Changes between Initial Version and Version 1 of Ticket #17233


Ignore:
Timestamp:
Mar 31, 2025, 10:31:33 AM (7 months ago)
Author:
Eric Pettersen
Comment:

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #17233

    • Property Component Unassigned → Window Toolkit
    • Property Owner set to Tom Goddard
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → assigned
    • Property Summary ChimeraX bug report submission → Crash on Mac waking from sleep

  • Ticket #17233 – Description

    initial v1  
    135135  "threads" : [{"triggered":true,"id":274237,"threadState":{"x":[{"value":0},{"value":0},{"value":1},{"value":0},{"value":101},{"value":101},{"value":11697034400},{"value":0},{"value":14480748015834496940},{"value":14480748015213272812},{"value":14757395258967641293},{"value":4294967286},{"value":4832328274},{"value":0},{"value":54},{"value":4294967280},{"value":328},{"value":8223553616},{"value":0},{"value":11},{"value":8145019200,"symbolLocation":0,"symbol":"_main_thread"},{"value":259},{"value":8145019424,"symbolLocation":224,"symbol":"_main_thread"},{"value":1},{"value":4384179760,"symbolLocation":0,"symbol":"faulthandler_handlers"},{"value":8102772736,"symbolLocation":0,"symbol":"OBJC_IVAR_$__NSSliderCellDataDrivenMetrics._state"},{"value":8102772736,"symbolLocation":0,"symbol":"OBJC_IVAR_$__NSSliderCellDataDrivenMetrics._state"},{"value":4},{"value":1}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6650199080},"cpsr":{"value":1073745920},"fp":{"value":4832328416},"sp":{"value":4832328384},"esr":{"value":1442840704,"description":" Address size fault"},"pc":{"value":6649972484,"matchesCrashFrame":1},"far":{"value":0}},"name":"CrBrowserMain","queue":"com.apple.main-thread","frames":[{"imageOffset":38660,"symbol":"__pthread_kill","symbolLocation":8,"imageIndex":165},{"imageOffset":27688,"symbol":"pthread_kill","symbolLocation":288,"imageIndex":166},{"imageOffset":259180,"symbol":"raise","symbolLocation":32,"imageIndex":167},{"imageOffset":2417160,"symbol":"faulthandler_fatal_error","symbolLocation":392,"imageIndex":1},{"imageOffset":14884,"symbol":"_sigtramp","symbolLocation":56,"imageIndex":168},{"imageOffset":349344,"imageIndex":69},{"imageOffset":349160,"imageIndex":69},{"imageOffset":380220,"symbol":"_NSViewHierarchyDidChangeBackingProperties","symbolLocation":244,"imageIndex":169},{"imageOffset":8460548,"symbol":"-[NSWindow _postWindowDidChangeBackingPropertiesAndDisplayWindowForPreviousBackingScaleFactor:previousColorSpace:]","symbolLocation":192,"imageIndex":169},{"imageOffset":2100044,"symbol":"__67-[NSWindow _updateSettingsSendingScreenChangeNotificationToScreen:]_block_invoke","symbolLocation":448,"imageIndex":169},{"imageOffset":511220,"symbol":"NSPerformVisuallyAtomicChange","symbolLocation":108,"imageIndex":169},{"imageOffset":2099584,"symbol":"-[NSWindow _updateSettingsSendingScreenChangeNotificationToScreen:]","symbolLocation":96,"imageIndex":169},{"imageOffset":516564,"symbol":"-[NSWindow _setFrameCommon:display:fromServer:]","symbolLocation":1856,"imageIndex":169},{"imageOffset":8435208,"symbol":"-[NSWindow(NSScreenLayout) _setFrame:fromAdjustmentToScreen:anchorIfNeeded:animate:]","symbolLocation":576,"imageIndex":169},{"imageOffset":3284152,"symbol":"-[NSWindow _adjustWindowToScreen]","symbolLocation":1100,"imageIndex":169},{"imageOffset":3413400,"symbol":"-[NSWindow _displayChangedSoAdjustWindows:]","symbolLocation":100,"imageIndex":169},{"imageOffset":11201696,"symbol":"___NSApplicationPerformScreenInvalidationReactions_block_invoke","symbolLocation":72,"imageIndex":169},{"imageOffset":215464,"symbol":"-[NSApplication enumerateWindowsWithOptions:usingBlock:]","symbolLocation":236,"imageIndex":169},{"imageOffset":11200436,"symbol":"___NSApplicationReactToScreenInvalidation_block_invoke","symbolLocation":848,"imageIndex":169},{"imageOffset":11198836,"symbol":"_NSApplicationReactToScreenInvalidation","symbolLocation":292,"imageIndex":169},{"imageOffset":11199308,"symbol":"-[NSApplication(ScreenHandling) _reactToDisplayChanges:]","symbolLocation":372,"imageIndex":169},{"imageOffset":6682880,"symbol":"_NSCGSDisplayConfigurationUpdateAndInvokeObservers","symbolLocation":416,"imageIndex":169},{"imageOffset":6683784,"symbol":"_NSCGSDisplayConfigurationDidReconfigureNotificationHandler","symbolLocation":308,"imageIndex":169},{"imageOffset":43788,"symbol":"(anonymous namespace)::notify_datagram_handler(unsigned int, CGSDatagramType, void*, unsigned long, void*)","symbolLocation":888,"imageIndex":170},{"imageOffset":3464496,"symbol":"CGSDatagramReadStream::dispatchMainQueueDatagrams()","symbolLocation":228,"imageIndex":170},{"imageOffset":3464236,"symbol":"invocation function for block in CGSDatagramReadStream::mainQueueWakeup()","symbolLocation":28,"imageIndex":170},{"imageOffset":10356,"symbol":"_dispatch_call_block_and_release","symbolLocation":32,"imageIndex":171},{"imageOffset":17408,"symbol":"_dispatch_client_callout","symbolLocation":20,"imageIndex":171},{"imageOffset":76792,"symbol":"_dispatch_main_queue_drain","symbolLocation":928,"imageIndex":171},{"imageOffset":75848,"symbol":"_dispatch_main_queue_callback_4CF","symbolLocation":44,"imageIndex":171},{"imageOffset":789364,"symbol":"__CFRUNLOOP_IS_SERVICING_THE_MAIN_DISPATCH_QUEUE__","symbolLocation":16,"imageIndex":172},{"imageOffset":516852,"symbol":"__CFRunLoopRun","symbolLocation":1992,"imageIndex":172},{"imageOffset":512984,"symbol":"CFRunLoopRunSpecific","symbolLocation":612,"imageIndex":172},{"imageOffset":200176,"symbol":"RunCurrentEventLoopInMode","symbolLocation":292,"imageIndex":173},{"imageOffset":199724,"symbol":"ReceiveNextEventCommon","symbolLocation":648,"imageIndex":173},{"imageOffset":199044,"symbol":"_BlockUntilNextEventMatchingListInModeWithFilter","symbolLocation":76,"imageIndex":173},{"imageOffset":234380,"symbol":"_DPSNextEvent","symbolLocation":636,"imageIndex":169},{"imageOffset":230696,"symbol":"-[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:]","symbolLocation":716,"imageIndex":169},{"imageOffset":182668,"symbol":"-[NSApplication run]","symbolLocation":464,"imageIndex":169},{"imageOffset":88376,"imageIndex":69},{"imageOffset":572692,"symbol":"QEventLoop::exec(QFlags)","symbolLocation":540,"imageIndex":45},{"imageOffset":534620,"symbol":"QCoreApplication::exec()","symbolLocation":112,"imageIndex":45},{"imageOffset":2477972,"symbol":"meth_QApplication_exec(_object*, _object*)","symbolLocation":96,"imageIndex":48},{"imageOffset":1004504,"symbol":"cfunction_call","symbolLocation":96,"imageIndex":1},{"imageOffset":594156,"symbol":"_PyObject_MakeTpCall","symbolLocation":128,"imageIndex":1},{"imageOffset":1789244,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54984,"imageIndex":1},{"imageOffset":1729512,"symbol":"PyEval_EvalCode","symbolLocation":276,"imageIndex":1},{"imageOffset":1707120,"symbol":"builtin_exec","symbolLocation":428,"imageIndex":1},{"imageOffset":1007044,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS","symbolLocation":80,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":2389028,"symbol":"pymain_run_module","symbolLocation":256,"imageIndex":1},{"imageOffset":2387652,"symbol":"Py_RunMain","symbolLocation":1784,"imageIndex":1},{"imageOffset":2392180,"symbol":"pymain_main","symbolLocation":52,"imageIndex":1},{"imageOffset":2392116,"symbol":"Py_Main","symbolLocation":36,"imageIndex":1},{"imageOffset":15700,"symbol":"main","symbolLocation":128,"imageIndex":0},{"imageOffset":24536,"symbol":"start","symbolLocation":2412,"imageIndex":174}]},{"id":274403,"name":"ThreadPoolServiceThread","frames":[{"imageOffset":52680,"symbol":"kevent64","symbolLocation":8,"imageIndex":165},{"imageOffset":71187368,"imageIndex":56},{"imageOffset":71186848,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70856668,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274404,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902644,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274405,"name":"ThreadPoolBackgroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902696,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274406,"name":"Chrome_IOThread","frames":[{"imageOffset":52680,"symbol":"kevent64","symbolLocation":8,"imageIndex":165},{"imageOffset":71187368,"imageIndex":56},{"imageOffset":71186848,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":45328188,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274407,"name":"NetworkConfigWatcher","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274408,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902644,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274409,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902644,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274410,"name":"Chrome_InProcGpuThread","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274411,"name":"Chrome_ChildIOThread","frames":[{"imageOffset":52680,"symbol":"kevent64","symbolLocation":8,"imageIndex":165},{"imageOffset":71187368,"imageIndex":56},{"imageOffset":71186848,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":114048632,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274412,"name":"CompositorTileWorker1","frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":71055056,"imageIndex":56},{"imageOffset":104344336,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274413,"name":"ThreadPoolSingleThreadSharedForeground0","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70903324,"imageIndex":56},{"imageOffset":70902728,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274414,"name":"VizCompositorThread","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70343392,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274415,"name":"NetworkConfigWatcher","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274416,"name":"NetworkService","frames":[{"imageOffset":52680,"symbol":"kevent64","symbolLocation":8,"imageIndex":165},{"imageOffset":71187368,"imageIndex":56},{"imageOffset":71186848,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274417,"name":"NetworkNotificationThreadMac","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":521988,"symbol":"__CFRunLoopServiceMachPort","symbolLocation":160,"imageIndex":172},{"imageOffset":516068,"symbol":"__CFRunLoopRun","symbolLocation":1208,"imageIndex":172},{"imageOffset":512984,"symbol":"CFRunLoopRunSpecific","symbolLocation":612,"imageIndex":172},{"imageOffset":380456,"symbol":"-[NSRunLoop(NSRunLoop) runMode:beforeDate:]","symbolLocation":212,"imageIndex":175},{"imageOffset":71382916,"imageIndex":56},{"imageOffset":71377136,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274418,"name":"NetworkConfigWatcher","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274419,"name":"ThreadPoolSingleThreadForegroundBlocking1","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902712,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274445,"name":"NetworkConfigWatcher","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274450,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274451,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274452,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274453,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274454,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274455,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274456,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274457,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274458,"frames":[{"imageOffset":38932,"symbol":"poll","symbolLocation":8,"imageIndex":165},{"imageOffset":21836,"symbol":"select_poll_poll","symbolLocation":148,"imageIndex":15},{"imageOffset":665460,"symbol":"method_vectorcall_FASTCALL","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611268,"symbol":"method_vectorcall","symbolLocation":164,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274459,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":790596,"symbol":"calliter_iternext","symbolLocation":88,"imageIndex":1},{"imageOffset":1782844,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":48584,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274460,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":2309256,"symbol":"PyThread_acquire_lock_timed","symbolLocation":412,"imageIndex":1},{"imageOffset":13260,"symbol":"_queue_SimpleQueue_get_impl","symbolLocation":220,"imageIndex":88},{"imageOffset":12360,"symbol":"_queue_SimpleQueue_get","symbolLocation":224,"imageIndex":88},{"imageOffset":1008200,"symbol":"cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD","symbolLocation":100,"imageIndex":1},{"imageOffset":1788292,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":54032,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":1799532,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":65272,"imageIndex":1},{"imageOffset":1811404,"symbol":"_PyEval_Vector","symbolLocation":156,"imageIndex":1},{"imageOffset":611492,"symbol":"method_vectorcall","symbolLocation":388,"imageIndex":1},{"imageOffset":2848544,"symbol":"thread_run","symbolLocation":200,"imageIndex":1},{"imageOffset":2308224,"symbol":"pythread_wrapper","symbolLocation":48,"imageIndex":1},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274550,"name":"com.apple.NSEventThread","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":37972,"symbol":"CGSSnarfAndDispatchDatagrams","symbolLocation":160,"imageIndex":170},{"imageOffset":3440456,"symbol":"SLSGetNextEventRecordInternal","symbolLocation":344,"imageIndex":170},{"imageOffset":1309604,"symbol":"SLEventCreateNextEvent","symbolLocation":16,"imageIndex":170},{"imageOffset":246628,"symbol":"PullEventsFromWindowServerOnConnection(unsigned