  
Shift along axis 293.30585033  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = -0.03114, steps = 48  
shifted from previous position = 0.029  
rotated from previous position = 0.314 degrees  
atoms outside contour = 1646, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.45374109 -0.85597671 0.24783633 135.40984427  
0.88668401 0.46142145 -0.02969280 283.79580119  
-0.08894066 0.23322536 0.96834676 227.71409044  
Axis 0.14653196 0.18769564 0.97123567  
Axis point -138.56897740 196.24827822 0.00000000  
Rotation angle (degrees) 63.78411075  
Shift along axis 294.27315292  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = -0.03114, steps = 44  
shifted from previous position = 0.0034  
rotated from previous position = 0.0121 degrees  
atoms outside contour = 1646, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.45380400 -0.85592174 0.24791102 135.40649648  
0.88663233 0.46153057 -0.02953982 283.79533100  
-0.08913474 0.23321121 0.96833232 227.71513236  
Axis 0.14644515 0.18785356 0.97121823  
Axis point -138.53934157 196.25266997 0.00000000  
Rotation angle (degrees) 63.77907862  
Shift along axis 294.30267688  
  

> view matrix models
> #10,0.4538,-0.85592,0.24791,125.82,0.88663,0.46153,-0.02954,292.53,-0.089135,0.23321,0.96833,210.66

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = -0.01959, steps = 184  
shifted from previous position = 12.2  
rotated from previous position = 26 degrees  
atoms outside contour = 1614, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.07737616 -0.93757003 0.33908012 121.09854673  
0.94133417 0.18075479 0.28498710 286.13164373  
-0.32848572 0.29713650 0.89655283 202.00087803  
Axis 0.00609295 0.33478574 0.94227458  
Axis point -49.09999031 175.61512088 0.00000000  
Rotation angle (degrees) 85.56420622  
Shift along axis 286.87093377  
  

> view matrix models
> #10,0.077376,-0.93757,0.33908,184.8,0.94133,0.18075,0.28499,219.73,-0.32849,0.29714,0.89655,181.22

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01207, steps = 544  
shifted from previous position = 20.9  
rotated from previous position = 73.2 degrees  
atoms outside contour = 1239, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.00926058 -0.95799286 -0.28664243 183.30852002  
0.68283058 0.21547373 -0.69807838 208.08245424  
0.73051804 -0.18926361 0.65614224 198.88870684  
Axis 0.25485986 -0.50948477 0.82187087  
Axis point -88.86271103 255.53540106 0.00000000  
Rotation angle (degrees) 93.41465646  
Shift along axis 104.16397673  
  

> view matrix models
> #10,0.0092606,-0.95799,-0.28664,198.42,0.68283,0.21547,-0.69808,192.66,0.73052,-0.18926,0.65614,189.91

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01176, steps = 252  
shifted from previous position = 5.06  
rotated from previous position = 31.9 degrees  
atoms outside contour = 1221, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.46114461 -0.77322195 -0.43528545 193.17112844  
0.70051780 0.61834417 -0.35626570 191.52015354  
0.54462869 -0.14063520 0.82680184 191.95672798  
Axis 0.12094550 -0.54962636 0.82660937  
Axis point -147.90751789 340.89393120 0.00000000  
Rotation angle (degrees) 63.05433544  
Shift along axis 76.77188501  
  

> view matrix models
> #10,0.46114,-0.77322,-0.43529,187.42,0.70052,0.61834,-0.35627,190.18,0.54463,-0.14064,0.8268,191.92

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01176, steps = 92  
shifted from previous position = 5.91  
rotated from previous position = 0.127 degrees  
atoms outside contour = 1220, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.46193018 -0.77338941 -0.43415353 193.17401453  
0.70143972 0.61813494 -0.35481189 191.53918040  
0.54277324 -0.14063421 0.82802125 191.97342033  
Axis 0.12019224 -0.54823181 0.82764468  
Axis point -147.86278387 340.66690585 0.00000000  
Rotation angle (degrees) 62.99661123  
Shift along axis 77.09592588  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01176, steps = 48  
shifted from previous position = 0.00467  
rotated from previous position = 0.0364 degrees  
atoms outside contour = 1220, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.46225606 -0.77344950 -0.43369938 193.17016496  
0.70158576 0.61811698 -0.35455433 191.53803219  
0.54230684 -0.14038243 0.82836950 191.97555639  
Axis 0.12021157 -0.54781806 0.82791579  
Axis point -147.92372617 340.59231654 0.00000000  
Rotation angle (degrees) 62.97551127  
Shift along axis 77.23288907  
  

> view matrix models
> #10,0.46226,-0.77345,-0.4337,213.84,0.70159,0.61812,-0.35455,186.87,0.54231,-0.14038,0.82837,244.56

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01689, steps = 312  
shifted from previous position = 18.1  
rotated from previous position = 50.8 degrees  
atoms outside contour = 962, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.52742740 -0.83412604 0.16141267 207.73890714  
0.79695107 0.55157245 0.24624537 170.78547189  
-0.29443046 -0.00123856 0.95567208 240.38629126  
Axis -0.14459513 0.26633122 0.95297425  
Axis point 23.81479682 277.94653652 0.00000000  
Rotation angle (degrees) 58.84627658  
Shift along axis 244.52941529  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01689, steps = 40  
shifted from previous position = 0.0349  
rotated from previous position = 0.473 degrees  
atoms outside contour = 960, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.52628225 -0.83376059 0.16694381 207.70826956  
0.79480698 0.55212609 0.25187019 170.77681131  
-0.30217347 0.00013329 0.95325292 240.39148138  
Axis -0.14692405 0.27379622 0.95049932  
Axis point 25.84696616 277.56314269 0.00000000  
Rotation angle (degrees) 58.94700718  
Shift along axis 244.73264407  
  

> view matrix models
> #10,0.52628,-0.83376,0.16694,212.41,0.79481,0.55213,0.25187,177.37,-0.30217,0.00013329,0.95325,238.61

> view matrix models
> #10,0.52628,-0.83376,0.16694,223.54,0.79481,0.55213,0.25187,185.16,-0.30217,0.00013329,0.95325,237.51

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01696, steps = 428  
shifted from previous position = 18  
rotated from previous position = 31.5 degrees  
atoms outside contour = 988, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.35120195 -0.93628298 0.00559765 219.76364437  
0.91629163 0.34246154 -0.20767692 168.92847278  
0.19252739 0.07806561 0.97818144 230.81069151  
Axis 0.15168578 -0.09923124 0.98343509  
Axis point -47.16397657 227.94288244 0.00000000  
Rotation angle (degrees) 70.37135722  
Shift along axis 243.55937358  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01696, steps = 44  
shifted from previous position = 0.0898  
rotated from previous position = 0.745 degrees  
atoms outside contour = 984, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.34941300 -0.93696870 -0.00040611 219.79031222  
0.91423646 0.34103056 -0.21879169 168.87148328  
0.20513947 0.07607738 0.97577148 230.74168892  
Axis 0.15636471 -0.10899778 0.98166673  
Axis point -49.12327952 228.22018340 0.00000000  
Rotation angle (degrees) 70.54250131  
Shift along axis 242.47226923  
  

> select add #5.154

1718 atoms, 1918 bonds, 81 residues, 2 models selected  

> select add #5.15

1718 atoms, 1918 bonds, 81 residues, 3 models selected  

> select #5.154

1 model selected  

> select add #5.15

2 models selected  

> select add #5.76

3 models selected  

> select add #10/A:21

20 atoms, 21 bonds, 1 residue, 4 models selected  

> select add #5.138

20 atoms, 21 bonds, 1 residue, 5 models selected  

> select add #5.155

20 atoms, 21 bonds, 1 residue, 6 models selected  

> select #5.15

1 model selected  

> select #5.15

1 model selected  

> select add #5.7

2 models selected  

> select add #10/A:78

20 atoms, 21 bonds, 1 residue, 3 models selected  

> select add #5.154

20 atoms, 21 bonds, 1 residue, 4 models selected  

> select subtract #10/A:78

3 models selected  

> select add #5.76

4 models selected  

> select add #5.138

5 models selected  

> select add #5.155

6 models selected  
Saving 185 regions to mrc file...  
Opened ThirdSegFit.mrc as #14, grid size 215,224,217, pixel 1.12, shown at
step 1, values float32  
Wrote ThirdSegFit.mrc  

> hide #!4 models

> show #!4 models

> hide #!5 models

> hide #!4 models

> select add #5

186 models selected  

> select subtract #5

Nothing selected  

> show #!4 models

> show #!5 models

> select add #10

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models
> #10,0.34941,-0.93697,-0.00040611,259.74,0.91424,0.34103,-0.21879,243.65,0.20514,0.076077,0.97577,200.23

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> view matrix models
> #10,0.34941,-0.93697,-0.00040611,254.47,0.91424,0.34103,-0.21879,253.04,0.20514,0.076077,0.97577,208.77

> view matrix models
> #10,0.34941,-0.93697,-0.00040611,217.99,0.91424,0.34103,-0.21879,289.31,0.20514,0.076077,0.97577,197.73

> ui mousemode right "rotate selected models"

> view matrix models
> #10,-0.49558,-0.72186,0.48302,219.78,0.83828,-0.25195,0.48354,289.7,-0.22735,0.64454,0.72998,198.49

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> view matrix models
> #10,-0.58437,-0.70085,0.40904,219.91,0.77528,-0.33329,0.53653,289.83,-0.2397,0.63065,0.73812,198.51

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> ui mousemode right "translate selected models"

> view matrix models
> #10,-0.58437,-0.70085,0.40904,209.21,0.77528,-0.33329,0.53653,298.63,-0.2397,0.63065,0.73812,211.68

> ui mousemode right "rotate selected models"

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.  