int, unsigned char, __CFMachPortBoost*)","symbolLocation":60,"imageIndex":173},{"imageOffset":246508,"symbol":"MessageHandler(__CFMachPort*, void*, long, void*)","symbolLocation":60,"imageIndex":173},{"imageOffset":717172,"symbol":"__CFMachPortPerform","symbolLocation":248,"imageIndex":172},{"imageOffset":522988,"symbol":"__CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE1_PERFORM_FUNCTION__","symbolLocation":60,"imageIndex":172},{"imageOffset":522764,"symbol":"__CFRunLoopDoSource1","symbolLocation":520,"imageIndex":172},{"imageOffset":517100,"symbol":"__CFRunLoopRun","symbolLocation":2240,"imageIndex":172},{"imageOffset":512984,"symbol":"CFRunLoopRunSpecific","symbolLocation":612,"imageIndex":172},{"imageOffset":1456664,"symbol":"_NSEventThread","symbolLocation":172,"imageIndex":169},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274579,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902644,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274580,"name":"MemoryInfra","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274581,"name":"ThreadPoolSingleThreadSharedBackgroundBlocking2","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70903324,"imageIndex":56},{"imageOffset":70902760,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":274584,"name":"ThreadPoolBackgroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902696,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277417,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277418,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277419,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277420,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277421,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277422,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":277423,"frames":[{"imageOffset":18160,"symbol":"__psynch_cvwait","symbolLocation":8,"imageIndex":165},{"imageOffset":30068,"symbol":"_pthread_cond_wait","symbolLocation":1232,"imageIndex":166},{"imageOffset":1502040,"symbol":"blas_thread_server","symbolLocation":360,"imageIndex":19},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":298611,"name":"NetworkConfigWatcher","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":300836,"name":"NetworkConfigWatcher","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70677152,"imageIndex":56},{"imageOffset":70343492,"imageIndex":56},{"imageOffset":70809656,"imageIndex":56},{"imageOffset":70544784,"imageIndex":56},{"imageOffset":70952276,"imageIndex":56},{"imageOffset":70952656,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":1522257,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":3828,"symbol":"mach_msg2_trap","symbolLocation":8,"imageIndex":165},{"imageOffset":78368,"symbol":"mach_msg2_internal","symbolLocation":80,"imageIndex":165},{"imageOffset":39768,"symbol":"mach_msg_overwrite","symbolLocation":604,"imageIndex":165},{"imageOffset":4720,"symbol":"mach_msg","symbolLocation":24,"imageIndex":165},{"imageOffset":71161832,"imageIndex":56},{"imageOffset":70677284,"imageIndex":56},{"imageOffset":70900888,"imageIndex":56},{"imageOffset":70904380,"imageIndex":56},{"imageOffset":70902644,"imageIndex":56},{"imageOffset":71057880,"imageIndex":56},{"imageOffset":28584,"symbol":"_pthread_start","symbolLocation":148,"imageIndex":166},{"imageOffset":7584,"symbol":"thread_start","symbolLocation":8,"imageIndex":166}]},{"id":7527165,"frames":[{"imageOffset":7564,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":166}]},{"id":7527166,"frames":[{"imageOffset":7564,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":166}]},{"id":7528544,"frames":[{"imageOffset":7564,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":166}]},{"id":7528545,"frames":[{"imageOffset":7564,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":166}]},{"id":7528717,"frames":[{"imageOffset":7564,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":166}]}],
    136136  "usedImages" : [
    137   {
    138     "source" : "P",
    139     "arch" : "arm64",
    140     "base" : 4365303808,
    141     "CFBundleShortVersionString" : "1.9.0",
    142     "CFBundleIdentifier" : "edu.ucsf.cgl.ChimeraX",
    143     "size" : 16384,
    144     "uuid" : "17982d98-65bc-3327-8526-577ec996453c",
    145     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
    146     "name" : "ChimeraX",
    147     "CFBundleVersion" : "1.9.0.0"
    148   },
    149   {
    150     "source" : "P",
    151     "arch" : "arm64",
    152     "base" : 4379901952,
    153     "CFBundleShortVersionString" : "3.11.4, (c) 2001-2023 Python Software Foundation.",
    154     "CFBundleIdentifier" : "org.python.python",
    155     "size" : 3948544,
    156     "uuid" : "88bffd37-99d8-36ab-9b95-9f54b30bd667",
    157     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/Python",
    158     "name" : "Python",
    159     "CFBundleVersion" : "3.11.4"
    160   },
    161   {
    162     "source" : "P",
    163     "arch" : "arm64",
    164     "base" : 4368384000,
    165     "size" : 49152,
    166     "uuid" : "51d31d0d-1dcc-31ad-b6c1-73d57e544a3a",
    167     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/math.cpython-311-darwin.so",
    168     "name" : "math.cpython-311-darwin.so"
    169   },
    170   {
    171     "source" : "P",
    172     "arch" : "arm64",
    173     "base" : 4368121856,
    174     "size" : 81920,
    175     "uuid" : "3b2e1e73-f5e1-3fa3-80b3-e46009060893",
    176     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_datetime.cpython-311-darwin.so",
    177     "name" : "_datetime.cpython-311-darwin.so"
    178   },
    179   {
    180     "source" : "P",
    181     "arch" : "arm64",
    182     "base" : 4368302080,
    183     "size" : 16384,
    184     "uuid" : "39aa96c6-b691-3e20-9540-292b9dd1c861",
    185     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_typing.cpython-311-darwin.so",
    186     "name" : "_typing.cpython-311-darwin.so"
    187   },
    188   {
    189     "source" : "P",
    190     "arch" : "arm64",
    191     "base" : 4371890176,
    192     "size" : 32768,
    193     "uuid" : "65172ede-2b95-337d-970f-ed6c4a217cb1",
    194     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/zlib.cpython-311-darwin.so",
    195     "name" : "zlib.cpython-311-darwin.so"
    196   },
    197   {
    198     "source" : "P",
    199     "arch" : "arm64",
    200     "base" : 4372004864,
    201     "size" : 16384,
    202     "uuid" : "dc7a591b-ef8a-3b77-9396-ecee27303fdb",
    203     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_bz2.cpython-311-darwin.so",
    204     "name" : "_bz2.cpython-311-darwin.so"
    205   },
    206   {
    207     "source" : "P",
    208     "arch" : "arm64",
    209     "base" : 4372676608,
    210     "size" : 196608,
    211     "uuid" : "a4b86716-73ef-3046-b7ee-1d069dfd7cd0",
    212     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_lzma.cpython-311-darwin.so",
    213     "name" : "_lzma.cpython-311-darwin.so"
    214   },
    215   {
    216     "source" : "P",
    217     "arch" : "arm64",
    218     "base" : 4372086784,
    219     "size" : 16384,
    220     "uuid" : "a97f3cfd-a5a7-3ce2-9eb6-5ebc0943bd1d",
    221     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_bisect.cpython-311-darwin.so",
    222     "name" : "_bisect.cpython-311-darwin.so"
    223   },
    224   {
    225     "source" : "P",
    226     "arch" : "arm64",
    227     "base" : 4372168704,
    228     "size" : 16384,
    229     "uuid" : "1eab426b-5d06-3a22-b7b5-6dbc112704d6",
    230     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_random.cpython-311-darwin.so",
    231     "name" : "_random.cpython-311-darwin.so"
    232   },
    233   {
    234     "source" : "P",
    235     "arch" : "arm64",
    236     "base" : 4372250624,
    237     "size" : 16384,
    238     "uuid" : "487467f0-5417-397f-8fb9-43ce116abec8",
    239     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_sha512.cpython-311-darwin.so",
    240     "name" : "_sha512.cpython-311-darwin.so"
    241   },
    242   {
    243     "source" : "P",
    244     "arch" : "arm64",
    245     "base" : 4372332544,
    246     "size" : 32768,
    247     "uuid" : "c4b2ad90-cc7d-3780-bee9-9f1dbc2aa560",
    248     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/binascii.cpython-311-darwin.so",
    249     "name" : "binascii.cpython-311-darwin.so"
    250   },
    251   {
    252     "source" : "P",
    253     "arch" : "arm64",
    254     "base" : 4372430848,
    255     "size" : 32768,
    256     "uuid" : "167d8231-8346-37b6-9d67-149a1fe3df21",
    257     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_struct.cpython-311-darwin.so",
    258     "name" : "_struct.cpython-311-darwin.so"
    259   },
    260   {
    261     "source" : "P",
    262     "arch" : "arm64",
    263     "base" : 4372545536,
    264     "size" : 16384,
    265     "uuid" : "9e9f3dfb-1383-3420-bfcf-d996842d8e9e",
    266     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/fcntl.cpython-311-darwin.so",
    267     "name" : "fcntl.cpython-311-darwin.so"
    268   },
    269   {
    270     "source" : "P",
    271     "arch" : "arm64",
    272     "base" : 4372971520,
    273     "size" : 16384,
    274     "uuid" : "d685528c-5d21-3c1a-b720-81f8ba0b399a",
    275     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_posixsubprocess.cpython-311-darwin.so",
    276     "name" : "_posixsubprocess.cpython-311-darwin.so"
    277   },
    278   {
    279     "source" : "P",
    280     "arch" : "arm64",
    281     "base" : 4373053440,
    282     "size" : 32768,
    283     "uuid" : "d25f2f2d-a87d-3870-ad6a-3d977d50c9ca",
    284     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/select.cpython-311-darwin.so",
    285     "name" : "select.cpython-311-darwin.so"
    286   },
    287   {
    288     "source" : "P",
    289     "arch" : "arm64",
    290     "base" : 4374200320,
    291     "size" : 16384,
    292     "uuid" : "af325f57-7a09-34ec-a4c1-5868641db36e",
    293     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/arrays\/_arrays.cpython-311-darwin.so",
    294     "name" : "_arrays.cpython-311-darwin.so"
    295   },
    296   {
    297     "source" : "P",
    298     "arch" : "arm64",
    299     "base" : 4376264704,
    300     "size" : 458752,
    301     "uuid" : "951d36fb-0a20-3aac-8b75-7821933bfa58",
    302     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/arrays\/lib\/libarrays.dylib",
    303     "name" : "libarrays.dylib"
    304   },
    305   {
    306     "source" : "P",
    307     "arch" : "arm64",
    308     "base" : 4396023808,
    309     "size" : 2670592,
    310     "uuid" : "744b099b-9156-3efd-95ee-949f9bec068e",
    311     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/core\/_multiarray_umath.cpython-311-darwin.so",
    312     "name" : "_multiarray_umath.cpython-311-darwin.so"
    313   },
    314   {
    315     "source" : "P",
    316     "arch" : "arm64",
    317     "base" : 4492034048,
    318     "size" : 21299200,
    319     "uuid" : "9854a721-2573-3169-81ec-19ea40ce8077",
    320     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libopenblas64_.0.dylib",
    321     "name" : "libopenblas64_.0.dylib"
    322   },
    323   {
    324     "source" : "P",
    325     "arch" : "arm64",
    326     "base" : 4387241984,
    327     "size" : 3522560,
    328     "uuid" : "dd0e012a-b6de-31b1-a28e-260c7b51e595",
    329     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libgfortran.5.dylib",
    330     "name" : "libgfortran.5.dylib"
    331   },
    332   {
    333     "source" : "P",
    334     "arch" : "arm64",
    335     "base" : 4376903680,
    336     "size" : 311296,
    337     "uuid" : "6d39d54b-d80e-3218-a095-b81ad0b3be90",
    338     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libquadmath.0.dylib",
    339     "name" : "libquadmath.0.dylib"
    340   },
    341   {
    342     "source" : "P",
    343     "arch" : "arm64",
    344     "base" : 4371660800,
    345     "size" : 65536,
    346     "uuid" : "d9875303-8f38-33d9-a0d3-ab0adff3b915",
    347     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/.dylibs\/libgcc_s.1.1.dylib",
    348     "name" : "libgcc_s.1.1.dylib"
    349   },
    350   {
    351     "source" : "P",
    352     "arch" : "arm64",
    353     "base" : 4375724032,
    354     "size" : 98304,
    355     "uuid" : "ad5b1457-a682-3233-ac84-0f75b349239d",
    356     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_pickle.cpython-311-darwin.so",
    357     "name" : "_pickle.cpython-311-darwin.so"
    358   },
    359   {
    360     "source" : "P",