> select add #5

1718 atoms, 1918 bonds, 81 residues, 187 models selected  

> select subtract #5

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> select add #4

1718 atoms, 1918 bonds, 81 residues, 3 models selected  

> select subtract #4

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> hide #!14 models

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01684, steps = 104  
shifted from previous position = 8.94  
rotated from previous position = 13.2 degrees  
atoms outside contour = 938, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.40012540 -0.79041452 0.46383672 204.73497767  
0.84787115 -0.12715404 0.51472937 300.70964621  
-0.34787086 0.59923008 0.72104724 219.07560841  
Axis 0.04616774 0.44348392 0.89509248  
Axis point 41.91785579 164.97450312 0.00000000  
Rotation angle (degrees) 113.77312648  
Shift along axis 338.90497465  
  

> view matrix models
> #10,-0.42854,-0.90123,-0.064381,204.67,0.70605,-0.28957,-0.64625,300.7,0.56378,-0.3224,0.7604,217.47

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01873, steps = 180  
shifted from previous position = 21.1  
rotated from previous position = 11.1 degrees  
atoms outside contour = 717, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.27395867 -0.96165545 -0.01286074 191.09101858  
0.78942443 -0.21721492 -0.57413126 298.61645944  
0.54932292 -0.16744083 0.81866223 233.25256098  
Axis 0.21591796 -0.29847162 0.92967420  
Axis point -63.84885525 245.35391325 0.00000000  
Rotation angle (degrees) 109.64891341  
Shift along axis 168.98033333  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01873, steps = 36  
shifted from previous position = 0.0142  
rotated from previous position = 0.216 degrees  
atoms outside contour = 718, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.27416508 -0.96160418 -0.01228270 191.10204170  
0.78723868 -0.21707900 -0.57717581 298.60698486  
0.55234837 -0.16791088 0.81652751 233.25162451  
Axis 0.21737584 -0.29989658 0.92887555  
Axis point -64.04901753 245.47553574 0.00000000  
Rotation angle (degrees) 109.71600824  
Shift along axis 168.65148372  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01873, steps = 44  
shifted from previous position = 0.0174  
rotated from previous position = 0.144 degrees  
atoms outside contour = 719, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.27441554 -0.96154185 -0.01154726 191.09621979  
0.78574721 -0.21729052 -0.57912529 298.62025080  
0.55434411 -0.16799422 0.81515674 233.26015889  
Axis 0.21844334 -0.30067102 0.92837462  
Axis point -64.17466984 245.51350958 0.00000000  
Rotation angle (degrees) 109.77179245  
Shift along axis 168.51005243  
  

> view matrix models
> #10,-0.47775,-0.87187,0.10771,191.47,0.7958,-0.48145,-0.36731,298.68,0.3721,-0.089766,0.92384,233.59

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01873, steps = 204  
shifted from previous position = 0.678  
rotated from previous position = 19.4 degrees  
atoms outside contour = 719, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.27403098 -0.96163720 -0.01268357 191.09352955  
0.78879070 -0.21719200 -0.57501028 298.61443810  
0.55019652 -0.16757532 0.81804783 233.25246696  
Axis 0.21634048 -0.29887899 0.92944507  
Axis point -63.90513586 245.38728867 0.00000000  
Rotation angle (degrees) 109.66910692  
Shift along axis 168.88704112  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01873, steps = 44  
shifted from previous position = 0.0126  
rotated from previous position = 0.239 degrees  
atoms outside contour = 719, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.27435105 -0.96155806 -0.01172812 191.09381070  
0.78633430 -0.21730253 -0.57832339 298.62216497  
0.55354298 -0.16788586 0.81572328 233.26038791  
Axis 0.21804907 -0.30030597 0.92858544  
Axis point -64.12309173 245.48471326 0.00000000  
Rotation angle (degrees) 109.75294888  
Shift along axis 168.59200970  
  

> ui mousemode right "translate selected models"

> view matrix models
> #10,-0.27435,-0.96156,-0.011728,225.08,0.78633,-0.2173,-0.57832,313.6,0.55354,-0.16789,0.81572,272.43

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.00854, steps = 320  
shifted from previous position = 39.9  
rotated from previous position = 22.3 degrees  
atoms outside contour = 1464, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.04431687 -0.94540600 -0.32286755 224.14605937  
0.84153196 0.13884216 -0.52206012 273.49007825  
0.53838642 -0.29483944 0.78943634 267.22477754  
Axis 0.11380204 -0.43135362 0.89497662  
Axis point -82.44347993 310.50016588 0.00000000  
Rotation angle (degrees) 93.32612226  
Shift along axis 146.69727154  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.008541, steps = 76  
shifted from previous position = 0.0286  
rotated from previous position = 0.612 degrees  
atoms outside contour = 1461, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.04057859 -0.94584919 -0.32205999 224.12577606  
0.84696897 0.13844149 -0.51330056 273.49268323  
0.53009140 -0.29360385 0.79548718 267.20849596  
Axis 0.11000487 -0.42668278 0.89768632  
Axis point -82.03038923 310.01014790 0.00000000  
Rotation angle (degrees) 93.05674512  
Shift along axis 147.82971946  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #10,0.66877,-0.73362,-0.12056,222.85,0.47971,0.5497,-0.68389,274.07,0.56799,0.39954,0.71955,267.03

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01079, steps = 200  
shifted from previous position = 30.7  
rotated from previous position = 18.4 degrees  
atoms outside contour = 1353, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.45904002 -0.87479599 -0.15496511 229.46749057  
0.68891085 0.46063847 -0.55965524 260.63847335  
0.56096707 0.15014701 0.81410797 294.33577669  
Axis 0.38150621 -0.38480094 0.84046490  
Axis point -258.82427496 320.03910614 0.00000000  
Rotation angle (degrees) 68.47585742  
Shift along axis 234.62823353  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01079, steps = 28  
shifted from previous position = 0.00181  
rotated from previous position = 0.0201 degrees  
atoms outside contour = 1353, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.45903906 -0.87483800 -0.15473065 229.46939810  
0.68912454 0.46054483 -0.55946919 260.63848456  
0.56070533 0.15018952 0.81428042 294.33640534  
Axis 0.38143536 -0.38454059 0.84061620  
Axis point -258.73696712 319.94876088 0.00000000  
Rotation angle (degrees) 68.47346023  
Shift along axis 234.72561728  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01079, steps = 24  
shifted from previous position = 0.0118  
rotated from previous position = 0.0289 degrees  
atoms outside contour = 1353, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.45910964 -0.87485523 -0.15442353 229.46027076  
0.68940570 0.46048940 -0.55916836 260.63608107  
0.56030178 0.15025912 0.81454532 294.32969777  
Axis 0.38133372 -0.38418142 0.84082651  
Axis point -258.64428021 319.82706985 0.00000000  
Rotation angle (degrees) 68.46483557  
Shift along axis 234.84961237  
  

> ui mousemode right "translate selected models"

> view matrix models
> #10,0.45911,-0.87486,-0.15442,163.83,0.68941,0.46049,-0.55917,197.71,0.5603,0.15026,0.81455,288.85

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01252, steps = 424  
shifted from previous position = 29.7  
rotated from previous position = 117 degrees  
atoms outside contour = 1222, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.47192643 -0.77645667 -0.41761278 192.01564344  
-0.72759255 0.61050585 -0.31287641 201.20079795  
0.49789003 0.15619731 -0.85305795 278.48144391  
Axis 0.45548367 -0.88897878 0.04744843  
Axis point 103.54810662 0.00000000 180.10607269  
Rotation angle (degrees) 149.00800814  
Shift along axis -78.18974438  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01252, steps = 72  
shifted from previous position = 0.0219  
rotated from previous position = 0.371 degrees  
atoms outside contour = 1226, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.47448293 -0.77612545 -0.41532541 192.03735974  
-0.72966318 0.61070004 -0.30763137 201.19662446  
0.49239980 0.15708183 -0.85607692 278.48716523  
Axis 0.45523331 -0.88920811 0.04551447  
Axis point 103.99380351 0.00000000 179.56185990  
Rotation angle (degrees) 149.30871432  
Shift along axis -78.80867253  
  

> view matrix models
> #10,-0.47448,-0.77613,-0.41533,197.88,-0.72966,0.6107,-0.30763,251.92,0.4924,0.15708,-0.85608,248.03

> view matrix models
> #10,-0.47448,-0.77613,-0.41533,201.49,-0.72966,0.6107,-0.30763,260.72,0.4924,0.15708,-0.85608,222.73

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01261, steps = 584  
shifted from previous position = 4.56  
rotated from previous position = 33 degrees  
atoms outside contour = 1187, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.48248531 -0.48069695 -0.73221467 204.63663035  
-0.30443593 0.87586736 -0.37439964 261.30311956  
0.82129571 0.04227013 -0.56893457 220.64115303  
Axis 0.25751400 -0.96011449 0.10893443  
Axis point 73.77961172 0.00000000 191.34438277  
Rotation angle (degrees) 125.99936381  
Shift along axis -174.14869569  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01261, steps = 44  
shifted from previous position = 0.084  
rotated from previous position = 0.651 degrees  
atoms outside contour = 1187, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.47433864 -0.48206879 -0.73662235 204.58786781  
-0.30009776 0.87517118 -0.37949533 261.37018359  
0.82761352 0.04104942 -0.55979528 220.63350844  
Axis 0.25800752 -0.95967103 0.11164066  
Axis point 72.91041156 0.00000000 192.54772696  
Rotation angle (degrees) 125.41407405  
Shift along axis -173.41251489  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #10,-0.41438,0.74521,0.52245,204.59,0.8857,0.46225,0.043163,259.37,-0.20934,0.48062,-0.85158,222.36

> view matrix models
> #10,-0.81355,0.5619,0.14966,205.29,0.5806,0.77069,0.26256,259.92,0.032192,0.30049,-0.95324,221.93

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01618, steps = 292  
shifted from previous position = 17.6  
rotated from previous position = 18.4 degrees  
atoms outside contour = 1082, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.59682097 0.78798076 0.15129780 205.82298333  
0.80155203 0.57697885 0.15687482 245.31586070  
0.03631871 0.21489925 -0.97596066 212.53635549  
Axis 0.44805230 0.88784416 0.10479445  
Axis point 44.25556438 0.00000000 90.75132787  
Rotation angle (degrees) 176.28739538  
Shift along axis 332.29434718  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01618, steps = 60  
shifted from previous position = 0.0694  
rotated from previous position = 0.825 degrees  
atoms outside contour = 1083, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.59409348 0.78814966 0.16085093 205.77747626  
0.80408211 0.57628185 0.14612030 245.26457999  
0.02246919 0.21614648 -0.97610234 212.52274809  
Axis 0.44915332 0.88759118 0.10219198  
Axis point 44.76001045 0.00000000 90.89470494  
Rotation angle (degrees) 175.52905545  
Shift along axis 331.83843417  
  