    361     "arch" : "arm64",
    362     "base" : 4371808256,
    363     "size" : 16384,
    364     "uuid" : "c1a0a0c0-1986-3338-a63d-eb396e783c91",
    365     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_contextvars.cpython-311-darwin.so",
    366     "name" : "_contextvars.cpython-311-darwin.so"
    367   },
    368   {
    369     "source" : "P",
    370     "arch" : "arm64",
    371     "base" : 4375904256,
    372     "size" : 65536,
    373     "uuid" : "340d4f4e-8cd4-3e24-9215-eb9235031bd3",
    374     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/core\/_multiarray_tests.cpython-311-darwin.so",
    375     "name" : "_multiarray_tests.cpython-311-darwin.so"
    376   },
    377   {
    378     "source" : "P",
    379     "arch" : "arm64",
    380     "base" : 4376051712,
    381     "size" : 81920,
    382     "uuid" : "6c214dd2-6044-3285-949b-8d8ba72ca17b",
    383     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_ctypes.cpython-311-darwin.so",
    384     "name" : "_ctypes.cpython-311-darwin.so"
    385   },
    386   {
    387     "source" : "P",
    388     "arch" : "arm64",
    389     "base" : 4375330816,
    390     "size" : 98304,
    391     "uuid" : "09f94631-f551-3559-ba88-aff49917d8fe",
    392     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/linalg\/_umath_linalg.cpython-311-darwin.so",
    393     "name" : "_umath_linalg.cpython-311-darwin.so"
    394   },
    395   {
    396     "source" : "P",
    397     "arch" : "arm64",
    398     "base" : 4375511040,
    399     "size" : 65536,
    400     "uuid" : "7b5335ce-92a1-3ae2-bde0-0e5d5641b2c9",
    401     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/fft\/_pocketfft_internal.cpython-311-darwin.so",
    402     "name" : "_pocketfft_internal.cpython-311-darwin.so"
    403   },
    404   {
    405     "source" : "P",
    406     "arch" : "arm64",
    407     "base" : 4393549824,
    408     "size" : 622592,
    409     "uuid" : "05ddaab9-9d7f-3317-a3c4-5e9936fe3ceb",
    410     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/mtrand.cpython-311-darwin.so",
    411     "name" : "mtrand.cpython-311-darwin.so"
    412   },
    413   {
    414     "source" : "P",
    415     "arch" : "arm64",
    416     "base" : 4392026112,
    417     "size" : 147456,
    418     "uuid" : "377e255e-f9a4-3173-8265-a899000c5d0f",
    419     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/bit_generator.cpython-311-darwin.so",
    420     "name" : "bit_generator.cpython-311-darwin.so"
    421   },
    422   {
    423     "source" : "P",
    424     "arch" : "arm64",
    425     "base" : 4379377664,
    426     "size" : 196608,
    427     "uuid" : "8590d52a-d755-3ffd-8f68-f9cb638359fc",
    428     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_common.cpython-311-darwin.so",
    429     "name" : "_common.cpython-311-darwin.so"
    430   },
    431   {
    432     "source" : "P",
    433     "arch" : "arm64",
    434     "base" : 4392255488,
    435     "size" : 32768,
    436     "uuid" : "322b4be7-35a8-331a-a549-7a0297d9dd70",
    437     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_hashlib.cpython-311-darwin.so",
    438     "name" : "_hashlib.cpython-311-darwin.so"
    439   },
    440   {
    441     "source" : "P",
    442     "arch" : "arm64",
    443     "base" : 4471685120,
    444     "size" : 1687552,
    445     "uuid" : "59149ee6-b873-3c5d-8fed-d11966210295",
    446     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/libcrypto.1.1.dylib",
    447     "name" : "libcrypto.1.1.dylib"
    448   },
    449   {
    450     "source" : "P",
    451     "arch" : "arm64",
    452     "base" : 4392370176,
    453     "size" : 32768,
    454     "uuid" : "3206e248-2c9b-345c-98ac-8f9dfc6d639b",
    455     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_blake2.cpython-311-darwin.so",
    456     "name" : "_blake2.cpython-311-darwin.so"
    457   },
    458   {
    459     "source" : "P",
    460     "arch" : "arm64",
    461     "base" : 4394287104,
    462     "size" : 311296,
    463     "uuid" : "0033ea49-a161-3564-b09e-6a6c3b902698",
    464     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_bounded_integers.cpython-311-darwin.so",
    465     "name" : "_bounded_integers.cpython-311-darwin.so"
    466   },
    467   {
    468     "source" : "P",
    469     "arch" : "arm64",
    470     "base" : 4379656192,
    471     "size" : 65536,
    472     "uuid" : "7dab4595-a351-3061-861b-c426baee85b3",
    473     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_mt19937.cpython-311-darwin.so",
    474     "name" : "_mt19937.cpython-311-darwin.so"
    475   },
    476   {
    477     "source" : "P",
    478     "arch" : "arm64",
    479     "base" : 4392763392,
    480     "size" : 65536,
    481     "uuid" : "d3035eea-ed0e-398a-afbe-f9a8016701db",
    482     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_philox.cpython-311-darwin.so",
    483     "name" : "_philox.cpython-311-darwin.so"
    484   },
    485   {
    486     "source" : "P",
    487     "arch" : "arm64",
    488     "base" : 4392468480,
    489     "size" : 81920,
    490     "uuid" : "35fb9307-f991-3159-86db-21f6c67b9198",
    491     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_pcg64.cpython-311-darwin.so",
    492     "name" : "_pcg64.cpython-311-darwin.so"
    493   },
    494   {
    495     "source" : "P",
    496     "arch" : "arm64",
    497     "base" : 4392632320,
    498     "size" : 49152,
    499     "uuid" : "17a4344b-3221-36c4-9019-53cc1223e124",
    500     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_sfc64.cpython-311-darwin.so",
    501     "name" : "_sfc64.cpython-311-darwin.so"
    502   },
    503   {
    504     "source" : "P",
    505     "arch" : "arm64",
    506     "base" : 4394680320,
    507     "size" : 737280,
    508     "uuid" : "49451e8a-e3c8-3429-83d8-249e81e378cd",
    509     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/numpy\/random\/_generator.cpython-311-darwin.so",
    510     "name" : "_generator.cpython-311-darwin.so"
    511   },
    512   {
    513     "source" : "P",
    514     "arch" : "arm64",
    515     "base" : 4375642112,
    516     "size" : 16384,
    517     "uuid" : "5973ec29-8c62-3285-97ee-5797aef28b1c",
    518     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_opcode.cpython-311-darwin.so",
    519     "name" : "_opcode.cpython-311-darwin.so"
    520   },
    521   {
    522     "source" : "P",
    523     "arch" : "arm64",
    524     "base" : 4395532288,
    525     "size" : 114688,
    526     "uuid" : "af1d1557-4982-31c1-ab8f-e757042d2b31",
    527     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/geometry\/_geometry.cpython-311-darwin.so",
    528     "name" : "_geometry.cpython-311-darwin.so"
    529   },
    530   {
    531     "source" : "P",
    532     "arch" : "arm64",
    533     "base" : 4379803648,
    534     "size" : 32768,
    535     "uuid" : "0722922a-a378-3dee-b11b-96d1ae381b09",
    536     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_json.cpython-311-darwin.so",
    537     "name" : "_json.cpython-311-darwin.so"
    538   },
    539   {
    540     "source" : "P",
    541     "arch" : "arm64",
    542     "base" : 4484661248,
    543     "size" : 1769472,
    544     "uuid" : "96b797fa-3120-323b-9d82-a251f6e48226",
    545     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtCore.abi3.so",
    546     "name" : "QtCore.abi3.so"
    547   },
    548   {
    549     "source" : "P",
    550     "arch" : "arm64",
    551     "base" : 4477157376,
    552     "size" : 4603904,
    553     "uuid" : "5e316915-192d-32ae-b085-7c0986279324",
    554     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtCore.framework\/Versions\/A\/QtCore",
    555     "name" : "QtCore"
    556   },
    557   {
    558     "source" : "P",
    559     "arch" : "arm64",
    560     "base" : 4393238528,
    561     "size" : 81920,
    562     "uuid" : "039b5788-14d5-3758-a055-c3275cdca941",
    563     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/sip.cpython-311-darwin.so",
    564     "name" : "sip.cpython-311-darwin.so"
    565   },
    566   {
    567     "source" : "P",
    568     "arch" : "arm64e",
    569     "base" : 4395761664,
    570     "CFBundleShortVersionString" : "3.0",
    571     "CFBundleIdentifier" : "com.apple.security.csparser",
    572     "size" : 131072,
    573     "uuid" : "d1bf6d5b-c8de-312f-9824-84235e14da6d",
    574     "path" : "\/System\/Library\/Frameworks\/Security.framework\/Versions\/A\/PlugIns\/csparser.bundle\/Contents\/MacOS\/csparser",
    575     "name" : "csparser",
    576     "CFBundleVersion" : "60420.140.26.704.2"
    577   },
    578   {
    579     "source" : "P",
    580     "arch" : "arm64",
    581     "base" : 5084430336,
    582     "size" : 3080192,
    583     "uuid" : "ac9bb37f-d5ad-31aa-8307-d081879d1aef",
    584     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWidgets.abi3.so",
    585     "name" : "QtWidgets.abi3.so"
    586   },
    587   {
    588     "source" : "P",
    589     "arch" : "arm64",
    590     "base" : 4815060992,
    591     "size" : 4620288,
    592     "uuid" : "6b195f36-d220-34c8-afd3-7caa96572118",
    593     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWidgets.framework\/Versions\/A\/QtWidgets",
    594     "name" : "QtWidgets"
    595   },
    596   {
    597     "source" : "P",
    598     "arch" : "arm64",
    599     "base" : 5072011264,
    600     "size" : 6635520,
    601     "uuid" : "3efe39e7-026f-3417-94b4-be4f2ec95e51",
    602     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtGui.framework\/Versions\/A\/QtGui",
    603     "name" : "QtGui"
    604   },
    605   {
    606     "source" : "P",
    607     "arch" : "arm64",
    608     "base" : 4483710976,
    609     "size" : 524288,
    610     "uuid" : "d5cb7913-29ba-3362-8f22-91b25e5f4250",
    611     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtDBus.framework\/Versions\/A\/QtDBus",
    612     "name" : "QtDBus"
    613   },
    614   {
    615     "source" : "P",
    616     "arch" : "arm64",
    617     "base" : 4549984256,
    618     "size" : 1572864,
    619     "uuid" : "2d40a77e-ea0d-33d8-8ddb-9615990e83a8",
    620     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtGui.abi3.so",
    621     "name" : "QtGui.abi3.so"
    622   },
    623   {
    624     "source" : "P",
    625     "arch" : "arm64",
    626     "base" : 4471472128,
    627     "size" : 65536,
    628     "uuid" : "f9ba94a8-7757-3733-870c-e667c5a1eac6",
    629     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWebEngineWidgets.abi3.so",
    630     "name" : "QtWebEngineWidgets.abi3.so"
    631   },
    632   {
    633     "source" : "P",
    634     "arch" : "arm64",
    635     "base" : 4471128064,
    636     "size" : 98304,
    637     "uuid" : "9a009330-7967-389a-9d24-401c184a66b8",
    638     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWebEngineWidgets.framework\/Versions\/A\/QtWebEngineWidgets",
    639     "name" : "QtWebEngineWidgets"
    640   },
    641   {
    642     "source" : "P",
    643     "arch" : "arm64",
    644     "base" : 4488445952,
    645     "size" : 278528,
    646     "uuid" : "22cc3ad5-b1ab-349a-aab1-007383dfd9e1",
    647     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtPrintSupport.framework\/Versions\/A\/QtPrintSupport",
    648     "name" : "QtPrintSupport"
    649   },
    650   {
    651     "source" : "P",
    652     "arch" : "arm64",
    653     "base" : 6107889664,
    654     "size" : 173883392,
    655     "uuid" : "309d9313-74e8-3f16-8acc-0f13b36d8e00",
    656     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWebEngineCore.framework\/Versions\/A\/QtWebEngineCore",
    657     "name" : "QtWebEngineCore"
    658   },
    659   {
    660     "source" : "P",
    661     "arch" : "arm64",
    662     "base" : 5090754560,
    663     "size" : 4063232,
    664     "uuid" : "6b8269f9-29eb-32c3-b658-8981c8718100",
    665     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQuick.framework\/Versions\/A\/QtQuick",
    666     "name" : "QtQuick"
    667   },
    668   {
    669     "source" : "P",
    670     "arch" : "arm64",
    671     "base" : 4491051008,
    672     "size" : 409600,
    673     "uuid" : "47c5e5aa-3706-361b-8fc9-63a272e0f6ec",
    674     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtOpenGL.framework\/Versions\/A\/QtOpenGL",
    675     "name" : "QtOpenGL"
    676   },
    677   {
    678     "source" : "P",
    679     "arch" : "arm64",
    680     "base" : 5083496448,
    681     "size" : 540672,
    682     "uuid" : "4b1fc39b-ed97-3be9-8399-c5e13b22612d",
    683     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQmlModels.framework\/Versions\/A\/QtQmlModels",
    684     "name" : "QtQmlModels"
    685   },
    686   {
    687     "source" : "P",
    688     "arch" : "arm64",
    689     "base" : 4484399104,
    690     "size" : 163840,
    691     "uuid" : "2a9f4886-f5c7-3296-b65b-c4fdba19ccdc",
    692     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtWebChannel.framework\/Versions\/A\/QtWebChannel",
    693     "name" : "QtWebChannel"
    694   },
    695   {
    696     "source" : "P",
    697     "arch" : "arm64",
    698     "base" : 5255708672,
    699     "size" : 3784704,
    700     "uuid" : "1fbd4770-8846-37d4-983b-fad2a999afea",
    701     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQml.framework\/Versions\/A\/QtQml",
    702     "name" : "QtQml"
    703   },
    704   {
    705     "source" : "P",
    706     "arch" : "arm64",
    707     "base" : 5245911040,
    708     "size" : 1196032,
    709     "uuid" : "c733a080-e019-3fcd-8938-ba01bb37c481",
    710     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtNetwork.framework\/Versions\/A\/QtNetwork",
    711     "name" : "QtNetwork"
    712   },
    713   {
    714     "source" : "P",
    715     "arch" : "arm64",
    716     "base" : 4554358784,
    717     "size" : 442368,
    718     "uuid" : "da5588b2-40af-38bc-911f-17891298ddbf",
    719     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtPositioning.framework\/Versions\/A\/QtPositioning",
    720     "name" : "QtPositioning"
    721   },
    722   {
    723     "source" : "P",
    724     "arch" : "arm64",
    725     "base" : 4491673600,
    726     "size" : 81920,
    727     "uuid" : "5307f882-fbe3-3ab9-8a5d-b5c5f2c24784",
    728     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtQuickWidgets.framework\/Versions\/A\/QtQuickWidgets",
    729     "name" : "QtQuickWidgets"
    730   },
    731   {
    732     "source" : "P",
    733     "arch" : "arm64",
    734     "base" : 5098668032,
    735     "size" : 507904,
    736     "uuid" : "f816cdd7-ea60-3006-b798-7a4807a11088",
    737     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtNetwork.abi3.so",
    738     "name" : "QtNetwork.abi3.so"
    739   },
    740   {
    741     "source" : "P",
    742     "arch" : "arm64",
    743     "base" : 5079924736,
    744     "size" : 163840,
    745     "uuid" : "095c1d58-dfc9-30a4-87af-1eff15158ef2",
    746     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtPrintSupport.abi3.so",
    747     "name" : "QtPrintSupport.abi3.so"
    748   },
    749   {
    750     "source" : "P",
    751     "arch" : "arm64",
    752     "base" : 4471357440,
    753     "size" : 32768,
    754     "uuid" : "a6f65afe-0ffb-3b51-9a3f-4970263023c3",
    755     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWebChannel.abi3.so",
    756     "name" : "QtWebChannel.abi3.so"
    757   },
    758   {
    759     "source" : "P",
    760     "arch" : "arm64",
    761     "base" : 5097684992,
    762     "size" : 245760,
    763     "uuid" : "a2e04b1b-3dff-365f-b33a-bc4e51cd97e8",
    764     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtWebEngineCore.abi3.so",
    765     "name" : "QtWebEngineCore.abi3.so"
    766   },
    767   {
    768     "source" : "P",
    769     "arch" : "arm64",
    770     "base" : 5096374272,
    771     "size" : 655360,
    772     "uuid" : "fab03cd7-ccd1-33ab-bc97-91ce7e4911a2",
    773     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/platforms\/libqcocoa.dylib",
    774     "name" : "libqcocoa.dylib"
    775   },
    776   {
    777     "source" : "P",
    778     "arch" : "arm64e",
    779     "base" : 5278793728,
    780     "CFBundleShortVersionString" : "1.0",
    781     "CFBundleIdentifier" : "com.apple.AppleMetalOpenGLRenderer",
    782     "size" : 442368,
    783     "uuid" : "49868112-30c6-37ae-9907-6e5bb4d6a8b6",
    784     "path" : "\/System\/Library\/Extensions\/AppleMetalOpenGLRenderer.bundle\/Contents\/MacOS\/AppleMetalOpenGLRenderer",
    785     "name" : "AppleMetalOpenGLRenderer",
    786     "CFBundleVersion" : "1"
    787   },
    788   {
    789     "source" : "P",
    790     "arch" : "arm64",
    791     "base" : 5255380992,
    792     "size" : 147456,
    793     "uuid" : "f4a72a04-0d1a-3821-9bf6-2c55ef9c6f62",
    794     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/styles\/libqmacstyle.dylib",
    795     "name" : "libqmacstyle.dylib"
    796   },
    797   {
    798     "source" : "P",
    799     "arch" : "arm64",
    800     "base" : 5260492800,
    801     "size" : 16384,
    802     "uuid" : "157e3710-caca-35b5-9fda-d1c4efc75429",
    803     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_heapq.cpython-311-darwin.so",
    804     "name" : "_heapq.cpython-311-darwin.so"
    805   },
    806   {
    807     "source" : "P",
    808     "arch" : "arm64",
    809     "base" : 5260328960,
    810     "size" : 65536,
    811     "uuid" : "ff7c6b72-2303-3d40-a4fa-f3d840425be2",
    812     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_socket.cpython-311-darwin.so",
    813     "name" : "_socket.cpython-311-darwin.so"
    814   },
    815   {
    816     "source" : "P",
    817     "arch" : "arm64",
    818     "base" : 5260574720,
    819     "size" : 49152,
    820     "uuid" : "0895ead1-fff8-3401-9c5c-5c4254ce969b",
    821     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/array.cpython-311-darwin.so",
    822     "name" : "array.cpython-311-darwin.so"
    823   },
    824   {
    825     "source" : "P",
    826     "arch" : "arm64",
    827     "base" : 5277958144,
    828     "size" : 98304,
    829     "uuid" : "5c15959b-b36d-32f8-80b0-b0558dbb9fcc",
    830     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_ssl.cpython-311-darwin.so",
    831     "name" : "_ssl.cpython-311-darwin.so"
    832   },
    833   {
    834     "source" : "P",
    835     "arch" : "arm64",
    836     "base" : 5278187520,
    837     "size" : 344064,
    838     "uuid" : "edcc52bf-058b-3550-8a40-7e432a5ee6bb",
    839     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/libssl.1.1.dylib",
    840     "name" : "libssl.1.1.dylib"
    841   },
    842   {
    843     "source" : "P",
    844     "arch" : "arm64",
    845     "base" : 5277777920,
    846     "size" : 49152,
    847     "uuid" : "651053b2-7ecc-3ea1-9b86-d9e6abfd212c",
    848     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_asyncio.cpython-311-darwin.so",
    849     "name" : "_asyncio.cpython-311-darwin.so"
    850   },
    851   {
    852     "source" : "P",
    853     "arch" : "arm64",
    854     "base" : 5277679616,
    855     "size" : 16384,
    856     "uuid" : "d1ab66f9-4e1b-33ed-9f42-c0b8da85176d",
    857     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/_load_libs.cpython-311-darwin.so",
    858     "name" : "_load_libs.cpython-311-darwin.so"
    859   },
    860   {
    861     "source" : "P",
    862     "arch" : "arm64",
    863     "base" : 5304270848,
    864     "size" : 1114112,
    865     "uuid" : "53b26948-66e6-3561-982a-bf81ea781c85",
    866     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/lib\/libatomstruct.dylib",
    867     "name" : "libatomstruct.dylib"
    868   },
    869   {
    870     "source" : "P",
    871     "arch" : "arm64",
    872     "base" : 5277499392,
    873     "size" : 32768,
    874     "uuid" : "84cdb79d-2ae7-34a7-b16e-9fb329a85f3b",
    875     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/lib\/libelement.dylib",
    876     "name" : "libelement.dylib"
    877   },
    878   {
    879     "source" : "P",
    880     "arch" : "arm64",
    881     "base" : 5295865856,
    882     "size" : 16384,
    883     "uuid" : "c1972023-5d8e-34f3-86d6-1ff9eb40e53c",
    884     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic_lib\/lib\/libpyinstance.dylib",
    885     "name" : "libpyinstance.dylib"
    886   },
    887   {
    888     "source" : "P",
    889     "arch" : "arm64",
    890     "base" : 5302550528,
    891     "size" : 180224,
    892     "uuid" : "61648853-65ec-36d8-b740-28ff2b9a73bd",
    893     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/libmolc.dylib",
    894     "name" : "libmolc.dylib"
    895   },
    896   {
    897     "source" : "P",
    898     "arch" : "arm64",
    899     "base" : 5301600256,
    900     "size" : 425984,
    901     "uuid" : "7d78f51d-a55e-3e6f-9176-00bfae4106a0",
    902     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/cymol.cpython-311-darwin.so",
    903     "name" : "cymol.cpython-311-darwin.so"
    904   },
    905   {
    906     "source" : "P",
    907     "arch" : "arm64",
    908     "base" : 5295947776,
    909     "size" : 98304,
    910     "uuid" : "12f930bf-d331-3ae7-88cb-fbf14c2f66f7",
    911     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/tinyarray.cpython-311-darwin.so",
    912     "name" : "tinyarray.cpython-311-darwin.so"
    913   },
    914   {
    915     "source" : "P",
    916     "arch" : "arm64",
    917     "base" : 5295685632,
    918     "size" : 49152,
    919     "uuid" : "fbc563dc-cb14-3b04-bd2d-071509b4cbb0",
    920     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/cytmpl.cpython-311-darwin.so",
    921     "name" : "cytmpl.cpython-311-darwin.so"
    922   },
    923   {
    924     "source" : "P",
    925     "arch" : "arm64",
    926     "base" : 5307088896,
    927     "size" : 409600,
    928     "uuid" : "32de1d9a-e106-35cd-88a8-1cef9e0dbcd6",
    929     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/map\/_map.cpython-311-darwin.so",
    930     "name" : "_map.cpython-311-darwin.so"
    931   },
    932   {
    933     "source" : "P",
    934     "arch" : "arm64",
    935     "base" : 5302272000,
    936     "size" : 16384,
    937     "uuid" : "cd5f3f7c-54a3-322d-a180-6c7b94deed82",
    938     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_scproxy.cpython-311-darwin.so",
    939     "name" : "_scproxy.cpython-311-darwin.so"
    940   },
    941   {
    942     "source" : "P",
    943     "arch" : "arm64",
    944     "base" : 5302353920,
    945     "size" : 16384,
    946     "uuid" : "b3287e1f-ce2c-3c6f-bc12-deb15c14593c",
    947     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_queue.cpython-311-darwin.so",
    948     "name" : "_queue.cpython-311-darwin.so"
    949   },
    950   {
    951     "source" : "P",
    952     "arch" : "arm64",
    953     "base" : 5296193536,
    954     "size" : 32768,
    955     "uuid" : "d197680c-26b9-3292-85bc-f61af0ff34bb",
    956     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_csv.cpython-311-darwin.so",
    957     "name" : "_csv.cpython-311-darwin.so"
    958   },
    959   {
    960     "source" : "P",
    961     "arch" : "arm64",
    962     "base" : 5302435840,
    963     "size" : 16384,
    964     "uuid" : "1033546a-393e-3cec-89ae-4ad3d9019e81",
    965     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/charset_normalizer\/md.cpython-311-darwin.so",
    966     "name" : "md.cpython-311-darwin.so"
    967   },
    968   {
    969     "source" : "P",
    970     "arch" : "arm64",
    971     "base" : 5312610304,
    972     "size" : 147456,
    973     "uuid" : "97b6add7-b8ac-37d0-9675-bb372fc61e08",
    974     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/charset_normalizer\/md__mypyc.cpython-311-darwin.so",
    975     "name" : "md__mypyc.cpython-311-darwin.so"
    976   },
    977   {
    978     "source" : "P",
    979     "arch" : "arm64",
    980     "base" : 5316313088,
    981     "size" : 1114112,
    982     "uuid" : "5200c6a0-ccdb-3607-9947-1defdd6fb647",
    983     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/unicodedata.cpython-311-darwin.so",
    984     "name" : "unicodedata.cpython-311-darwin.so"
    985   },
    986   {
    987     "source" : "P",
    988     "arch" : "arm64",
    989     "base" : 5307695104,
    990     "size" : 32768,
    991     "uuid" : "7503f11a-978c-3a80-b5da-ab207a441c5e",
    992     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_multibytecodec.cpython-311-darwin.so",
    993     "name" : "_multibytecodec.cpython-311-darwin.so"
    994   },
    995   {
    996     "source" : "P",
    997     "arch" : "arm64",
    998     "base" : 5307809792,
    999     "size" : 16384,
    1000     "uuid" : "8eb0c267-c007-3e24-9604-1f0a78868795",
    1001     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_uuid.cpython-311-darwin.so",
    1002     "name" : "_uuid.cpython-311-darwin.so"
    1003   },
    1004   {
    1005     "source" : "P",
    1006     "arch" : "arm64",
    1007     "base" : 5312086016,
    1008     "size" : 262144,
    1009     "uuid" : "f2c706bd-a2c4-39ce-b4c0-048c01ea0eca",
    1010     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_decimal.cpython-311-darwin.so",
    1011     "name" : "_decimal.cpython-311-darwin.so"
    1012   },
    1013   {
    1014     "source" : "P",
    1015     "arch" : "arm64",
    1016     "base" : 5318672384,
    1017     "size" : 376832,
    1018     "uuid" : "449dd33a-e724-335b-9ef9-bf9b2730bf05",
    1019     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/_imaging.cpython-311-darwin.so",
    1020     "name" : "_imaging.cpython-311-darwin.so"
    1021   },
    1022   {
    1023     "source" : "P",
    1024     "arch" : "arm64",
    1025     "base" : 5317509120,
    1026     "size" : 688128,
    1027     "uuid" : "d800b974-86b2-386e-be4e-8ac8e22fd3cd",
    1028     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libtiff.6.dylib",