> select #5.181

1 model selected  

> select #5.109

1 model selected  

> select add #5.181

2 models selected  

> select add #5.25

3 models selected  

> select subtract #5.25

2 models selected  

> select add #5.25

3 models selected  

> select add #5.60

4 models selected  

> select subtract #5.60

3 models selected  

> select add #5.1

4 models selected  

> select add #10/A:78

20 atoms, 21 bonds, 1 residue, 5 models selected  

> select add #5.60

20 atoms, 21 bonds, 1 residue, 6 models selected  

> select subtract #10/A:78

5 models selected  

> select #5.25

1 model selected  

> select add #5.144

2 models selected  

> select #5.181

1 model selected  

> select add #10/A:30

20 atoms, 21 bonds, 1 residue, 2 models selected  

> select subtract #10/A:30

1 model selected  

> select add #5.109

2 models selected  

> select add #5.25

3 models selected  

> select add #5.60

4 models selected  

> select add #5.1

5 models selected  

> select add #5

186 models selected  

> select subtract #5

Nothing selected  

> select add #10

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> view matrix models
> #10,-0.89481,0.18018,0.40847,206.49,0.42939,0.59783,0.67692,246.06,-0.12223,0.78111,-0.61231,212.74

> ui mousemode right "translate selected models"

> view matrix models
> #10,-0.89481,0.18018,0.40847,233.37,0.42939,0.59783,0.67692,224.22,-0.12223,0.78111,-0.61231,252.09

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01317, steps = 524  
shifted from previous position = 15.7  
rotated from previous position = 82.6 degrees  
atoms outside contour = 1178, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.53172656 0.06230159 -0.84462142 244.34980212  
-0.65034203 0.60880452 0.45432616 224.08286717  
0.54251459 0.79087011 -0.28320019 262.55969744  
Axis 0.21094777 -0.86946518 -0.44668930  
Axis point 107.53172238 0.00000000 159.36989179  
Rotation angle (degrees) 127.08945043  
Shift along axis -260.56981440  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01317, steps = 160  
shifted from previous position = 0.08  
rotated from previous position = 0.961 degrees  
atoms outside contour = 1180, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.51776562 0.05937995 -0.85345928 244.36819557  
-0.65808522 0.60979929 0.44166576 224.13732210  
0.54666496 0.79032830 -0.27665604 262.61150653  
Axis 0.21636994 -0.86887683 -0.44523825  
Axis point 107.17623258 0.00000000 161.33869037  
Rotation angle (degrees) 126.32118994  
Shift along axis -258.79848182  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #10,-0.29233,-0.85066,-0.43694,244.16,0.0078949,-0.45903,0.88838,223.21,-0.95628,0.25625,0.14091,265.44

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01429, steps = 180  
shifted from previous position = 23.6  
rotated from previous position = 16.1 degrees  
atoms outside contour = 1154, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.03515903 -0.92814434 -0.37055619 233.94723334  
0.06712807 -0.37214133 0.92574543 222.73928566  
-0.99712468 0.00767360 0.07538866 287.17422343  
Axis -0.61533696 0.41995706 0.66708058  
Axis point 194.56046778 128.64680186 0.00000000  
Rotation angle (degrees) 131.75569791  
Shift along axis 141.15290433  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #10,-0.86351,-0.3579,-0.35532,235.46,-0.33031,-0.13105,0.93473,223.39,-0.38111,0.92452,-0.0050609,285.98

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01358, steps = 336  
shifted from previous position = 3.43  
rotated from previous position = 30.1 degrees  
atoms outside contour = 1360, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.59889713 -0.34971871 -0.72042974 237.92455569  
-0.75682085 -0.04693873 0.65193475 221.71580448  
-0.26180985 0.93567812 -0.23656294 286.97305952  
Axis 0.41992316 -0.67872990 -0.60248673  
Axis point 168.01788805 0.00000000 87.61790632  
Rotation angle (degrees) 160.25396775  
Shift along axis -223.47257536  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01358, steps = 108  
shifted from previous position = 0.0374  
rotated from previous position = 0.799 degrees  
atoms outside contour = 1356, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.58908287 -0.35096847 -0.72787531 237.92358965  
-0.76575076 -0.04522954 0.64154503 221.70229615  
-0.25808355 0.93529428 -0.24211043 286.93422468  
Axis 0.42441636 -0.67876703 -0.59928796  
Axis point 167.99144689 0.00000000 89.25053236  
Rotation angle (degrees) 159.75332595  
Shift along axis -221.46177229  
  

> view matrix models
> #10,0.91813,0.37109,-0.139,235.19,0.21258,-0.75727,-0.61754,219.74,-0.33443,0.53743,-0.77416,286.97

> view matrix models
> #10,0.9238,0.37154,0.092508,235.24,0.34885,-0.71715,-0.60332,219.45,-0.15782,0.58962,-0.79211,286.59

> ui mousemode right "translate selected models"

> view matrix models
> #10,0.9238,0.37154,0.092508,190.24,0.34885,-0.71715,-0.60332,224.7,-0.15782,0.58962,-0.79211,194.12

> view matrix models
> #10,0.9238,0.37154,0.092508,175.15,0.34885,-0.71715,-0.60332,210.96,-0.15782,0.58962,-0.79211,232.23

> view matrix models
> #10,0.9238,0.37154,0.092508,127.37,0.34885,-0.71715,-0.60332,216.71,-0.15782,0.58962,-0.79211,258.25

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.00964, steps = 300  
shifted from previous position = 30.7  
rotated from previous position = 24.7 degrees  
atoms outside contour = 1235, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.72419852 0.68479865 -0.08116205 148.01632176  
0.45128777 -0.55963426 -0.69508906 194.11977407  
-0.52141713 0.46675504 -0.71432756 260.02319641  
Axis 0.91902586 0.34824449 -0.18470855  
Axis point 0.00000000 13.06527102 171.99907984  
Rotation angle (degrees) 140.79430493  
Shift along axis 155.60346158  
  

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.009645, steps = 44  
shifted from previous position = 0.072  
rotated from previous position = 0.8 degrees  
atoms outside contour = 1239, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.72259216 0.68518876 -0.09152534 148.00904233  
0.44188145 -0.55965269 -0.70109173 194.10756059  
-0.53160259 0.46616005 -0.70717286 259.96213341  
Axis 0.91840057 0.34625538 -0.19143562  
Axis point 0.00000000 12.66772317 172.93445965  
Rotation angle (degrees) 140.54434913  
Shift along axis 153.37636311  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #10,0.19171,0.32041,0.92768,149.27,0.036267,-0.94688,0.31954,195.15,0.98078,-0.027615,-0.19314,257.42

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01837, steps = 928  
shifted from previous position = 25.9  
rotated from previous position = 81.7 degrees  
atoms outside contour = 856, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.57516905 0.68957770 0.44007173 170.83957310  
-0.75013890 -0.65919225 0.05250872 202.05684276  
0.32630073 -0.29991355 0.89642604 247.02524910  
Axis -0.23706867 0.07653189 -0.96847371  
Axis point 106.29474405 85.91315072 0.00000000  
Rotation angle (degrees) 131.98743630  
Shift along axis -264.27437695  
  

> view matrix models
> #10,-0.25855,0.81754,0.51456,170.22,-0.85045,-0.44527,0.28012,202.25,0.45813,-0.36519,0.81041,246.77

> fitmap #10 inMap #4

Fit molecule fold_pin_2_model_0.cif (#10) to map volume difference (#4) using
1718 atoms  
average map value = 0.01837, steps = 316  
shifted from previous position = 0.556  
rotated from previous position = 20.7 degrees  
atoms outside contour = 856, contour level = 0.0183  
  
Position of fold_pin_2_model_0.cif (#10) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.57539028 0.68964425 0.43967805 170.84053920  
-0.75019950 -0.65915280 0.05213687 202.05578830  
0.32577093 -0.29984722 0.89664090 247.02504746  
Axis -0.23676917 0.07662192 -0.96853985  
Axis point 106.33784460 85.90308510 0.00000000  
Rotation angle (degrees) 131.98616178  
Shift along axis -264.22147299  
  

> select add #5.93

1718 atoms, 1918 bonds, 81 residues, 2 models selected  

> select add #5.127

1718 atoms, 1918 bonds, 81 residues, 3 models selected  

> select add #5.142

1718 atoms, 1918 bonds, 81 residues, 4 models selected  

> select add #5.155

1718 atoms, 1918 bonds, 81 residues, 5 models selected  
Grouped 4 regions  
Saving 182 regions to mrc file...  
Opened FOURSEGFIT.mrc as #15, grid size 215,224,217, pixel 1.12, shown at step
1, values float32  
Wrote FOURSEGFIT.mrc  

> hide #!4 models

> hide #!5 models

> select add #5

1718 atoms, 1918 bonds, 81 residues, 184 models selected  

> select subtract #5

1718 atoms, 1918 bonds, 81 residues, 1 model selected  

> volume #15 level 0.01942

> show #!5 models

> select add #5.37

1718 atoms, 1918 bonds, 81 residues, 2 models selected  
Grouped 1 regions  
Saving 1 regions to mrc file...  
Opened FOURSEGFIT.mrc as #16, grid size 83,92,72, pixel 1.12, shown at step 1,
values float32  
Wrote FOURSEGFIT.mrc  

> hide #!15 models

> show #!14 models

> hide #!16 models

> hide #10 models

> select subtract #10

1 model selected  

> hide #!5 models

> select add #5

183 models selected  

> show #!5 models

> show #10 models

> hide #!14 models

> show #!16 models

> hide #!5 models

> select subtract #5

Nothing selected  

> volume #16 level 0.01905

> volume #16 level 0.01872

> transparency #16.1 50

> show #!14 models

> hide #!16 models

> hide #10 models

> show #!4 models

> show #!5 models

> hide #!4 models

> show #9 models

> select add #5.25

1 model selected  
Grouped 1 regions  
Saving 1 regions to mrc file...  
Opened ThirdSegFit.mrc as #17, grid size 48,89,84, pixel 1.12, shown at step
1, values float32  
Wrote ThirdSegFit.mrc  

> hide #!5 models

> select add #5

183 models selected  

> select subtract #5

Nothing selected  

> hide #9 models

> show #9 models

> hide #!14 models

> volume #17 level 0.01868

> transparency #17.1 50

> hide #9 models

> show #10 models

> hide #10 models

> show #!15 models

> hide #!15 models

> show #7 models

> hide #7 models

> show #11 models

> hide #11 models

> show #10 models

> hide #10 models

> show #10 models

> show #!14 models

> close #14

> show #!15 models

> close #15

> show #!12 models

> show #12.1 models

> hide #!17 models

> show #8 models

> hide #8 models

> hide #12.1 models

> hide #!12 models

Cell requested for row 12 is out of bounds for table with 16 rows! Resizing
table model.  

> show #!13 models

> hide #!13 models

> show #!17 models

> show #9 models

> hide #10 models

> show #!16 models

> hide #!17 models

> show #!12 models

> hide #!16 models

> volume #6 level 0.01897

> show #11 models

> hide #11 models

> show #7 models

> hide #7 models

> show #8 models

> close #6

> hide #8 models

> hide #9 models

> show #!16 models

> show #10 models

> hide #10 models

> hide #!16 models

> hide #!12 models

> show #11 models

> show #!4 models

> show #!5 models

> ui mousemode right "translate selected models"

> select add #11

2078 atoms, 2320 bonds, 98 residues, 1 model selected  

> view matrix models #11,1,0,0,165.65,0,1,0,338.64,0,0,1,163.94

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = -0.03851, steps = 296  
shifted from previous position = 7.36  
rotated from previous position = 32.3 degrees  
atoms outside contour = 2018, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.86511069 0.48353718 0.13332399 158.47156148  
-0.44607911 0.86324154 -0.23627837 338.79565297  
-0.22934019 0.14493390 0.96249532 166.56950486  
Axis 0.35687611 0.33951210 -0.87027063  
Axis point 768.00653085 -93.84152374 0.00000000  
Rotation angle (degrees) 32.28263158  
Shift along axis 26.61939066  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = -0.03852, steps = 40  
shifted from previous position = 0.0251  
rotated from previous position = 0.0903 degrees  
atoms outside contour = 2017, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.86511805 0.48329094 0.13416645 158.45774557  
-0.44541874 0.86325217 -0.23748230 338.80585123  
-0.23059253 0.14568997 0.96208187 166.58784955  
Axis 0.35850098 0.34127326 -0.86891289  
Axis point 767.98773980 -92.99972599 0.00000000  
Rotation angle (degrees) 32.30383786  
Shift along axis 27.68230395  
  

> view matrix models
> #11,0.86512,0.48329,0.13417,226.01,-0.44542,0.86325,-0.23748,264.99,-0.23059,0.14569,0.96208,253.89

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01039, steps = 752  
shifted from previous position = 17  
rotated from previous position = 35.9 degrees  
atoms outside contour = 1523, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.99558219 -0.04299100 -0.08347383 215.04277130  
0.00409575 0.90805896 -0.41882234 272.11622752  
0.09380475 0.41663018 0.90422340 264.52874817  
Axis 0.97673618 -0.20725821 0.05504961  
Axis point 0.00000000 -422.86533414 825.78343644  
Rotation angle (degrees) 25.32013991  
Shift along axis 168.20393779  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01041, steps = 308  
shifted from previous position = 0.447  
rotated from previous position = 4.38 degrees  
atoms outside contour = 1527, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.98945676 -0.10563011 -0.09908379 215.13248530  
0.04866694 0.88686183 -0.45946449 272.37765611  
0.13640691 0.44979814 0.88265213 264.93291830  
Axis 0.95525644 -0.24740268 0.16210196  
Axis point 0.00000000 -322.91028353 769.82514218  
Rotation angle (degrees) 28.41965469  
Shift along axis 181.06587752  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #11,0.54343,0.83856,-0.038774,214.96,-0.052464,-0.012173,-0.99855,271.34,-0.83782,0.54467,0.037379,262.39

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01113, steps = 624  
shifted from previous position = 39.7  
rotated from previous position = 37.4 degrees  
atoms outside contour = 1570, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.69847663 0.65900083 -0.27901310 225.36019912  
0.19338923 -0.54919307 -0.81301142 237.58472020  
-0.68900726 0.51391135 -0.51104219 244.90319917  
Axis 0.90587841 0.27989938 -0.31786891  
Axis point 0.00000000 10.33889133 206.15051213  
Rotation angle (degrees) 132.91239410  
Shift along axis 192.80164148  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01113, steps = 80  
shifted from previous position = 0.0825  
rotated from previous position = 1.08 degrees  
atoms outside contour = 1574, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.70604597 0.64602878 -0.29007913 225.39864249  
0.18270655 -0.56192875 -0.80675547 237.54357451  
-0.68419106 0.51660709 -0.51478122 244.83718743  
Axis 0.90861484 0.27059550 -0.31811498  
Axis point 0.00000000 12.52951285 206.05694325  
Rotation angle (degrees) 133.26172294  
Shift along axis 191.19239669  
  

> view matrix models
> #11,0.73449,0.54221,-0.40808,225.41,-0.035716,-0.56962,-0.82113,237.01,-0.67768,0.61769,-0.39901,244.91

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01113, steps = 252  
shifted from previous position = 0.546  
rotated from previous position = 10.8 degrees  
atoms outside contour = 1567, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.73243088 0.59640164 -0.32840539 225.47373274  
0.14375699 -0.60694722 -0.78163227 237.31860355  
-0.66549150 0.52528103 -0.53028379 244.55448757  
Axis 0.91805680 0.23679015 -0.31796561  
Axis point 0.00000000 20.46742721 205.36504087  
Rotation angle (degrees) 134.61988005  
Shift along axis 185.43248382  
  

> ui mousemode right "translate selected models"

> view matrix models
> #11,0.73243,0.5964,-0.32841,225.42,0.14376,-0.60695,-0.78163,234.9,-0.66549,0.52528,-0.53028,242.12

> view matrix models
> #11,0.73243,0.5964,-0.32841,215.54,0.14376,-0.60695,-0.78163,187.38,-0.66549,0.52528,-0.53028,180.5

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01191, steps = 1076  
shifted from previous position = 26.3  
rotated from previous position = 35.7 degrees  
atoms outside contour = 1510, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.32547362 0.88761675 -0.32588868 226.77762678  
0.58370770 -0.45975491 -0.66926134 165.68349528  
-0.74387649 0.02760318 -0.66774683 190.10529964  
Axis 0.80322817 0.48178602 -0.35029521  
Axis point 0.00000000 -21.89559742 154.66580726  
Rotation angle (degrees) 154.29168231  
Shift along axis 195.38519419  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01191, steps = 76  
shifted from previous position = 0.00623  
rotated from previous position = 0.171 degrees  
atoms outside contour = 1509, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.32376461 0.88895612 -0.32393441 226.77200679  
0.58513884 -0.45717781 -0.66977683 165.68819325  
-0.74349783 0.02730343 -0.66818074 190.10753675  
Axis 0.80264305 0.48310027 -0.34982604  
Axis point 0.00000000 -22.19174998 154.60696057  
Rotation angle (degrees) 154.26302376  
Shift along axis 195.55641922  
  

> view matrix models
> #11,0.32376,0.88896,-0.32393,237.98,0.58514,-0.45718,-0.66978,170.52,-0.7435,0.027303,-0.66818,188.98

> ui mousemode right "rotate selected models"

> view matrix models
> #11,0.3187,0.70749,-0.63078,237.66,0.82028,-0.53932,-0.19046,171.39,-0.47494,-0.45671,-0.75223,189.23

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01645, steps = 1512  
shifted from previous position = 7.85  
rotated from previous position = 54.7 degrees  
atoms outside contour = 1280, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.68391867 0.02152952 -0.72924051 231.88764005  
0.05318834 -0.99837595 0.02040746 175.65509823  
-0.72761683 -0.05274414 -0.68395308 190.12770007  
Axis -0.91754919 -0.02036610 0.39710038  
Axis point 0.00000000 87.92756526 143.36504772  
Rotation angle (degrees) 177.71544223  
Shift along axis -140.84594145  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01646, steps = 44  
shifted from previous position = 0.0464  
rotated from previous position = 0.664 degrees  
atoms outside contour = 1283, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.68237123 0.01023614 -0.73093415 231.87933336  
0.04471499 -0.99861403 0.02775937 175.66308924  
-0.72963695 -0.05162591 -0.68188319 190.08372651  
Axis -0.91712113 -0.01498627 0.39832680  
Axis point 0.00000000 88.83685712 143.34842750  
Rotation angle (degrees) 177.51948660  
Shift along axis -139.57853024  
  

> view matrix models
> #11,0.64509,-0.012098,-0.76401,231.76,0.063105,-0.99562,0.069047,175.75,-0.7615,-0.092754,-0.6415,190.02

> ui mousemode right "translate selected models"

> view matrix models
> #11,0.64509,-0.012098,-0.76401,160.46,0.063105,-0.99562,0.069047,170.9,-0.7615,-0.092754,-0.6415,174.42

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.006557, steps = 388  
shifted from previous position = 13.8  
rotated from previous position = 22.1 degrees  
atoms outside contour = 1673, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.83364956 0.14077066 -0.53405246 157.32241007  
0.25537254 -0.95564293 0.14673599 180.52027740  
-0.48970734 -0.25870873 -0.83262027 184.11754478  
Axis -0.95701107 -0.10467216 0.27050609  
Axis point 0.00000000 93.77346330 104.88999755  
Rotation angle (degrees) 167.77046272  
Shift along axis -119.64981825  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.006558, steps = 76  
shifted from previous position = 0.0324  
rotated from previous position = 0.25 degrees  
atoms outside contour = 1676, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.83378264 0.14485845 -0.53274998 157.31439358  
0.25806591 -0.95531592 0.14413007 180.54941812  
-0.48806608 -0.25765775 -0.83390886 184.13589801  
Axis -0.95705543 -0.10643670 0.26965927  
Axis point 0.00000000 93.53338956 104.92791480  
Rotation angle (degrees) 167.88301960  
Shift along axis -120.12172629  
  

> view matrix models
> #11,0.83378,0.14486,-0.53275,132.83,0.25807,-0.95532,0.14413,205.7,-0.48807,-0.25766,-0.83391,237.09

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.008116, steps = 620  
shifted from previous position = 18.3  
rotated from previous position = 41 degrees  
atoms outside contour = 1632, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.56514649 -0.48080203 -0.67040201 135.08094263  
-0.07310894 -0.83860839 0.53980649 214.97497054  
-0.82174481 -0.25605737 -0.50908752 221.38777101  
Axis -0.87753852 0.16687419 0.44953215  
Axis point 0.00000000 149.54036893 116.30840374  
Rotation angle (degrees) 153.03386565  
Shift along axis 16.85596393  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #11,-0.68443,-0.68766,-0.24225,132.06,0.16274,-0.46798,0.86863,216.06,-0.71069,0.55509,0.4322,222.73

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01239, steps = 324  
shifted from previous position = 44.3  
rotated from previous position = 14.2 degrees  
atoms outside contour = 1369, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.56015993 -0.80156228 -0.20909033 174.34392079  
0.08238257 -0.30506002 0.94876314 216.17112120  
-0.82427785 0.51423369 0.23691716 209.36055405  
Axis -0.37417330 0.52973797 0.76116491  
Axis point 116.41825016 88.30164972 0.00000000  
Rotation angle (degrees) 144.50353976  
Shift along axis 208.63711736  
  

> ui mousemode right "translate selected models"