    1029     "name" : "libtiff.6.dylib"
    1030   },
    1031   {
    1032     "source" : "P",
    1033     "arch" : "arm64",
    1034     "base" : 5320638464,
    1035     "size" : 540672,
    1036     "uuid" : "dbec2c14-6e39-3319-a2c0-3606ed70093e",
    1037     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libjpeg.62.4.0.dylib",
    1038     "name" : "libjpeg.62.4.0.dylib"
    1039   },
    1040   {
    1041     "source" : "P",
    1042     "arch" : "arm64",
    1043     "base" : 5321293824,
    1044     "size" : 606208,
    1045     "uuid" : "78bac0b1-a0df-3e6e-b906-cbc961cdb354",
    1046     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libopenjp2.2.5.2.dylib",
    1047     "name" : "libopenjp2.2.5.2.dylib"
    1048   },
    1049   {
    1050     "source" : "P",
    1051     "arch" : "arm64",
    1052     "base" : 5304041472,
    1053     "size" : 114688,
    1054     "uuid" : "6e171b67-e226-3c3e-bc7c-5bd522f28494",
    1055     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libz.1.3.1.dylib",
    1056     "name" : "libz.1.3.1.dylib"
    1057   },
    1058   {
    1059     "source" : "P",
    1060     "arch" : "arm64",
    1061     "base" : 5318328320,
    1062     "size" : 163840,
    1063     "uuid" : "8c16ecf4-eb91-3dbb-8543-fe43fcd625a5",
    1064     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libxcb.1.1.0.dylib",
    1065     "name" : "libxcb.1.1.0.dylib"
    1066   },
    1067   {
    1068     "source" : "P",
    1069     "arch" : "arm64",
    1070     "base" : 5319901184,
    1071     "size" : 262144,
    1072     "uuid" : "37441cb2-0945-3607-9e47-10990b396b4c",
    1073     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/liblzma.5.dylib",
    1074     "name" : "liblzma.5.dylib"
    1075   },
    1076   {
    1077     "source" : "P",
    1078     "arch" : "arm64",
    1079     "base" : 5312479232,
    1080     "size" : 16384,
    1081     "uuid" : "9ee33d4a-150e-3574-9258-2061bb970c27",
    1082     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/.dylibs\/libXau.6.0.0.dylib",
    1083     "name" : "libXau.6.0.0.dylib"
    1084   },
    1085   {
    1086     "source" : "P",
    1087     "arch" : "arm64",
    1088     "base" : 5314084864,
    1089     "size" : 16384,
    1090     "uuid" : "10cb0192-6e54-3232-ba83-11bac176e9df",
    1091     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/termios.cpython-311-darwin.so",
    1092     "name" : "termios.cpython-311-darwin.so"
    1093   },
    1094   {
    1095     "source" : "P",
    1096     "arch" : "arm64",
    1097     "base" : 5319606272,
    1098     "size" : 81920,
    1099     "uuid" : "8fddd516-f019-3f18-a8d7-1e8f187c0b62",
    1100     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/_c_internal_utils.cpython-311-darwin.so",
    1101     "name" : "_c_internal_utils.cpython-311-darwin.so"
    1102   },
    1103   {
    1104     "source" : "P",
    1105     "arch" : "arm64",
    1106     "base" : 5319229440,
    1107     "size" : 212992,
    1108     "uuid" : "3f83baa6-2f1a-3b75-82dd-124cf0b58e99",
    1109     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/_path.cpython-311-darwin.so",
    1110     "name" : "_path.cpython-311-darwin.so"
    1111   },
    1112   {
    1113     "source" : "P",
    1114     "arch" : "arm64",
    1115     "base" : 5333565440,
    1116     "size" : 589824,
    1117     "uuid" : "9ac66732-0f4f-3bc5-933a-a81e408776fc",
    1118     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/ft2font.cpython-311-darwin.so",
    1119     "name" : "ft2font.cpython-311-darwin.so"
    1120   },
    1121   {
    1122     "source" : "P",
    1123     "arch" : "arm64",
    1124     "base" : 5320245248,
    1125     "size" : 114688,
    1126     "uuid" : "cb98e849-be4f-3629-bb70-bd39127aa907",
    1127     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/kiwisolver\/_cext.cpython-311-darwin.so",
    1128     "name" : "_cext.cpython-311-darwin.so"
    1129   },
    1130   {
    1131     "source" : "P",
    1132     "arch" : "arm64",
    1133     "base" : 5333057536,
    1134     "size" : 163840,
    1135     "uuid" : "78ab6dee-103a-31de-bb4e-ea5e9b694cb0",
    1136     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/pyexpat.cpython-311-darwin.so",
    1137     "name" : "pyexpat.cpython-311-darwin.so"
    1138   },
    1139   {
    1140     "source" : "P",
    1141     "arch" : "arm64",
    1142     "base" : 5328289792,
    1143     "size" : 229376,
    1144     "uuid" : "74604ba2-d481-3430-97e0-f41fc690a918",
    1145     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/_image.cpython-311-darwin.so",
    1146     "name" : "_image.cpython-311-darwin.so"
    1147   },
    1148   {
    1149     "source" : "P",
    1150     "arch" : "arm64",
    1151     "base" : 5313921024,
    1152     "size" : 16384,
    1153     "uuid" : "c744335a-61a0-3429-9788-36011a780828",
    1154     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb_lib\/_load_libs.cpython-311-darwin.so",
    1155     "name" : "_load_libs.cpython-311-darwin.so"
    1156   },
    1157   {
    1158     "source" : "P",
    1159     "arch" : "arm64",
    1160     "base" : 5319786496,
    1161     "size" : 32768,
    1162     "uuid" : "4880efb8-6354-3012-9b92-a07d26209492",
    1163     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb_lib\/lib\/libpdbconnect.dylib",
    1164     "name" : "libpdbconnect.dylib"
    1165   },
    1166   {
    1167     "source" : "P",
    1168     "arch" : "arm64",
    1169     "base" : 5339086848,
    1170     "size" : 147456,
    1171     "uuid" : "9540919f-e960-3dd7-a464-8e3be0a0f8e0",
    1172     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/surface\/_surface.cpython-311-darwin.so",
    1173     "name" : "_surface.cpython-311-darwin.so"
    1174   },
    1175   {
    1176     "source" : "P",
    1177     "arch" : "arm64",
    1178     "base" : 5320491008,
    1179     "size" : 49152,
    1180     "uuid" : "4c5d42bf-4e9d-3c59-bf2e-303deda3aeb2",
    1181     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/errorchecker.cpython-311-darwin.so",
    1182     "name" : "errorchecker.cpython-311-darwin.so"
    1183   },
    1184   {
    1185     "source" : "P",
    1186     "arch" : "arm64",
    1187     "base" : 5338497024,
    1188     "size" : 196608,
    1189     "uuid" : "c4b0c9bc-a01b-3cf7-b16b-77f9b13b6cd9",
    1190     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/arraydatatype.cpython-311-darwin.so",
    1191     "name" : "arraydatatype.cpython-311-darwin.so"
    1192   },
    1193   {
    1194     "source" : "P",
    1195     "arch" : "arm64",
    1196     "base" : 5349539840,
    1197     "size" : 229376,
    1198     "uuid" : "33919aef-b02e-386a-8f81-a661fe002ddc",
    1199     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/wrapper.cpython-311-darwin.so",
    1200     "name" : "wrapper.cpython-311-darwin.so"
    1201   },
    1202   {
    1203     "source" : "P",
    1204     "arch" : "arm64",
    1205     "base" : 5328650240,
    1206     "size" : 65536,
    1207     "uuid" : "d9a192eb-4bf9-362f-99d4-f6bc1e368b01",
    1208     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/formathandler.cpython-311-darwin.so",
    1209     "name" : "formathandler.cpython-311-darwin.so"
    1210   },
    1211   {
    1212     "source" : "P",
    1213     "arch" : "arm64",
    1214     "base" : 5333336064,
    1215     "size" : 49152,
    1216     "uuid" : "38eab131-624a-32cf-8d4e-374bca53e017",
    1217     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/latebind.cpython-311-darwin.so",
    1218     "name" : "latebind.cpython-311-darwin.so"
    1219   },
    1220   {
    1221     "source" : "P",
    1222     "arch" : "arm64",
    1223     "base" : 5338824704,
    1224     "size" : 131072,
    1225     "uuid" : "3ef700f1-b0ef-333f-8291-6877887bedaa",
    1226     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/vbo.cpython-311-darwin.so",
    1227     "name" : "vbo.cpython-311-darwin.so"
    1228   },
    1229   {
    1230     "source" : "P",
    1231     "arch" : "arm64",
    1232     "base" : 5333467136,
    1233     "size" : 32768,
    1234     "uuid" : "8d31db78-2ab7-3822-aba7-563348c79c50",
    1235     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqgif.dylib",
    1236     "name" : "libqgif.dylib"
    1237   },
    1238   {
    1239     "source" : "P",
    1240     "arch" : "arm64",
    1241     "base" : 5349441536,
    1242     "size" : 32768,
    1243     "uuid" : "22c65698-3eb0-39bd-8bf5-5aaadf3bd9f2",
    1244     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqwbmp.dylib",
    1245     "name" : "libqwbmp.dylib"
    1246   },
    1247   {
    1248     "source" : "P",
    1249     "arch" : "arm64",
    1250     "base" : 5427609600,
    1251     "size" : 442368,
    1252     "uuid" : "7c98e1e6-dd90-36a2-bfd3-a3103c39fd9b",
    1253     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqwebp.dylib",
    1254     "name" : "libqwebp.dylib"
    1255   },
    1256   {
    1257     "source" : "P",
    1258     "arch" : "arm64",
    1259     "base" : 5351817216,
    1260     "size" : 32768,
    1261     "uuid" : "a9183dd9-e1b4-3965-9435-807451ca1b18",
    1262     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqico.dylib",
    1263     "name" : "libqico.dylib"
    1264   },
    1265   {
    1266     "source" : "P",
    1267     "arch" : "arm64",
    1268     "base" : 5426593792,
    1269     "size" : 32768,
    1270     "uuid" : "c83b2c9f-0456-339b-831c-a6b5ce376d0e",
    1271     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqmacheif.dylib",
    1272     "name" : "libqmacheif.dylib"
    1273   },
    1274   {
    1275     "source" : "P",
    1276     "arch" : "arm64",
    1277     "base" : 5426692096,
    1278     "size" : 425984,
    1279     "uuid" : "3a31c2cb-a63c-3143-ab9a-2a656704ea01",
    1280     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqjpeg.dylib",
    1281     "name" : "libqjpeg.dylib"
    1282   },
    1283   {
    1284     "source" : "P",
    1285     "arch" : "arm64",
    1286     "base" : 5429149696,
    1287     "size" : 393216,
    1288     "uuid" : "c9dba68f-5403-31e3-8f56-810ebbe9e9e9",
    1289     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqtiff.dylib",
    1290     "name" : "libqtiff.dylib"
    1291   },
    1292   {
    1293     "source" : "P",
    1294     "arch" : "arm64",
    1295     "base" : 5427200000,
    1296     "size" : 32768,
    1297     "uuid" : "7f110607-7426-3513-90c8-2dba39d2af55",
    1298     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqsvg.dylib",
    1299     "name" : "libqsvg.dylib"
    1300   },
    1301   {
    1302     "source" : "P",
    1303     "arch" : "arm64",
    1304     "base" : 5429624832,
    1305     "size" : 311296,
    1306     "uuid" : "02114ea2-50c1-37b9-93ed-521c1a24dfce",
    1307     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtSvg.framework\/Versions\/A\/QtSvg",
    1308     "name" : "QtSvg"
    1309   },
    1310   {
    1311     "source" : "P",
    1312     "arch" : "arm64",
    1313     "base" : 5427298304,
    1314     "size" : 32768,
    1315     "uuid" : "1046822e-ff07-35c9-b66d-f77cd27ce910",
    1316     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqpdf.dylib",
    1317     "name" : "libqpdf.dylib"
    1318   },
    1319   {
    1320     "source" : "P",
    1321     "arch" : "arm64",
    1322     "base" : 5448204288,
    1323     "size" : 8175616,
    1324     "uuid" : "40798962-c2d9-31a8-9401-e18da232af20",
    1325     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtPdf.framework\/Versions\/A\/QtPdf",
    1326     "name" : "QtPdf"
    1327   },
    1328   {
    1329     "source" : "P",
    1330     "arch" : "arm64",
    1331     "base" : 5426380800,
    1332     "size" : 32768,
    1333     "uuid" : "21777c49-4a6a-3e5b-8525-85f4d3d90644",
    1334     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqicns.dylib",
    1335     "name" : "libqicns.dylib"
    1336   },
    1337   {
    1338     "source" : "P",
    1339     "arch" : "arm64",
    1340     "base" : 5426479104,
    1341     "size" : 32768,
    1342     "uuid" : "04182ebf-3ae6-32e2-a430-a1fcac4f4bfd",
    1343     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqtga.dylib",
    1344     "name" : "libqtga.dylib"
    1345   },
    1346   {
    1347     "source" : "P",
    1348     "arch" : "arm64",
    1349     "base" : 5428133888,
    1350     "size" : 32768,
    1351     "uuid" : "8659aa4e-a5dd-30ef-9dcb-66fb8dff410e",
    1352     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqmacjp2.dylib",
    1353     "name" : "libqmacjp2.dylib"
    1354   },
    1355   {
    1356     "source" : "P",
    1357     "arch" : "arm64e",
    1358     "base" : 5314002944,
    1359     "size" : 49152,
    1360     "uuid" : "4daa2f71-4c51-3179-9c85-34a3e49c7fc0",
    1361     "path" : "\/usr\/lib\/libobjc-trampolines.dylib",
    1362     "name" : "libobjc-trampolines.dylib"
    1363   },
    1364   {
    1365     "source" : "P",
    1366     "arch" : "arm64",
    1367     "base" : 5428232192,
    1368     "size" : 16384,