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01239, steps = 64  
shifted from previous position = 0.0553  
rotated from previous position = 0.849 degrees  
atoms outside contour = 1375, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.55095389 -0.80541712 -0.21852476 174.35780329  
0.08308857 -0.31349129 0.94594900 216.13393856  
-0.83038913 0.50301737 0.23964020 209.32742537  
Axis -0.37980951 0.52466767 0.76188488  
Axis point 116.61414813 89.37697100 0.00000000  
Rotation angle (degrees) 144.33132965  
Shift along axis 206.65913879  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01239, steps = 60  
shifted from previous position = 0.0354  
rotated from previous position = 0.449 degrees  
atoms outside contour = 1374, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.54601596 -0.80742916 -0.22343842 174.37044871  
0.08360298 -0.31788756 0.94443530 216.11186453  
-0.83359290 0.49699663 0.24107516 209.30438431  
Axis -0.38277197 0.52197104 0.76225446  
Axis point 116.71124337 89.95482743 0.00000000  
Rotation angle (degrees) 144.23433134  
Shift along axis 205.60321496  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #11,0.16988,-0.69985,0.69379,176.16,0.56097,0.6475,0.5158,217.28,-0.81022,0.30157,0.50259,209.32

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01514, steps = 2000  
shifted from previous position = 41.2  
rotated from previous position = 104 degrees  
atoms outside contour = 1389, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.02072475 -0.01667572 0.99964614 204.96682854  
0.79955730 -0.60055400 0.00655827 247.00808242  
0.60023213 0.79941029 0.02577952 211.84560427  
Axis 0.65743505 0.33119519 0.67682265  
Axis point -32.07141297 63.82417252 0.00000000  
Rotation angle (degrees) 142.91574034  
Shift along axis 359.94216951  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01518, steps = 412  
shifted from previous position = 0.973  
rotated from previous position = 12.6 degrees  
atoms outside contour = 1377, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.02955024 0.12644608 0.99153324 205.52955396  
0.69490521 -0.71563204 0.07055159 247.73432545  
0.71849393 0.68693680 -0.10901514 212.15532060  
Axis 0.69898290 0.30962750 0.64463456  
Axis point 0.00000000 81.34787108 34.10056915  
Rotation angle (degrees) 153.83767236  
Shift along axis 357.12965482  
  

> ui tool show "Side View"

> view sel

> view matrix models
> #11,-0.094407,-0.24976,0.96369,205.04,0.21004,-0.95122,-0.22596,246.62,0.97312,0.18108,0.14226,212.36

> ui mousemode right "translate selected models"

> view matrix models
> #11,-0.094407,-0.24976,0.96369,223.14,0.21004,-0.95122,-0.22596,175.58,0.97312,0.18108,0.14226,237.86

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01607, steps = 1248  
shifted from previous position = 8.94  
rotated from previous position = 36.4 degrees  
atoms outside contour = 1173, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.12784241 -0.68182355 0.72025895 231.68887048  
0.61048417 -0.62643692 -0.48465025 173.19983053  
0.78164276 0.37774783 0.49632769 239.90837616  
Axis 0.55465044 -0.03947893 0.83114638  
Axis point -17.56997143 107.68880318 0.00000000  
Rotation angle (degrees) 128.97460075  
Shift along axis 321.06756774  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #11,-0.14556,0.055914,0.98777,232.53,0.65067,-0.74669,0.13815,173.44,0.74528,0.66282,0.072309,239.9

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01424, steps = 2000  
shifted from previous position = 20.3  
rotated from previous position = 163 degrees  
atoms outside contour = 1365, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.84586724 -0.50571059 -0.16960369 245.99481971  
0.46581498 0.54545411 0.69677559 175.56679545  
-0.25985577 -0.66838358 0.69694933 255.71174028  
Axis -0.81356574 0.05378567 0.57898005  
Axis point 0.00000000 413.07415961 14.20981998  
Rotation angle (degrees) 57.03440476  
Shift along axis -42.63798426  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01514, steps = 772  
shifted from previous position = 6.39  
rotated from previous position = 73.1 degrees  
atoms outside contour = 1314, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.08234848 -0.93227377 0.35225607 249.59748238  
0.98025295 0.13953212 0.14012475 180.08865585  
-0.17978567 0.33376099 0.92535437 258.35049317  
Axis 0.09708154 0.26674467 0.95886519  
Axis point 58.54116255 176.78471172 0.00000000  
Rotation angle (degrees) 85.77820931  
Shift along axis 319.99229236  
  

> view matrix models
> #11,-0.50274,-0.68216,-0.53095,247.49,0.088688,-0.65168,0.75329,177.97,-0.85988,0.33162,0.38812,256.23

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01207, steps = 264  
shifted from previous position = 24.6  
rotated from previous position = 38.3 degrees  
atoms outside contour = 1361, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.22214290 -0.46987074 -0.85432664 236.46456883  
-0.48102241 -0.70934878 0.51521038 160.04594308  
-0.84809785 0.52540059 -0.06844156 243.65049037  
Axis 0.62363326 -0.38119710 -0.68247369  
Axis point 229.94211655 11.12053023 0.00000000  
Rotation angle (degrees) 179.53188601  
Shift along axis -79.82692916  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01207, steps = 64  
shifted from previous position = 0.025  
rotated from previous position = 0.473 degrees  
atoms outside contour = 1357, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.22670981 -0.47262495 -0.85160338 236.44153141  
-0.48458656 -0.70372754 0.51956078 160.05005721  
-0.84485414 0.53046508 -0.06948576 243.64140284  
Axis 0.62179851 -0.38486329 -0.68209007  
Axis point 229.68792560 10.36749457 0.00000000  
Rotation angle (degrees) 179.49760376  
Shift along axis -80.76378127  
  

> ui mousemode right "translate selected models"

> view matrix models
> #11,-0.22671,-0.47262,-0.8516,235.09,-0.48459,-0.70373,0.51956,168.4,-0.84485,0.53047,-0.069486,210.75

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01702, steps = 788  
shifted from previous position = 14.5  
rotated from previous position = 32 degrees  
atoms outside contour = 1074, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.36097531 -0.31826001 -0.87658849 238.46852831  
-0.04413830 -0.93308139 0.35694666 164.76457633  
-0.93153026 0.16754006 0.32277189 224.14790013  
Axis -0.56088496 0.16269768 0.81174967  
Axis point 188.68199946 74.61313842 0.00000000  
Rotation angle (degrees) 170.27925804  
Shift along axis 75.00538626  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01702, steps = 60  
shifted from previous position = 0.0306  
rotated from previous position = 0.548 degrees  
atoms outside contour = 1075, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.35707689 -0.31541882 -0.87920820 238.49319589  
-0.03818593 -0.93554461 0.35113831 164.77283307  
-0.93329413 0.15895676 0.32201679 224.17191075  
Axis -0.56252838 0.15831316 0.81147937  
Axis point 188.83028738 75.36521779 0.00000000  
Rotation angle (degrees) 170.16453407  
Shift along axis 73.83739601  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #11,-0.34492,-0.34148,-0.87431,238.51,-0.052073,-0.92308,0.38107,164.76,-0.93719,0.17697,0.30061,224.16

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01702, steps = 88  
shifted from previous position = 0.0282  
rotated from previous position = 2.15 degrees  
atoms outside contour = 1076, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.35737108 -0.31562951 -0.87901303 238.49354058  
-0.03874741 -0.93534445 0.35160971 164.76725638  
-0.93315837 0.15971462 0.32203523 224.16679006  
Axis -0.56240823 0.15868974 0.81148909  
Axis point 188.82427932 75.29391276 0.00000000  
Rotation angle (degrees) 170.17722131  
Shift along axis 73.92504977  
  

> select add #5.39

2078 atoms, 2320 bonds, 98 residues, 2 models selected  

> select add #5.7

2078 atoms, 2320 bonds, 98 residues, 3 models selected  

> select add #5.154

2078 atoms, 2320 bonds, 98 residues, 4 models selected  

> select add #5.138

2078 atoms, 2320 bonds, 98 residues, 5 models selected  

> select add #5.19

2078 atoms, 2320 bonds, 98 residues, 6 models selected  

> ui mousemode right "translate selected models"

> view matrix models
> #5.7,1,0,0,-1.9716,0,1,0,0.60634,0,0,1,-1.3818,#5.19,1,0,0,-1.9716,0,1,0,0.60634,0,0,1,-1.3818,#5.39,1,0,0,-1.9716,0,1,0,0.60634,0,0,1,-1.3818,#5.138,1,0,0,-1.9716,0,1,0,0.60634,0,0,1,-1.3818,#5.154,1,0,0,-1.9716,0,1,0,0.60634,0,0,1,-1.3818,#11,-0.35737,-0.31563,-0.87901,236.52,-0.038747,-0.93534,0.35161,165.37,-0.93316,0.15971,0.32204,222.78

> select subtract #5.154

2078 atoms, 2320 bonds, 98 residues, 5 models selected  

> select add #5.154

2078 atoms, 2320 bonds, 98 residues, 6 models selected  

> select subtract #5.7

2078 atoms, 2320 bonds, 98 residues, 5 models selected  

> select #5.154

1 model selected  

> select clear

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01702, steps = 152  
shifted from previous position = 2.54  
rotated from previous position = 1.12 degrees  
atoms outside contour = 1078, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.34939437 -0.30938024 -0.88442491 238.54366971  
-0.02687583 -0.94021689 0.33951418 164.76268260  
-0.93659023 0.14239400 0.32019164 224.20659315  
Axis -0.56577818 0.14972591 0.81084968  
Axis point 189.15487523 76.78159266 0.00000000  
Rotation angle (degrees) 169.96773631  
Shift along axis 71.50428113  
  

> select add #11

2078 atoms, 2320 bonds, 98 residues, 1 model selected  

> view matrix models
> #11,-0.34939,-0.30938,-0.88442,287.52,-0.026876,-0.94022,0.33951,215.85,-0.93659,0.14239,0.32019,154.11

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01304, steps = 704  
shifted from previous position = 15.3  
rotated from previous position = 27.1 degrees  
atoms outside contour = 1586, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.37103858 -0.40392627 -0.83616621 272.47876225  
-0.40291637 -0.74124173 0.53686039 215.34050681  
-0.83665331 0.53610097 0.11228077 157.00349626  
Axis -0.56078502 0.35969438 0.74574802  
Axis point 195.22538244 69.87390589 0.00000000  
Rotation angle (degrees) 179.96120463  
Shift along axis 41.73980930  
  

> view matrix models
> #11,-0.37104,-0.40393,-0.83617,287.51,-0.40292,-0.74124,0.53686,263.56,-0.83665,0.5361,0.11228,170.64

> ui mousemode right "rotate selected models"

> view matrix models
> #11,0.93616,-0.16054,0.31279,290.97,-0.29253,-0.84918,0.43967,263.64,0.19503,-0.5031,-0.84193,171.97

> view matrix models
> #11,0.86893,0.20325,0.45127,290.92,-0.074097,-0.84809,0.52465,264.29,0.48936,-0.48932,-0.72187,172.89

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.002937, steps = 596  
shifted from previous position = 19.8  
rotated from previous position = 43.4 degrees  
atoms outside contour = 1867, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.73409102 0.67176969 -0.09917582 292.41276977  
0.51692393 -0.45812192 0.72312789 246.63837055  
0.44034078 -0.58210805 -0.68355702 163.93052667  
Axis -0.91865732 -0.37972512 -0.10898427  
Axis point 0.00000000 90.68492203 41.40755309  
Rotation angle (degrees) 134.73219221  
Shift along axis -380.14776313  
  

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.002934, steps = 192  
shifted from previous position = 0.0266  
rotated from previous position = 0.0783 degrees  
atoms outside contour = 1866, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.73377150 0.67229319 -0.09798593 292.38565119  
0.51671246 -0.45858974 0.72298249 246.64052437  
0.44112086 -0.58113449 -0.68388235 163.92563075  
Axis -0.91858300 -0.37973153 -0.10958666  
Axis point 0.00000000 90.60292311 41.33786998  
Rotation angle (degrees) 134.77707966  
Shift along axis -380.20173420  
  

> view matrix models
> #11,0.5901,-0.46512,-0.65988,291.09,0.60769,-0.28219,0.74234,246.98,-0.53149,-0.83906,0.11613,162.14

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01474, steps = 1140  
shifted from previous position = 44.3  
rotated from previous position = 33.9 degrees  
atoms outside contour = 1515, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.84272018 0.03896018 -0.53694020 276.66393414  
0.51631115 -0.34095400 0.78560368 205.03767682  
-0.15246465 -0.93927230 -0.30744439 164.18085661  
Axis -0.94227631 -0.21003377 0.26077035  
Axis point 0.00000000 152.08298040 68.36259926  
Rotation angle (degrees) 113.75578542  
Shift along axis -260.94520638  
  

> view matrix models
> #11,-0.066635,-0.99676,-0.04494,274.35,0.81786,-0.080364,0.56978,205.74,-0.57155,0.0012131,0.82057,164.61

> ui mousemode right "translate selected models"

> view matrix models
> #11,-0.066635,-0.99676,-0.04494,227.05,0.81786,-0.080364,0.56978,235.38,-0.57155,0.0012131,0.82057,122.96

> view matrix models
> #11,-0.066635,-0.99676,-0.04494,195.03,0.81786,-0.080364,0.56978,234.38,-0.57155,0.0012131,0.82057,140.32

> ui mousemode right "rotate selected models"

> view matrix models
> #11,0.040903,-0.30398,0.9518,196.04,0.93561,-0.32267,-0.14326,234.37,0.35066,0.89637,0.27121,142.81

> fitmap #11 inMap #4

Fit molecule fold_pin_1_model_0.cif (#11) to map volume difference (#4) using
2078 atoms  
average map value = 0.01821, steps = 164  
shifted from previous position = 13.7  
rotated from previous position = 7.52 degrees  
atoms outside contour = 1025, contour level = 0.0183  
  
Position of fold_pin_1_model_0.cif (#11) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.07726345 -0.27702137 0.95775231 204.08437143  
0.96984741 -0.20182272 -0.13661462 242.81074647  
0.23114135 0.93942893 0.25307494 149.82111072  
Axis 0.59775447 0.40364068 0.69264983  
Axis point -13.34518321 82.52424509 0.00000000  
Rotation angle (degrees) 115.83252872  
Shift along axis 323.77420786  
  

> select add #5.98

2078 atoms, 2320 bonds, 98 residues, 2 models selected  

> select add #5.94

2078 atoms, 2320 bonds, 98 residues, 3 models selected  

> select add #5.42

2078 atoms, 2320 bonds, 98 residues, 4 models selected  

> select add #5.192

2078 atoms, 2320 bonds, 98 residues, 5 models selected  

> select add #5.8

2078 atoms, 2320 bonds, 98 residues, 6 models selected  

> select add #5.11

2078 atoms, 2320 bonds, 98 residues, 7 models selected  

> select add #5.83

2078 atoms, 2320 bonds, 98 residues, 8 models selected  

> select add #5.69

2078 atoms, 2320 bonds, 98 residues, 9 models selected  
Grouped 8 regions  
Saving 1 regions to mrc file...  
Opened ONESEGFIT.mrc as #6, grid size 121,109,34, pixel 1.12, shown at step 1,
values float32  
Wrote ONESEGFIT.mrc  

> hide #!4 models

> select add #5

2078 atoms, 2320 bonds, 98 residues, 177 models selected  

> hide #!5 models

> select subtract #5

2078 atoms, 2320 bonds, 98 residues, 1 model selected  

> hide #!6 models

> show #!6 models

> volume #6 level 0.0183

> transparency #6.1 50

> fitmap #11 inMap #6

Fit molecule fold_pin_1_model_0.cif (#11) to map ONESEGFIT.mrc (#6) using 2078
atoms  
average map value = 0.01245, steps = 492  
shifted from previous position = 2.97  
rotated from previous position = 22.3 degrees  
atoms outside contour = 1161, contour level = 0.018303  
  
Position of fold_pin_1_model_0.cif (#11) relative to ONESEGFIT.mrc (#6)
coordinates:  
Matrix rotation and translation  
0.11025623 -0.48259586 0.86887558 202.19101636  
0.99195730 0.10810746 -0.06582905 240.55663409  
-0.06216311 0.86914555 0.49063401 149.07890303  
Axis 0.47251578 0.47052665 0.74520702  
Axis point 1.63552428 102.80892217 0.00000000  
Rotation angle (degrees) 98.36630096  
Shift along axis 319.82139946  
  

> show #10 models

> hide #10 models

> show #9 models

> hide #9 models

> show #7 models

> hide #11 models

> select subtract #11

Nothing selected  

> hide #!6 models

> show #!4 models

> show #!5 models

> ui mousemode right "translate selected models"

> select add #7

1487 atoms, 1659 bonds, 70 residues, 1 model selected  

> view matrix models #7,1,0,0,188.56,0,1,0,273.53,0,0,1,178.54

> ui mousemode right "rotate selected models"

> view matrix models
> #7,0.99447,-0.0080389,-0.10468,188.56,0.041964,0.94439,0.32613,273.28,0.096241,-0.32872,0.93951,177.53

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01601, steps = 308  
shifted from previous position = 8.34  
rotated from previous position = 97.8 degrees  
atoms outside contour = 968, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.95076854 0.11265196 -0.28870179 182.20714775  
-0.30614429 0.19679015 -0.93142327 270.57473380  
-0.04811299 0.97395235 0.22158963 182.93377437  
Axis 0.96934248 -0.12239736 -0.21305878  
Axis point 0.00000000 19.21509803 287.66181702  
Rotation angle (degrees) 79.36369400  
Shift along axis 104.52784902  
  

> ui mousemode right "translate selected models"

> view matrix models
> #7,0.95077,0.11265,-0.2887,243.27,-0.30614,0.19679,-0.93142,233.63,-0.048113,0.97395,0.22159,254.28

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.009713, steps = 340  
shifted from previous position = 28.4  
rotated from previous position = 61 degrees  
atoms outside contour = 1344, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.72997345 0.54833522 -0.40800398 216.38942438  
-0.65419933 0.73339658 -0.18480449 238.03193744  
0.19789391 0.40181831 0.89408056 246.29046572  
Axis 0.39939337 -0.41251654 -0.81872770  
Axis point 377.66015920 -364.09601131 0.00000000  
Rotation angle (degrees) 47.25588694  
Shift along axis -213.41243358  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.009713, steps = 60  
shifted from previous position = 0.0102  
rotated from previous position = 0.0249 degrees  
atoms outside contour = 1344, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.73019790 0.54801554 -0.40803186 216.39531871  
-0.65396194 0.73352718 -0.18512609 238.03746760  
0.19785048 0.40201598 0.89400131 246.29645178  
Axis 0.39981631 -0.41257756 -0.81849049  
Axis point 377.92465675 -364.41304502 0.00000000  
Rotation angle (degrees) 47.24512747  
Shift along axis -213.28184131  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #7,-0.10441,-0.64291,0.75879,218.56,0.76185,-0.54213,-0.35451,230.95,0.63928,0.54107,0.5464,244.51

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01102, steps = 272  
shifted from previous position = 12.7  
rotated from previous position = 43.7 degrees  
atoms outside contour = 1304, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.70792477 -0.54390187 0.45056995 227.94792759  
0.67305726 -0.71288947 0.19693277 235.89373787  
0.21409447 0.44267296 0.87074922 251.04613211  
Axis 0.19443890 0.18710831 0.96290394  
Axis point 56.44074336 123.82570569 0.00000000  
Rotation angle (degrees) 140.80798018  
Shift along axis 330.19293289  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01102, steps = 40  
shifted from previous position = 0.00753  
rotated from previous position = 0.0217 degrees  
atoms outside contour = 1304, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.70798665 -0.54376502 0.45063788 227.95292697  
0.67304113 -0.71280698 0.19728618 235.89451415  
0.21394051 0.44297381 0.87063405 251.04037798  
Axis 0.19441516 0.18730107 0.96287126  
Axis point 56.46134913 123.79952726 0.00000000  
Rotation angle (degrees) 140.81226723  
Shift along axis 330.22036382  
  

> view matrix models
> #7,0.22481,-0.94746,0.22755,223.81,0.67301,-0.017895,-0.73942,237.14,0.70464,0.31937,0.63363,249.2

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01412, steps = 176  
shifted from previous position = 30.1  
rotated from previous position = 27.1 degrees  
atoms outside contour = 1093, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.12695779 -0.98694755 0.09907700 222.63908380  
0.45078666 -0.14638351 -0.88054713 219.23290840  
0.88355708 -0.06712973 0.46348731 224.54305120  
Axis 0.44480685 -0.42898284 0.78620646  
Axis point -75.16922663 229.60658343 0.00000000  
Rotation angle (degrees) 113.88655255  
Shift along axis 181.52143037  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01412, steps = 60  
shifted from previous position = 0.0246  
rotated from previous position = 0.039 degrees  
atoms outside contour = 1092, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.12650945 -0.98705515 0.09857732 222.66130573  
0.45086716 -0.14573400 -0.88061365 219.24286600  
0.88358031 -0.06696067 0.46346748 224.54135922  
Axis 0.44481963 -0.42915684 0.78610426  
Axis point -75.27061946 229.70761017 0.00000000  
Rotation angle (degrees) 113.85278083  
Shift along axis 181.46746345  
  