    1369     "uuid" : "f32b33dd-7a90-33ee-8137-4f8d18ea925d",
    1370     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/core\/_mac_util.cpython-311-darwin.so",
    1371     "name" : "_mac_util.cpython-311-darwin.so"
    1372   },
    1373   {
    1374     "source" : "P",
    1375     "arch" : "arm64",
    1376     "base" : 5502484480,
    1377     "size" : 49152,
    1378     "uuid" : "94921430-81c9-39ce-b5ef-78d1a90b407d",
    1379     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/iconengines\/libqsvgicon.dylib",
    1380     "name" : "libqsvgicon.dylib"
    1381   },
    1382   {
    1383     "source" : "P",
    1384     "arch" : "arm64",
    1385     "base" : 5502402560,
    1386     "size" : 16384,
    1387     "uuid" : "c37482c0-7aab-3517-b3ef-3bd2294eab02",
    1388     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_multiprocessing.cpython-311-darwin.so",
    1389     "name" : "_multiprocessing.cpython-311-darwin.so"
    1390   },
    1391   {
    1392     "source" : "P",
    1393     "arch" : "arm64",
    1394     "base" : 5502599168,
    1395     "size" : 16384,
    1396     "uuid" : "8adb9cd8-9a20-315f-9e59-70cbd8d6a9ed",
    1397     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_posixshmem.cpython-311-darwin.so",
    1398     "name" : "_posixshmem.cpython-311-darwin.so"
    1399   },
    1400   {
    1401     "source" : "P",
    1402     "arch" : "arm64",
    1403     "base" : 5501861888,
    1404     "size" : 81920,
    1405     "uuid" : "703104dc-b212-3b8d-9c78-4f57b3c9cb18",
    1406     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/numpy_formathandler.cpython-311-darwin.so",
    1407     "name" : "numpy_formathandler.cpython-311-darwin.so"
    1408   },
    1409   {
    1410     "source" : "P",
    1411     "arch" : "arm64",
    1412     "base" : 5502042112,
    1413     "size" : 49152,
    1414     "uuid" : "12c53516-421d-3f7a-a81e-95bcfdb8a3ff",
    1415     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/nones_formathandler.cpython-311-darwin.so",
    1416     "name" : "nones_formathandler.cpython-311-darwin.so"
    1417   },
    1418   {
    1419     "source" : "P",
    1420     "arch" : "arm64",
    1421     "base" : 6031753216,
    1422     "size" : 81920,
    1423     "uuid" : "d7bd530c-3353-37a6-b81f-ee3179d65811",
    1424     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lz4\/_version.cpython-311-darwin.so",
    1425     "name" : "_version.cpython-311-darwin.so"
    1426   },
    1427   {
    1428     "source" : "P",
    1429     "arch" : "arm64",
    1430     "base" : 6031441920,
    1431     "size" : 180224,
    1432     "uuid" : "87eed069-25fc-30f6-aa30-1e54859d92e2",
    1433     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lz4\/frame\/_frame.cpython-311-darwin.so",
    1434     "name" : "_frame.cpython-311-darwin.so"
    1435   },
    1436   {
    1437     "source" : "P",
    1438     "arch" : "arm64",
    1439     "base" : 6033817600,
    1440     "size" : 131072,
    1441     "uuid" : "c1a3c2d3-b21b-3231-839d-fcbc83ca2028",
    1442     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/core\/_serialize.cpython-311-darwin.so",
    1443     "name" : "_serialize.cpython-311-darwin.so"
    1444   },
    1445   {
    1446     "source" : "P",
    1447     "arch" : "arm64",
    1448     "base" : 6439763968,
    1449     "size" : 131072,
    1450     "uuid" : "650aead6-ce16-39bb-9ba1-4bf9986b96d6",
    1451     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/msgpack\/_cmsgpack.cpython-311-darwin.so",
    1452     "name" : "_cmsgpack.cpython-311-darwin.so"
    1453   },
    1454   {
    1455     "source" : "P",
    1456     "arch" : "arm64",
    1457     "base" : 10748608512,
    1458     "size" : 737280,
    1459     "uuid" : "cc06500d-d418-3365-b197-36b1304a819e",
    1460     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtOpenGL.abi3.so",
    1461     "name" : "QtOpenGL.abi3.so"
    1462   },
    1463   {
    1464     "source" : "P",
    1465     "arch" : "arm64",
    1466     "base" : 6031900672,
    1467     "size" : 49152,
    1468     "uuid" : "b32a8c32-a5e0-3a8b-9a0d-00a26b160215",
    1469     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtOpenGLWidgets.abi3.so",
    1470     "name" : "QtOpenGLWidgets.abi3.so"
    1471   },
    1472   {
    1473     "source" : "P",
    1474     "arch" : "arm64",
    1475     "base" : 6033571840,
    1476     "size" : 49152,
    1477     "uuid" : "cd4f396b-89fe-36fd-a488-6f5b3d4b0282",
    1478     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtOpenGLWidgets.framework\/Versions\/A\/QtOpenGLWidgets",
    1479     "name" : "QtOpenGLWidgets"
    1480   },
    1481   {
    1482     "source" : "P",
    1483     "arch" : "arm64",
    1484     "base" : 6033293312,
    1485     "size" : 81920,
    1486     "uuid" : "3133c77c-8bf7-32a3-b5db-cbfe2e50ce9d",
    1487     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/_ribbons.cpython-311-darwin.so",
    1488     "name" : "_ribbons.cpython-311-darwin.so"
    1489   },
    1490   {
    1491     "source" : "P",
    1492     "arch" : "arm64",
    1493     "base" : 6033473536,
    1494     "size" : 16384,
    1495     "uuid" : "de871a78-14f2-3e72-9bde-e4f2c7493f1b",
    1496     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/graphics\/_graphics.cpython-311-darwin.so",
    1497     "name" : "_graphics.cpython-311-darwin.so"
    1498   },
    1499   {
    1500     "source" : "P",
    1501     "arch" : "arm64",
    1502     "base" : 6440009728,
    1503     "size" : 475136,
    1504     "uuid" : "0c6e9a11-e483-3d7d-a88f-8ad0507af167",
    1505     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/mmcif\/mmcif.cpython-311-darwin.so",
    1506     "name" : "mmcif.cpython-311-darwin.so"
    1507   },
    1508   {
    1509     "source" : "P",
    1510     "arch" : "arm64",
    1511     "base" : 10756849664,
    1512     "size" : 409600,
    1513     "uuid" : "1ab8e5e2-c699-3efb-8f77-d375e3793c8f",
    1514     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/mmcif\/_mmcif.cpython-311-darwin.so",
    1515     "name" : "_mmcif.cpython-311-darwin.so"
    1516   },
    1517   {
    1518     "source" : "P",
    1519     "arch" : "arm64",
    1520     "base" : 6440681472,
    1521     "size" : 147456,
    1522     "uuid" : "1e310bc7-5f96-396b-816d-5b40a3dde12c",
    1523     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb\/_pdbio.cpython-311-darwin.so",
    1524     "name" : "_pdbio.cpython-311-darwin.so"
    1525   },
    1526   {
    1527     "source" : "P",
    1528     "arch" : "arm64",
    1529     "base" : 10969448448,
    1530     "size" : 3817472,
    1531     "uuid" : "579ef19c-6e85-36be-a566-c980f789fbc0",
    1532     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lxml\/etree.cpython-311-darwin.so",
    1533     "name" : "etree.cpython-311-darwin.so"
    1534   },
    1535   {
    1536     "source" : "P",
    1537     "arch" : "arm64",
    1538     "base" : 10751049728,
    1539     "size" : 131072,
    1540     "uuid" : "c8b24269-c8a2-3244-b044-b85c3449800d",
    1541     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lxml\/_elementpath.cpython-311-darwin.so",
    1542     "name" : "_elementpath.cpython-311-darwin.so"
    1543   },
    1544   {
    1545     "source" : "P",
    1546     "arch" : "arm64",
    1547     "base" : 5657231360,
    1548     "size" : 32768,
    1549     "uuid" : "8abbdcef-1901-3d4b-9e6b-a38214b79214",
    1550     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/_imagingmath.cpython-311-darwin.so",
    1551     "name" : "_imagingmath.cpython-311-darwin.so"
    1552   },
    1553   {
    1554     "source" : "P",
    1555     "arch" : "arm64",
    1556     "base" : 5469487104,
    1557     "size" : 16384,
    1558     "uuid" : "644b1794-90c5-3838-9ffa-b772683aeb37",
    1559     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/alignment_algs\/_sw.cpython-311-darwin.so",
    1560     "name" : "_sw.cpython-311-darwin.so"
    1561   },
    1562   {
    1563     "source" : "P",
    1564     "arch" : "arm64",
    1565     "base" : 5471010816,
    1566     "size" : 16384,
    1567     "uuid" : "02f24514-9c56-3aa2-806f-b6eae4e7cf23",
    1568     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/alignment_algs\/libalign_algs.dylib",
    1569     "name" : "libalign_algs.dylib"
    1570   },
    1571   {
    1572     "source" : "P",
    1573     "arch" : "arm64",
    1574     "base" : 5468487680,
    1575     "size" : 16384,
    1576     "uuid" : "4e700338-6839-3c7c-9f41-a201e7f185e5",
    1577     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/dssp\/_dssp.cpython-311-darwin.so",
    1578     "name" : "_dssp.cpython-311-darwin.so"
    1579   },
    1580   {
    1581     "source" : "P",
    1582     "arch" : "arm64",
    1583     "base" : 5470748672,
    1584     "size" : 32768,
    1585     "uuid" : "93fd54d8-5d5e-319d-94c5-2702d533d751",
    1586     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/alignment_algs\/_nw.cpython-311-darwin.so",
    1587     "name" : "_nw.cpython-311-darwin.so"
    1588   },
    1589   {
    1590     "source" : "P",
    1591     "arch" : "arm64",
    1592     "base" : 5640454144,
    1593     "size" : 81920,
    1594     "uuid" : "a29de66e-45ef-3d8a-9cd6-1217df66a9db",
    1595     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lxml\/builder.cpython-311-darwin.so",
    1596     "name" : "builder.cpython-311-darwin.so"
    1597   },
    1598   {
    1599     "source" : "P",
    1600     "arch" : "arm64",
    1601     "base" : 5243617280,
    1602     "size" : 32768,
    1603     "uuid" : "a55a4181-c446-3fa3-8fd6-27f845527eab",
    1604     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/psutil\/_psutil_osx.abi3.so",
    1605     "name" : "_psutil_osx.abi3.so"
    1606   },
    1607   {
    1608     "source" : "P",
    1609     "arch" : "arm64",
    1610     "base" : 5241126912,
    1611     "size" : 16384,
    1612     "uuid" : "a516c5bc-1157-318a-a306-5c9b350e0c09",
    1613     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/psutil\/_psutil_posix.abi3.so",
    1614     "name" : "_psutil_posix.abi3.so"
    1615   },
    1616   {
    1617     "source" : "P",
    1618     "arch" : "arm64",
    1619     "base" : 5490360320,
    1620     "size" : 163840,
    1621     "uuid" : "61c599fd-4cb1-3abe-894b-6f3829011c98",
    1622     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/matplotlib\/backends\/_backend_agg.cpython-311-darwin.so",
    1623     "name" : "_backend_agg.cpython-311-darwin.so"
    1624   },
    1625   {
    1626     "source" : "P",
    1627     "arch" : "arm64",
    1628     "base" : 5477122048,
    1629     "size" : 49152,
    1630     "uuid" : "8b3adc07-2911-37e0-b3cd-a1fbfa2a4ade",
    1631     "path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_elementtree.cpython-311-darwin.so",
    1632     "name" : "_elementtree.cpython-311-darwin.so"
    1633   },
    1634   {
    1635     "source" : "P",
    1636     "arch" : "arm64e",
    1637     "base" : 6649933824,
    1638     "size" : 237560,
    1639     "uuid" : "80b55a53-f2f1-3f29-9292-41845b7e9dc6",
    1640     "path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
    1641     "name" : "libsystem_kernel.dylib"
    1642   },
    1643   {
    1644     "source" : "P",
    1645     "arch" : "arm64e",
    1646     "base" : 6650171392,
    1647     "size" : 53248,
    1648     "uuid" : "e74e3db0-f8cb-34ab-831e-db30cbec154f",
    1649     "path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
    1650     "name" : "libsystem_pthread.dylib"
    1651   },
    1652   {
    1653     "source" : "P",
    1654     "arch" : "arm64e",
    1655     "base" : 6648721408,
    1656     "size" : 520184,
    1657     "uuid" : "d76df494-de63-350c-9d1b-25581159a9b1",
    1658     "path" : "\/usr\/lib\/system\/libsystem_c.dylib",
    1659     "name" : "libsystem_c.dylib"
    1660   },
    1661   {
    1662     "source" : "P",
    1663     "arch" : "arm64e",
    1664     "base" : 6650376192,
    1665     "size" : 28668,
    1666     "uuid" : "26b1286a-70dc-3e34-99d0-73d26257de71",
    1667     "path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
    1668     "name" : "libsystem_platform.dylib"
    1669   },
    1670   {
    1671     "source" : "P",
    1672     "arch" : "arm64e",
    1673     "base" : 6703472640,
    1674     "CFBundleShortVersionString" : "6.9",
    1675     "CFBundleIdentifier" : "com.apple.AppKit",
    1676     "size" : 15798272,
    1677     "uuid" : "8f65e267-53fb-35ce-92ec-f87c29886082",
    1678     "path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
    1679     "name" : "AppKit",
    1680     "CFBundleVersion" : "2299.77.138"
    1681   },
    1682   {
    1683     "source" : "P",
    1684     "arch" : "arm64e",
    1685     "base" : 6730870784,
    1686     "CFBundleShortVersionString" : "1.600.0",
    1687     "CFBundleIdentifier" : "com.apple.SkyLight",
    1688     "size" : 4378624,
    1689     "uuid" : "10d6eca0-03a8-3f7a-b7e6-5800a99b0952",
    1690     "path" : "\/System\/Library\/PrivateFrameworks\/SkyLight.framework\/Versions\/A\/SkyLight",
    1691     "name" : "SkyLight"
    1692   },
    1693   {
    1694     "source" : "P",
    1695     "arch" : "arm64e",
    1696     "base" : 6648414208,
    1697     "size" : 294912,
    1698     "uuid" : "d9d62056-1af0-3d72-b951-f1ff84abecca",
    1699     "path" : "\/usr\/lib\/system\/libdispatch.dylib",
    1700     "name" : "libdispatch.dylib"
    1701   },
    1702   {
    1703     "source" : "P",
    1704     "arch" : "arm64e",
    1705     "base" : 6650589184,
    1706     "CFBundleShortVersionString" : "6.9",
    1707     "CFBundleIdentifier" : "com.apple.CoreFoundation",
    1708     "size" : 5087232,
    1709     "uuid" : "4a35b66a-3b0e-34fd-811d-c44fb389ce8f",
    1710     "path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
    1711     "name" : "CoreFoundation",
    1712     "CFBundleVersion" : "1979.104.901"
    1713   },
    1714   {
    1715     "source" : "P",
    1716     "arch" : "arm64e",
    1717     "base" : 6810652672,
    1718     "CFBundleShortVersionString" : "2.1.1",
    1719     "CFBundleIdentifier" : "com.apple.HIToolbox",
    1720     "size" : 3358720,
    1721     "uuid" : "c8970896-b9d1-3fd0-aa1e-99bc8ff4e84d",
    1722     "path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
    1723     "name" : "HIToolbox"
    1724   },
    1725   {
    1726     "source" : "P",
    1727     "arch" : "arm64e",
    1728     "base" : 6646669312,
    1729     "size" : 584980,
    1730     "uuid" : "bffa4e04-be1b-3d76-891f-f501dfb9ee8b",
    1731     "path" : "\/usr\/lib\/dyld",
    1732     "name" : "dyld"
    1733   },
    1734   {
    1735     "source" : "P",
    1736     "arch" : "arm64e",
    1737     "base" : 6666952704,
    1738     "CFBundleShortVersionString" : "6.9",
    1739     "CFBundleIdentifier" : "com.apple.Foundation",
    1740     "size" : 10248192,
    1741     "uuid" : "85439347-8d4e-3c37-a41a-ae79b0bffd8b",
    1742     "path" : "\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation",
    1743     "name" : "Foundation",
    1744     "CFBundleVersion" : "1979.104.901"
    1745   },
    1746   {
    1747     "size" : 0,
    1748     "source" : "A",
    1749     "base" : 0,
    1750     "uuid" : "00000000-0000-0000-0000-000000000000"
    1751   }
     137[deleted to fit within ticket limits]
     138
    1752139],
    1753140  "sharedCache" : {
    … …  
    46283015> color sel #ff2600e2
    46293016
    4630 > color sel #ff2600db
    4631 
    4632 > color sel #ff2600d0
    4633 
    4634 > color sel #ff2600ca
    4635 
    4636 > color sel #ff2600c7
    4637 
    4638 > color sel #ff2600c0
    4639 
    4640 > color sel #ff2600be
    4641 
    4642 > color sel #ff2600b7
    4643 
    4644 > color sel #ff2600b4
    4645 
    4646 > color sel #ff2600a8
    4647 
    4648 > color sel #ff2600a4
    4649 
    4650 > color sel #ff260092
    4651 
    4652 > color sel #ff260091
    4653 
    4654 > color sel #ff26008f
    4655 
    4656 > color sel #ff260083
    4657 
    4658 > color sel #ff26007e
    4659 
    4660 > color sel #ff260079
    4661 
    4662 > color sel #ff260070
    4663 
    4664 > color sel #ff26006f
    4665 
    4666 > color sel #ff260069
    4667 
    4668 > color sel #ff260068
    4669 
    4670 > color sel #ff260066
    4671 
    4672 > color sel #ff260063
    4673 
    4674 > color sel #ff260060
    4675 
    4676 > color sel #ff26005d
    4677 
    4678 > color sel #ff260053
    4679 
    4680 > color sel #ff260051
    4681 
    4682 > color sel #ff260050
    4683 
    4684 > color sel #ff26004e
    4685 
    4686 > color sel #ff260045
    4687 
    4688 > color sel #ff26003b
    4689 
    4690 > color sel #ff260029
    4691 
    4692 > color sel #ff260028
    4693 
    4694 > color sel #ff260026
    4695 
    4696 > color sel #ff260025
    4697 
    4698 > color sel #ff260024
    4699 
    4700 > color sel #ff260023
    4701 
    4702 > color sel #ff260022
    4703 
    4704 > color sel #ff260023
    4705 
    4706 > color sel #ff260024
    4707 
    4708 > color sel #ff260025
    4709 
    4710 > color sel #ff260026
    4711 
    4712 > color sel #ff260027
    4713 
    4714 > color sel #ff260028
    4715 
    4716 > color sel #ff260027
    4717 
    4718 > color sel #ff7e79ff
    4719 
    4720 > color sel #ff2600ff
    4721 
    4722 > color sel #ff2f92ff
    4723 
    4724 > color sel #ff2600ff
    4725 
    4726 > color sel #ff2600f0
    4727 
    4728 > color sel #ff2600a1
    4729 
    4730 > color sel #ff260091
    4731 
    4732 > color sel #ff260087
    4733 
    4734 > color sel #ff26007a
    4735 
    4736 > color sel #ff260056
    4737 
    4738 > color sel #ff260054
    4739 
    4740 > color sel #ff260053
    4741 
    4742 > color sel #ff260052
    4743 
    4744 > color sel #ff260051
    4745 
    4746 > color sel #ff26004f
    4747 
    4748 > color sel #ff26004d
    4749 
    4750 > color sel #ff26004a
    4751 
    4752 > color sel #ff260049
    4753 
    4754 > color sel #ff260048
    4755 
    4756 > color sel #ff260040
    4757 
    4758 > color sel #ff26003e
    4759 
    4760 > color sel #ff26003c
    4761 
    4762 > color sel #ff260038
    4763 
    4764 > color sel #ff260031
    4765 
    4766 > color sel #ff260030
    4767 
    4768 > color sel #ff26002f
    4769 
    4770 > color sel #ff26002e
    4771 
    4772 > color sel #ff26002d
    4773 
    4774 > color sel #ff260025
    4775 
    4776 > color sel #ff260026
    4777 
    4778 > select #1/I
    4779 
    4780 Nothing selected 
    4781 
    4782 > select #2/I
    4783 
    4784 3031 atoms, 3404 bonds, 147 residues, 1 model selected 
    4785 
    4786 > color sel #0433ffff
    4787 
    4788 > color sel #0433fffb
    4789 
    4790 > color sel #0433fff2
    4791 
    4792 > color sel #0433ffea
    4793 
    4794 > color sel #0433ffda
    4795 
    4796 > color sel #0433ffc0
    4797 
    4798 > color sel #0433ff89
    4799 
    4800 > color sel #0433ff78
    4801 
    4802 > color sel #0433ff6e
    4803 
    4804 > color sel #0433ff69
    4805 
    4806 > color sel #0433ff67
    4807 
    4808 > color sel #0433ff66
    4809 
    4810 > color sel #0433ff65
    4811 
    4812 > color sel #0433ff64
    4813 
    4814 > color sel #0433ff62
    4815 
    4816 > color sel #0433ff60
    4817 
    4818 > color sel #0433ff5b
    4819 
    4820 > color sel #0433ff59
    4821 
    4822 > color sel #0433ff55
    4823 
    4824 > color sel #0433ff54
    4825 
    4826 > color sel #0433ff4e
    4827 
    4828 > color sel #0433ff4d
    4829 
    4830 > color sel #0433ff4a
    4831 
    4832 > color sel #0433ff47
    4833 
    4834 > color sel #0433ff46
    4835 
    4836 > color sel #0433ff45
    4837 
    4838 > color sel #0433ff41
    4839 
    4840 > color sel #0433ff3e
    4841 
    4842 > color sel #0433ff3d
    4843 
    4844 > color sel #0433ff3b
    4845 
    4846 > color sel #0433ff36
    4847 
    4848 > color sel #0433ff34
    4849 
    4850 > color sel #0433ff33
    4851 
    4852 > color sel #0433ff34
    4853 
    4854 > color sel #0433ff35
    4855 
    4856 > color sel #0433ff34
    4857 
    4858 > color sel #0433ff33
    4859 
    4860 > color sel #0433ff32
    4861 
    4862 > color sel #0433ff30
    4863 
    4864 > color sel #0433ff2f
    4865 
    4866 > color sel #0433ff2e
    4867 
    4868 > color sel #0433ff2d
    4869 
    4870 > color sel #0433ff2c
    4871 
    4872 > color sel #0433ff2b
    4873 
    4874 > color sel #0433ff2a
    4875 
    4876 > color sel #0433ff29
    4877 
    4878 > color sel #0433ff28
    4879 
    4880 > color sel #0433ff27
    4881 
    4882 > color sel #0433ff26
    4883 
    4884 > color sel #0433ff25
    4885 
    4886 > color sel #0433ff26
    4887 
    4888 > select #2/I:57-73
    4889 
    4890 347 atoms, 388 bonds, 17 residues, 1 model selected 
    4891 
    4892 > color sel #0433ffff
    4893 
    4894 > color sel #76d6ffff
    4895 
    4896 > color sel #00fdffff
    4897 
    4898 > color sel #73fdffff
    4899 
    4900 > select #1/X:16-144
    4901 
    4902 2628 atoms, 2944 bonds, 129 residues, 1 model selected 
    4903 
    4904 > color sel #0433ffff
    4905 
    4906 > color sel #ff2600ff
    4907 
    4908 > color sel #ff2600ee
    4909 
    4910 > color sel #ff2600cf
    4911 
    4912 > color sel #ff260089
    4913 
    4914 > color sel #ff260070
    4915 
    4916 > color sel #ff260060
    4917 
    4918 > color sel #ff260053
    4919 
    4920 > color sel #ff260051
    4921 
    4922 > color sel #ff260050
    4923 
    4924 > color sel #ff26004e
    4925 
    4926 > color sel #ff260047
    4927 
    4928 > color sel #ff260043
    4929 
    4930 > color sel #ff260039
    4931 
    4932 > color sel #ff260035
    4933 
    4934 > color sel #ff260032
    4935 
    4936 > color sel #ff26002e
    4937 
    4938 > color sel #ff26002d
    4939 
    4940 > color sel #ff26002c
    4941 
    4942 > color sel #ff26002a
    4943 
    4944 > color sel #ff260029
    4945 
    4946 > color sel #ff260028
    4947 
    4948 > color sel #ff260027
    4949 
    4950 > color sel #ff260026
    4951 
    4952 > color sel #ff260025
    4953 
    4954 > color sel #ff260026
    4955 
    4956 > select #2/J:-56-69
    4957 
    4958 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    4959 
    4960 > color sel #0433ffff
    4961 
    4962 > color sel #0433fffe
    4963 
    4964 > color sel #0433fffa
    4965 
    4966 > color sel #0433ffe3
    4967 
    4968 > color sel #0433ffdc
    4969 
    4970 > color sel #0433ffd9
    4971 
    4972 > color sel #0433ffb6
    4973 
    4974 > color sel #0433ffa3
    4975 
    4976 > color sel #0433ff9a
    4977 
    4978 > color sel #0433ff92
    4979 
    4980 > color sel #0433ff90
    4981 
    4982 > color sel #0433ff81
    4983 
    4984 > color sel #0433ff69
    4985 
    4986 > color sel #0433ff68
    4987 
    4988 > color sel #0433ff67
    4989 
    4990 > color sel #0433ff65
    4991 
    4992 > color sel #0433ff61
    4993 
    4994 > color sel #0433ff60
    4995 
    4996 > color sel #0433ff50
    4997 
    4998 > color sel #0433ff4f
    4999 
    5000 > color sel #0433ff4e
    5001 
    5002 > color sel #0433ff4d
    5003 
    5004 > color sel #0433ff4b
    5005 
    5006 > color sel #0433ff4a
    5007 
    5008 > color sel #0433ff48
    5009 
    5010 > color sel #0433ff46
    5011 
    5012 > color sel #0433ff44
    5013 
    5014 > color sel #0433ff40
    5015 
    5016 > color sel #0433ff3f
    5017 
    5018 > color sel #0433ff3d
    5019 
    5020 > color sel #0433ff3c
    5021 
    5022 > color sel #0433ff3b
    5023 
    5024 > color sel #0433ff3a
    5025 
    5026 > color sel #0433ff39
    5027 
    5028 > color sel #0433ff38
    5029 
    5030 > color sel #0433ff37
    5031 
    5032 > color sel #0433ff36
    5033 
    5034 > color sel #0433ff35
    5035 
    5036 > color sel #0433ff34
    5037 
    5038 > color sel #0433ff33
    5039 
    5040 > color sel #0433ff32
    5041 
    5042 > color sel #0433ff31
    5043 
    5044 > color sel #0433ff30
    5045 
    5046 > color sel #0433ff2f
    5047 
    5048 > color sel #0433ff2e
    5049 
    5050 > color sel #0433ff2c
    5051 
    5052 > color sel #0433ff2b
    5053 
    5054 > color sel #0433ff2a
    5055 
    5056 > color sel #0433ff29
    5057 
    5058 > color sel #0433ff28
    5059 
    5060 > color sel #0433ff27
    5061 
    5062 > color sel #0433ff26
    5063 
    5064 > color sel #0433ff27
    5065 
    5066 > select #2/J:-73--57
    5067 
    5068 350 atoms, 392 bonds, 17 residues, 1 model selected 
    5069 
    5070 > color sel #00fdffff
    5071 
    5072 > select #2/J:70-73
    5073 
    5074 81 atoms, 89 bonds, 4 residues, 1 model selected 
    5075 
    5076 > color sel #00fdfffc
    5077 
    5078 > color sel #00fdffec
    5079 
    5080 > color sel #00fdffeb
    5081 
    5082 > color sel #00fdffe3
    5083 
    5084 > color sel #00fdffe4
    5085 
    5086 > color sel #00fdffed
    5087 
    5088 > color sel #00fdffff
    5089 
    5090 > color sel #00fdffe1
    5091 
    5092 > color sel #00fdffbb
    5093 
    5094 > color sel #00fdffb5
    5095 
    5096 > color sel #00fdffff
    5097 
    5098 > select #2/J:-73--57
    5099 
    5100 350 atoms, 392 bonds, 17 residues, 1 model selected 
    5101 
    5102 > color sel #00fdfffd
    5103 
    5104 > color sel #00fdffa4
    5105 
    5106 > color sel #00fdff9b
    5107 
    5108 > color sel #00fdff78
    5109 
    5110 > color sel #00fdff6d
    5111 
    5112 > color sel #00fdff60
    5113 
    5114 > color sel #00fdff55
    5115 
    5116 > color sel #00fdff54
    5117 
    5118 > color sel #00fdff52
    5119 
    5120 > color sel #00fdff51
    5121 
    5122 > color sel #00fdff52
    5123 
    5124 > color sel #00fdff56
    5125 
    5126 > color sel #00fdff64
    5127 
    5128 > color sel #00fdfffb
    5129 
    5130 > color sel #00fdffff
    5131 
    5132 > select #2/J:70-73
    5133 
    5134 81 atoms, 89 bonds, 4 residues, 1 model selected 
    5135 
    5136 > color sel #00fdfffe
    5137 
    5138 > color sel #00fdffd4
    5139 
    5140 > color sel #00fdff91
    5141 
    5142 > color sel #00fdff88
    5143 
    5144 > color sel #00fdff76
    5145 