> ui mousemode right "translate selected models"

> view matrix models
> #7,-0.12651,-0.98706,0.098577,202.44,0.45087,-0.14573,-0.88061,232.15,0.88358,-0.066961,0.46347,294.89

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01229, steps = 220  
shifted from previous position = 6.2  
rotated from previous position = 64.7 degrees  
atoms outside contour = 1043, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.67179727 -0.46149615 0.57940463 204.21104168  
0.50646592 -0.28462295 -0.81393000 238.08319740  
0.54053742 0.84024465 0.04252315 292.97366847  
Axis 0.86291331 0.02027539 0.50494508  
Axis point 0.00000000 61.82135923 186.74318123  
Rotation angle (degrees) 106.56789081  
Shift along axis 328.97926695  
  

> view matrix models
> #7,0.6718,-0.4615,0.5794,226.19,0.50647,-0.28462,-0.81393,187.04,0.54054,0.84024,0.042523,276.36

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01397, steps = 312  
shifted from previous position = 15.2  
rotated from previous position = 33 degrees  
atoms outside contour = 955, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.58621743 -0.62127216 0.51997118 237.09495918  
0.74589669 0.16338433 -0.64571176 197.13618640  
0.31620760 0.76637227 0.55918359 280.93289239  
Axis 0.71461051 0.10311822 0.69188037  
Axis point 0.00000000 69.06800507 154.46818273  
Rotation angle (degrees) 81.11842470  
Shift along axis 384.13083707  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #7,-0.052742,-0.99794,0.036579,239.42,-0.25145,-0.022179,-0.96762,200.87,0.96643,-0.060231,-0.24976,277.17

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01496, steps = 264  
shifted from previous position = 12  
rotated from previous position = 40.2 degrees  
atoms outside contour = 1015, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.25591113 -0.75615416 0.60227933 242.70901862  
-0.10826088 -0.59668913 -0.79513626 208.97518068  
0.96061911 -0.26868750 0.07083748 285.72342984  
Axis 0.57948814 -0.39444230 0.71316813  
Axis point -47.32858280 198.81004884 0.00000000  
Rotation angle (degrees) 152.98421174  
Shift along axis 261.98718903  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01496, steps = 60  
shifted from previous position = 0.0286  
rotated from previous position = 0.117 degrees  
atoms outside contour = 1015, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.25610896 -0.75546796 0.60305585 242.72269575  
-0.10683343 -0.59791983 -0.79440449 208.95791921  
0.96072619 -0.26788063 0.07242339 285.74369684  
Axis 0.57937400 -0.39357172 0.71374160  
Axis point -47.17333824 198.53626268 0.00000000  
Rotation angle (degrees) 152.97428759  
Shift along axis 262.33445600  
  

> ui mousemode right "translate selected models"

> view matrix models
> #7,-0.25611,-0.75547,0.60306,206.12,-0.10683,-0.59792,-0.7944,172.33,0.96073,-0.26788,0.072423,296.11

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01381, steps = 112  
shifted from previous position = 11.7  
rotated from previous position = 8.56 degrees  
atoms outside contour = 1019, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.33974661 -0.76616920 0.54548785 212.70157895  
0.01396294 -0.58403219 -0.81161040 167.62178551  
0.94041336 -0.26812527 0.20912093 287.94569336  
Axis 0.52789227 -0.38359490 0.75774976  
Axis point -43.27655559 169.89620525 0.00000000  
Rotation angle (degrees) 149.01798571  
Shift along axis 266.17543982  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01381, steps = 48  
shifted from previous position = 0.0101  
rotated from previous position = 0.0218 degrees  
atoms outside contour = 1022, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.33939034 -0.76629123 0.54553822 212.70312365  
0.01397311 -0.58400456 -0.81163010 167.61194070  
0.94054184 -0.26783655 0.20891298 287.94378896  
Axis 0.52804158 -0.38356163 0.75766257  
Axis point -43.33474457 169.89029439 0.00000000  
Rotation angle (degrees) 149.00819568  
Shift along axis 266.19081615  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01381, steps = 48  
shifted from previous position = 0.011  
rotated from previous position = 0.0348 degrees  
atoms outside contour = 1020, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.33993674 -0.76617151 0.54536614 212.70276833  
0.01384107 -0.58391327 -0.81169804 167.62238040  
0.94034645 -0.26837753 0.20909820 287.94030243  
Axis 0.52781259 -0.38370644 0.75774880  
Axis point -43.25314947 169.92201972 0.00000000  
Rotation angle (degrees) 149.02321399  
Shift along axis 266.13582939  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01381, steps = 48  
shifted from previous position = 0.0285  
rotated from previous position = 0.0458 degrees  
atoms outside contour = 1016, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.33929218 -0.76625994 0.54564322 212.71649676  
0.01413690 -0.58413930 -0.81153030 167.61940812  
0.94057481 -0.26763218 0.20902644 287.96579765  
Axis 0.52807749 -0.38344402 0.75769706  
Axis point -43.34260966 169.87032395 0.00000000  
Rotation angle (degrees) 149.00391840  
Shift along axis 266.24897360  
  

> view matrix models
> #7,-0.33929,-0.76626,0.54564,197.48,0.014137,-0.58414,-0.81153,131.4,0.94057,-0.26763,0.20903,261.12

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01528, steps = 156  
shifted from previous position = 16  
rotated from previous position = 25.3 degrees  
atoms outside contour = 897, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.09090524 -0.55424574 0.82737410 208.46168445  
-0.13919464 -0.81558678 -0.56164318 140.97298026  
0.98608371 -0.16622235 -0.00300692 253.50530237  
Axis 0.66477115 -0.26681846 0.69777305  
Axis point -39.97902249 121.54445119 0.00000000  
Rotation angle (degrees) 162.69781778  
Shift along axis 277.85428900  
  

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01528, steps = 44  
shifted from previous position = 0.0233  
rotated from previous position = 0.243 degrees  
atoms outside contour = 899, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.09008292 -0.55134443 0.82940002 208.46673715  
-0.13737039 -0.81794742 -0.55865140 140.99675111  
0.98641495 -0.16425995 -0.00205530 253.51756098  
Axis 0.66515039 -0.26480935 0.69817689  
Axis point -39.84540206 121.11091659 0.00000000  
Rotation angle (degrees) 162.75442120  
Shift along axis 278.32457623  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #7,0.62679,-0.54543,0.55646,205.6,0.60118,-0.11581,-0.79068,138.53,0.49571,0.83012,0.25531,256.5

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01115, steps = 132  
shifted from previous position = 6.13  
rotated from previous position = 25.7 degrees  
atoms outside contour = 1152, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.86336548 -0.42769069 0.26773255 203.74119302  
0.40004691 0.25682710 -0.87977401 141.84479045  
0.30751018 0.86667209 0.39283199 261.39568924  
Axis 0.90345167 -0.02057731 0.42819582  
Axis point 0.00000000 -24.53310240 188.80749542  
Rotation angle (degrees) 75.13678618  
Shift along axis 293.08007718  
  

> view matrix models
> #7,-0.37798,-0.64145,-0.66759,208.94,-0.87359,0.0083632,0.48658,145.85,-0.30654,0.76712,-0.56353,263.91

> ui mousemode right "translate selected models"

> view matrix models
> #7,-0.37798,-0.64145,-0.66759,160.63,-0.87359,0.0083632,0.48658,180.32,-0.30654,0.76712,-0.56353,207.29

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01342, steps = 216  
shifted from previous position = 15.9  
rotated from previous position = 39.1 degrees  
atoms outside contour = 954, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.71668433 -0.14612132 -0.68191797 170.08873995  
-0.66700309 0.42914038 0.60905288 193.48699084  
0.20364293 0.89134005 -0.40502156 209.68181662  
Axis 0.26494196 -0.83114738 -0.48887605  
Axis point 98.00763596 0.00000000 87.49888007  
Rotation angle (degrees) 147.80963442  
Shift along axis -218.26097845  
  

> view matrix models
> #7,-0.71668,-0.14612,-0.68192,174.37,-0.667,0.42914,0.60905,237.54,0.20364,0.89134,-0.40502,194.68

> ui mousemode right "rotate selected models"

> view matrix models
> #7,-0.74795,-0.6047,0.2737,173.6,0.014032,0.39786,0.91734,234.54,-0.66361,0.68997,-0.28909,198.07

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.0165, steps = 372  
shifted from previous position = 11.9  
rotated from previous position = 56.3 degrees  
atoms outside contour = 818, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.88405707 -0.40719960 -0.22941573 167.59974074  
0.02002488 -0.52340560 0.85184833 224.76707275  
-0.46694978 0.74848852 0.47087454 204.14632062  
Axis -0.20687425 0.47542343 0.85508807  
Axis point 100.52004310 71.85806821 0.00000000  
Rotation angle (degrees) 165.53354448  
Shift along axis 246.75054562  
  

> ui mousemode right "translate selected models"

> view matrix models
> #7,-0.88406,-0.4072,-0.22942,153.83,0.020025,-0.52341,0.85185,252.2,-0.46695,0.74849,0.47087,196.77

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01489, steps = 276  
shifted from previous position = 12.6  
rotated from previous position = 60.3 degrees  
atoms outside contour = 940, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.41178939 -0.80198974 0.43271464 166.14652210  
0.27614117 0.34269945 0.89794384 253.97714022  
-0.86843282 0.48925407 0.08034239 200.89264493  
Axis -0.23508199 0.74843158 0.62015048  
Axis point 134.60778027 0.00000000 -94.51878883  
Rotation angle (degrees) 119.62846488  
Shift along axis 275.61012948  
  

> view matrix models
> #7,-0.41179,-0.80199,0.43271,153.25,0.27614,0.3427,0.89794,207.7,-0.86843,0.48925,0.080342,205

> view matrix models
> #7,-0.41179,-0.80199,0.43271,157.28,0.27614,0.3427,0.89794,210.02,-0.86843,0.48925,0.080342,198.61

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01617, steps = 316  
shifted from previous position = 14.7  
rotated from previous position = 43.2 degrees  
atoms outside contour = 868, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.86756777 -0.45848887 0.19265024 169.14319014  
0.30534311 -0.18531177 0.93403701 217.75411413  
-0.39254522 0.86916483 0.30076694 196.95444253  
Axis -0.06726565 0.60678634 0.79201368  
Axis point 84.84954947 63.89734999 0.00000000  
Rotation angle (degrees) 151.17023613  
Shift along axis 276.74330846  
  

> view matrix models
> #7,-0.86757,-0.45849,0.19265,197.03,0.30534,-0.18531,0.93404,232.33,-0.39255,0.86916,0.30077,296.37

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01536, steps = 260  
shifted from previous position = 31.7  
rotated from previous position = 28.7 degrees  
atoms outside contour = 975, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.95241967 -0.11807104 0.28099112 222.27253495  
0.26175415 0.15544702 0.95253398 218.55696572  
-0.15614591 0.98076269 -0.11714522 282.54346021  
Axis 0.04868807 0.75396159 0.65511174  
Axis point 108.62199222 0.00000000 26.21121400  
Rotation angle (degrees) 163.14842349  
Shift along axis 360.70311692  
  

> view matrix models
> #7,-0.95242,-0.11807,0.28099,251.38,0.26175,0.15545,0.95253,178.64,-0.15615,0.98076,-0.11715,277.45

> ui mousemode right "rotate selected models"

> view matrix models
> #7,-0.40316,0.75033,-0.5239,250.48,0.4634,0.66104,0.59015,178.51,0.78913,-0.0048505,-0.61421,272.74

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01371, steps = 100  
shifted from previous position = 13.7  
rotated from previous position = 13 degrees  
atoms outside contour = 1016, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
-0.31904076 0.69449078 -0.64489964 242.42906101  
0.56916173 0.68448978 0.45555313 167.63811364  
0.75780467 -0.22171218 -0.61365772 275.23630267  
Axis -0.43339932 -0.89762620 -0.08020125  
Axis point 12.95336841 0.00000000 162.85177006  
Rotation angle (degrees) 128.61647913  
Shift along axis -277.61924688  
  

> view matrix models
> #7,0.39895,0.8134,-0.42333,239.53,-0.30431,0.55294,0.77566,171.09,0.86501,-0.18063,0.46812,274.41

> ui mousemode right "translate selected models"

> view matrix models
> #7,0.39895,0.8134,-0.42333,273.98,-0.30431,0.55294,0.77566,155.56,0.86501,-0.18063,0.46812,234.79

> view matrix models
> #7,0.39895,0.8134,-0.42333,235.96,-0.30431,0.55294,0.77566,151.4,0.86501,-0.18063,0.46812,164.84

> ui mousemode right "rotate selected models"

> view matrix models
> #7,0.40043,-0.90481,-0.1448,233.88,-0.52934,-0.09942,-0.84256,151.75,0.74797,0.41404,-0.51877,165.77

> view matrix models
> #7,0.78296,-0.59005,-0.19699,232.5,0.33936,0.13976,0.93022,148.54,-0.52135,-0.79518,0.30966,169.73

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01095, steps = 268  
shifted from previous position = 8.68  
rotated from previous position = 36.5 degrees  
atoms outside contour = 1030, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.88201246 -0.06735731 -0.46638719 225.45380365  
0.46518856 0.28238517 0.83896258 152.90726536  
0.07519058 -0.95693343 0.28040108 167.42748424  
Axis -0.92101421 -0.27774482 0.27311287  
Axis point 0.00000000 194.41628866 51.70274146  
Rotation angle (degrees) 77.15000190  
Shift along axis -204.38875747  
  

> ui mousemode right "translate selected models"

> view matrix models
> #7,0.88201,-0.067357,-0.46639,154.6,0.46519,0.28239,0.83896,140.3,0.075191,-0.95693,0.2804,157.59

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = -0.004345, steps = 1768  
shifted from previous position = 27.8  
rotated from previous position = 38.7 degrees  
atoms outside contour = 1482, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.67637868 0.40911328 -0.61248526 153.28463672  
0.69105931 -0.06476261 0.71989085 142.71263256  
0.25485077 -0.91018246 -0.32652560 129.46389317  
Axis -0.87269524 -0.46434723 0.15094594  
Axis point 0.00000000 92.34806439 54.77134028  
Rotation angle (degrees) 110.94396662  
Shift along axis -180.49693770  
  

> view matrix models
> #7,0.67638,0.40911,-0.61249,255.53,0.69106,-0.064763,0.71989,187.48,0.25485,-0.91018,-0.32653,108.98

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01236, steps = 320  
shifted from previous position = 43.1  
rotated from previous position = 40.6 degrees  
atoms outside contour = 1066, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.66364949 0.68305886 -0.30495890 242.74654590  
0.73883293 -0.53475631 0.41007510 199.61017677  
0.11702674 -0.49745981 -0.85955714 147.63548139  
Axis -0.90536363 -0.42097604 0.05564063  
Axis point 0.00000000 67.71691505 70.12200570  
Rotation angle (degrees) 149.92063488  
Shift along axis -295.59046339  
  

> view matrix models
> #7,0.66365,0.68306,-0.30496,241.45,0.73883,-0.53476,0.41008,243.45,0.11703,-0.49746,-0.85956,159.53

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01528, steps = 212  
shifted from previous position = 30.1  
rotated from previous position = 43.9 degrees  
atoms outside contour = 960, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.57373675 0.34729400 -0.74176344 215.29547754  
0.79800367 -0.03309250 0.60174332 256.53880374  
0.18443505 -0.93717221 -0.29612828 149.98595016  
Axis -0.83102789 -0.50015531 0.24338717  
Axis point 0.00000000 150.77056666 57.53907055  
Rotation angle (degrees) 112.19388794  
Shift along axis -270.72113426  
  

> ui mousemode right "rotate selected models"

> view matrix models
> #7,0.4844,0.48253,0.72974,215.85,0.60257,-0.78875,0.12157,256.56,0.63424,0.38083,-0.67283,149.61

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01676, steps = 260  
shifted from previous position = 12.1  
rotated from previous position = 51.4 degrees  
atoms outside contour = 852, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.78841110 0.57937329 0.20672329 217.83187120  
0.59123134 -0.62089233 -0.51472150 244.12962000  
-0.16986299 0.52803343 -0.83206205 148.19987095  
Axis 0.94048976 0.33965367 0.01069511  
Axis point 0.00000000 59.38999774 96.32037096  
Rotation angle (degrees) 146.33280234  
Shift along axis 289.37318155  
  

> select add #5.8

1487 atoms, 1659 bonds, 70 residues, 2 models selected  

> select add #5.34

1487 atoms, 1659 bonds, 70 residues, 3 models selected  

> select add #5.114

1487 atoms, 1659 bonds, 70 residues, 4 models selected  
Segmenting volume difference, density threshold 0.018300  
Showing 193 region surfaces  
2041 watershed regions, grouped to 193 regions  
Showing volume difference.seg - 193 regions, 193 surfaces  

> view matrix models
> #7,0.74676,0.61824,0.24519,218.02,0.64446,-0.58152,-0.49649,243.94,-0.16437,0.52878,-0.83269,148.18

> view matrix models
> #7,0.70129,0.6545,0.28252,218.22,0.69494,-0.53935,-0.47555,243.77,-0.15887,0.52984,-0.83309,148.16

> fitmap #7 inMap #4

Fit molecule fold_5th_loop_model_0.cif (#7) to map volume difference (#4)
using 1487 atoms  
average map value = 0.01676, steps = 72  
shifted from previous position = 0.583  
rotated from previous position = 7.91 degrees  
atoms outside contour = 852, contour level = 0.0183  
  
Position of fold_5th_loop_model_0.cif (#7) relative to volume difference (#4)
coordinates:  
Matrix rotation and translation  
0.78838747 0.57938730 0.20677412 217.83613294  
0.59118695 -0.62060644 -0.51511712 244.11647644  
-0.17012698 0.52835404 -0.83180455 148.21437603  
Axis 0.94047420 0.33969866 0.01063495  
Axis point 0.00000000 59.35153609 96.35064388  
Rotation angle (degrees) 146.30595237  
Shift along axis 289.37155530  
  

> select add #5.31

1487 atoms, 1659 bonds, 70 residues, 2 models selected  

> select subtract #7

1 model selected  

> select add #5.119

2 models selected  

> select add #5.62

3 models selected  

> select add #5.155

4 models selected  

> select add #5.165

5 models selected  

> select add #5.172

6 models selected  
Grouped 6 regions  
Saving 1 regions to mrc file...  
Opened FIVESEGFIT.mrc as #14, grid size 69,66,58, pixel 1.12, shown at step 1,
values float32  
Wrote FIVESEGFIT.mrc  

> hide #!4 models

> hide #!5 models

> select add #5

189 models selected  

> select subtract #5

Nothing selected  

> volume #14 level 0.01854

> transparency #14.1 50


===== Log before crash end =====

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.9rc202411082121 (2024-11-08)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M2 Max
OpenGL vendor: Apple

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

    Hardware Overview:

      Model Name: Mac Studio
      Model Identifier: Mac14,13
      Model Number: Z17Z000MJLL/A
      Chip: Apple M2 Max
      Total Number of Cores: 12 (8 performance and 4 efficiency)
      Memory: 64 GB
      System Firmware Version: 11881.41.5
      OS Loader Version: 11881.41.5

Software:

    System Software Overview:

      System Version: macOS 15.1 (24B83)
      Kernel Version: Darwin 24.1.0
      Time since boot: 11 days, 1 hour, 37 minutes

Graphics/Displays:

    Apple M2 Max:

      Chipset Model: Apple M2 Max
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 38
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        DELL E2724HS:
          Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
          UI Looks like: 1920 x 1080 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    alabaster: 1.0.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 2.4.1
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 2.7.1
    build: 1.2.1
    certifi: 2023.11.17
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.17
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.58.7
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.4.7
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.9rc202411082121
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.5
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.2.1
    ChimeraX-Label: 1.1.11
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.17
    ChimeraX-ModelPanel: 1.5
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-MutationScores: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.2.6
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.18.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.41
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.4
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    contourpy: 1.3.0
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.8
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.54.1
    funcparserlib: 2.0.0a0
    glfw: 2.7.0
    grako: 3.16.5
    h5py: 3.12.1
    html2text: 2024.2.26
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.1
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 23.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pexpect: 4.9.0
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tornado: 6.4.1
    traitlets: 5.14.3
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13

Change History (2)

comment:1 by Eric Pettersen, 12 months ago

Cc: Tom Goddard added
Component: Unassigned → Window Toolkit
Description: modified (diff)
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Crash running open/save dialog

comment:2 by Eric Pettersen, 12 months ago

Resolution: → can't reproduce
Status: accepted → closed
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