    5146 > color sel #00fdff6b
    5147 
    5148 > color sel #00fdff63
    5149 
    5150 > color sel #00fdff5c
    5151 
    5152 > color sel #00fdff57
    5153 
    5154 > color sel #00fdff56
    5155 
    5156 > color sel #00fdff63
    5157 
    5158 > color sel #00fdffc5
    5159 
    5160 > color sel #00fdffef
    5161 
    5162 > color sel #00fdffff
    5163 
    5164 > color sel #00fdfff7
    5165 
    5166 > color sel #00fdffad
    5167 
    5168 > color sel #00fdff1a
    5169 
    5170 > color sel #00fdff0b
    5171 
    5172 > color sel #00fdff15
    5173 
    5174 > color sel #00fdff43
    5175 
    5176 > color sel #00fdff44
    5177 
    5178 > color sel #00fdff4e
    5179 
    5180 > color sel #00fdff75
    5181 
    5182 > color sel #00fdff7d
    5183 
    5184 > color sel #00fdff7c
    5185 
    5186 > color sel #00fdff78
    5187 
    5188 > color sel #00fdff73
    5189 
    5190 > color sel #00fdff5d
    5191 
    5192 > color sel #00fdff4b
    5193 
    5194 > color sel #00fdff46
    5195 
    5196 > color sel #00fdff38
    5197 
    5198 > color sel #00fdff29
    5199 
    5200 > color sel #00fdff28
    5201 
    5202 > color sel #00fdff39
    5203 
    5204 > color sel #00fdff44
    5205 
    5206 > color sel #00fdff4a
    5207 
    5208 > color sel #00fdff4b
    5209 
    5210 > color sel #00fdff5d
    5211 
    5212 > color sel #00fdff68
    5213 
    5214 > color sel #00fdff6f
    5215 
    5216 > color sel #00fdff88
    5217 
    5218 > color sel #00fdff89
    5219 
    5220 > color sel #00fdff8a
    5221 
    5222 > color sel #00fdff8d
    5223 
    5224 > color sel #00fdff8e
    5225 
    5226 > color sel #00fdffa5
    5227 
    5228 > color sel #00fdffc9
    5229 
    5230 > color sel #00fdffdb
    5231 
    5232 > color sel #00fdffdf
    5233 
    5234 > color sel #00fdffe8
    5235 
    5236 > color sel #00fdfff1
    5237 
    5238 > color sel #00fdfff8
    5239 
    5240 > color sel #00fdffff
    5241 
    5242 > select #2/I:-73--70
    5243 
    5244 83 atoms, 93 bonds, 4 residues, 1 model selected 
    5245 
    5246 > color sel #00fdfffe
    5247 
    5248 > color sel #00fdfffd
    5249 
    5250 > color sel #00fdffef
    5251 
    5252 > color sel #00fdff9a
    5253 
    5254 > color sel #00fdff89
    5255 
    5256 > color sel #00fdff81
    5257 
    5258 > color sel #00fdff80
    5259 
    5260 > color sel #00fdff7e
    5261 
    5262 > color sel #00fdff77
    5263 
    5264 > color sel #00fdff7d
    5265 
    5266 > color sel #00fdffb1
    5267 
    5268 > color sel #00fdffe5
    5269 
    5270 > color sel #00fdffff
    5271 
    5272 > color sel #00fdffca
    5273 
    5274 > color sel #00fdffbb
    5275 
    5276 > color sel #00fdffb3
    5277 
    5278 > color sel #00fdff76
    5279 
    5280 > color sel #00fdff67
    5281 
    5282 > color sel #00fdff45
    5283 
    5284 > color sel #00fdff2b
    5285 
    5286 > color sel #00fdff2c
    5287 
    5288 > color sel #00fdff30
    5289 
    5290 > color sel #00fdff40
    5291 
    5292 > color sel #00fdff50
    5293 
    5294 > color sel #00fdff61
    5295 
    5296 > color sel #00fdff67
    5297 
    5298 > color sel #00fdff6c
    5299 
    5300 > color sel #00fdff70
    5301 
    5302 > color sel #00fdff8c
    5303 
    5304 > color sel #00fdff90
    5305 
    5306 > color sel #00fdff92
    5307 
    5308 > color sel #00fdffab
    5309 
    5310 > color sel #00fdffd2
    5311 
    5312 > color sel #00fdffda
    5313 
    5314 > color sel #00fdffff
    5315 
    5316 > select #1/Y:1-3
    5317 
    5318 60 atoms, 66 bonds, 3 residues, 1 model selected 
    5319 
    5320 > color sel #ff2600ff
    5321 
    5322 > color sel #ff2600fe
    5323 
    5324 > color sel #ff2600fd
    5325 
    5326 > color sel #ff2600fc
    5327 
    5328 > color sel #ff2600fb
    5329 
    5330 > color sel #ff2600ea
    5331 
    5332 > color sel #ff2600e8
    5333 
    5334 > color sel #ff2600e4
    5335 
    5336 > color sel #ff2600e0
    5337 
    5338 > color sel #ff2600c8
    5339 
    5340 > color sel #ff2600c0
    5341 
    5342 > color sel #ff2600bc
    5343 
    5344 > color sel #ff2600b8
    5345 
    5346 > color sel #ff2600a7
    5347 
    5348 > color sel #ff2600a1
    5349 
    5350 > color sel #ff26009b
    5351 
    5352 > color sel #ff260098
    5353 
    5354 > color sel #ff260097
    5355 
    5356 > color sel #ff260095
    5357 
    5358 > color sel #ff260094
    5359 
    5360 > color sel #ff260093
    5361 
    5362 > color sel #ff260092
    5363 
    5364 > color sel #ff260084
    5365 
    5366 > color sel #ff260081
    5367 
    5368 > color sel #ff26007e
    5369 
    5370 > color sel #ff260073
    5371 
    5372 > color sel #ff260072
    5373 
    5374 > color sel #ff260061
    5375 
    5376 > color sel #ff26005a
    5377 
    5378 > color sel #ff26004d
    5379 
    5380 > color sel #ff26003d
    5381 
    5382 > color sel #ff260049
    5383 
    5384 > color sel #ff26005d
    5385 
    5386 > color sel #ff260065
    5387 
    5388 > color sel #ff260067
    5389 
    5390 > color sel #ff260077
    5391 
    5392 > color sel #ff26007b
    5393 
    5394 > color sel #ff260085
    5395 
    5396 > color sel #ff260092
    5397 
    5398 > color sel #ff2600a0
    5399 
    5400 > color sel #ff2600d6
    5401 
    5402 > color sel #ff2600eb
    5403 
    5404 > color sel #ff2600ff
    5405 
    5406 > color sel #ff2600fe
    5407 
    5408 > color sel #ff2600fd
    5409 
    5410 > color sel #ff2600f7
    5411 
    5412 > color sel #ff2600f2
    5413 
    5414 > color sel #ff2600e9
    5415 
    5416 > color sel #ff2600d3
    5417 
    5418 > color sel #ff2600bd
    5419 
    5420 > color sel #ff2600ac
    5421 
    5422 > color sel #ff26007c
    5423 
    5424 > color sel #ff26007b
    5425 
    5426 > color sel #ff26008d
    5427 
    5428 > color sel #ff2600ca
    5429 
    5430 > color sel #ff2600ff
    5431 
    5432 > select #1/X:142-144
    5433 
    5434 63 atoms, 70 bonds, 3 residues, 1 model selected 
    5435 
    5436 > color sel #ff2600ff
    5437 
    5438 > color sel #ff260099
    5439 
    5440 > color sel #ff260089
    5441 
    5442 > color sel #ff26007b
    5443 
    5444 > color sel #ff260075
    5445 
    5446 > color sel #ff26007a
    5447 
    5448 > color sel #ff260082
    5449 
    5450 > color sel #ff2600c6
    5451 
    5452 > color sel #ff2600cd
    5453 
    5454 > color sel #ff2600ce
    5455 
    5456 > color sel #ff2600d2
    5457 
    5458 > color sel #ff2600e0
    5459 
    5460 > color sel #ff2600e2
    5461 
    5462 > color sel #ff2600e3
    5463 
    5464 > color sel #ff2600fa
    5465 
    5466 > color sel #ff2600ff
    5467 
    5468 > select clear
    5469 
    5470 > select #1/X:16-141
    5471 
    5472 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    5473 
    5474 > color sel #ff2600ff
    5475 
    5476 > color sel #ff2600fe
    5477 
    5478 > color sel #ff2600f0
    5479 
    5480 > color sel #ff2600d8
    5481 
    5482 > color sel #ff2600d3
    5483 
    5484 > color sel #ff2600d2
    5485 
    5486 > color sel #ff2600d3
    5487 
    5488 > color sel #ff2600d2
    5489 
    5490 > color sel #ff2600ca
    5491 
    5492 > color sel #ff2600c7
    5493 
    5494 > color sel #ff2600c2
    5495 
    5496 > color sel #ff2600c1
    5497 
    5498 > color sel #ff2600be
    5499 
    5500 > color sel #ff2600bd
    5501 
    5502 > color sel #ff2600bc
    5503 
    5504 > color sel #ff2600ba
    5505 
    5506 > color sel #ff2600b0
    5507 
    5508 > color sel #ff2600a8
    5509 
    5510 > color sel #ff26009c
    5511 
    5512 > color sel #ff260093
    5513 
    5514 > color sel #ff260092
    5515 
    5516 > color sel #ff260080
    5517 
    5518 > color sel #ff260075
    5519 
    5520 > color sel #ff26006b
    5521 
    5522 > color sel #ff26005f
    5523 
    5524 > color sel #ff26005b
    5525 
    5526 > color sel #ff260053
    5527 
    5528 > color sel #ff260050
    5529 
    5530 > color sel #ff26004e
    5531 
    5532 > color sel #ff26004d
    5533 
    5534 > color sel #ff26004c
    5535 
    5536 > color sel #ff26004b
    5537 
    5538 > color sel #ff260049
    5539 
    5540 > color sel #ff26003d
    5541 
    5542 > color sel #ff26003c
    5543 
    5544 > color sel #ff260038
    5545 
    5546 > color sel #ff260036
    5547 
    5548 > color sel #ff260030
    5549 
    5550 > color sel #ff26002f
    5551 
    5552 > color sel #ff26002e
    5553 
    5554 > color sel #ff26002d
    5555 
    5556 > color sel #ff26002b
    5557 
    5558 > color sel #ff260029
    5559 
    5560 > color sel #ff260028
    5561 
    5562 > color sel #ff260027
    5563 
    5564 > color sel #ff260026
    5565 
    5566 > color sel #ff260025
    5567 
    5568 > select #1/Y:4-129
    5569 
    5570 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    5571 
    5572 > color sel #ff2600ff
    5573 
    5574 > color sel #ff2600fd
    5575 
    5576 > color sel #ff2600db
    5577 
    5578 > color sel #ff2600a7
    5579 
    5580 > color sel #ff260094
    5581 
    5582 > color sel #ff26008a
    5583 
    5584 > color sel #ff260083
    5585 
    5586 > color sel #ff26007e
    5587 
    5588 > color sel #ff260077
    5589 
    5590 > color sel #ff260073
    5591 
    5592 > color sel #ff260072
    5593 
    5594 > color sel #ff26006e
    5595 
    5596 > color sel #ff260068
    5597 
    5598 > color sel #ff260061
    5599 
    5600 > color sel #ff260060
    5601 
    5602 > color sel #ff26005f
    5603 
    5604 > color sel #ff26005c
    5605 
    5606 > color sel #ff260058
    5607 
    5608 > color sel #ff260053
    5609 
    5610 > color sel #ff260051
    5611 
    5612 > color sel #ff26004a
    5613 
    5614 > color sel #ff260049
    5615 
    5616 > color sel #ff260048
    5617 
    5618 > color sel #ff260046
    5619 
    5620 > color sel #ff260044
    5621 
    5622 > color sel #ff260042
    5623 
    5624 > color sel #ff26003f
    5625 
    5626 > color sel #ff26003c
    5627 
    5628 > color sel #ff26003a
    5629 
    5630 > color sel #ff260036
    5631 
    5632 > color sel #ff260035
    5633 
    5634 > color sel #ff260033
    5635 
    5636 > color sel #ff260031
    5637 
    5638 > color sel #ff26002f
    5639 
    5640 > color sel #ff26002e
    5641 
    5642 > color sel #ff26002d
    5643 
    5644 > color sel #ff26002c
    5645 
    5646 > color sel #ff26002b
    5647 
    5648 > color sel #ff26002a
    5649 
    5650 > color sel #ff260028
    5651 
    5652 > color sel #ff260027
    5653 
    5654 > color sel #ff260026
    5655 
    5656 > color sel #ff260027
    5657 
    5658 > select #2/I:-69-56
    5659 
    5660 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    5661 
    5662 > color sel #00fdffff
    5663 
    5664 > color sel #00fdfffe
    5665 
    5666 > color sel #00fdffef
    5667 
    5668 > color sel #00fdffb4
    5669 
    5670 > color sel #00fdffa6
    5671 
    5672 > color sel #00fdff7b
    5673 
    5674 > color sel #00fdff77
    5675 
    5676 > color sel #00fdff6b
    5677 
    5678 > color sel #00fdff5e
    5679 
    5680 > color sel #00fdff5d
    5681 
    5682 > color sel #00fdff59
    5683 
    5684 > color sel #00fdff56
    5685 
    5686 > color sel #00fdff4f
    5687 
    5688 > color sel #00fdff4e
    5689 
    5690 > color sel #00fdff4c
    5691 
    5692 > color sel #00fdff49
    5693 
    5694 > color sel #00fdff45
    5695 
    5696 > color sel #00fdff44
    5697 
    5698 > color sel #00fdff49
    5699 
    5700 > color sel #00fdff47
    5701 
    5702 > color sel #00fdff40
    5703 
    5704 > color sel #00fdff3b
    5705 
    5706 > color sel #00fdff38
    5707 
    5708 > color sel #00fdff37
    5709 
    5710 > color sel #00fdff36
    5711 
    5712 > color sel #00fdff35
    5713 
    5714 > color sel #00fdff30
    5715 
    5716 > color sel #00fdff2d
    5717 
    5718 > color sel #00fdff2c
    5719 
    5720 > color sel #00fdff2b
    5721 
    5722 > color sel #00fdff29
    5723 
    5724 > color sel #00fdff28
    5725 
    5726 > color sel #00fdff27
    5727 
    5728 > color sel #00fdff28
    5729 
    5730 > color sel #00fdff27
    5731 
    5732 > color sel #00fdff26
    5733 
    5734 > color sel #00fdff24
    5735 
    5736 > color sel #00fdff23
    5737 
    5738 > color sel #00fdff21
    5739 
    5740 > color sel #00fdff20
    5741 
    5742 > color sel #00fdff1f
    5743 
    5744 > color sel #00fdff1e
    5745 
    5746 > color sel #00fdff1d
    5747 
    5748 > color sel #00fdff1b
    5749 
    5750 > color sel #00fdff1a
    5751 
    5752 > select #2/J:-56-69
    5753 
    5754 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    5755 
    5756 > color sel #00fdffff
    5757 
    5758 > color sel #00fdffe8
    5759 
    5760 > color sel #00fdffab
    5761 
    5762 > color sel #00fdff8e
    5763 
    5764 > color sel #00fdff89
    5765 
    5766 > color sel #00fdff6b
    5767 
    5768 > color sel #00fdff69
    5769 
    5770 > color sel #00fdff68
    5771 
    5772 > color sel #00fdff65
    5773 
    5774 > color sel #00fdff63
    5775 
    5776 > color sel #00fdff5c
    5777 
    5778 > color sel #00fdff5a
    5779 
    5780 > color sel #00fdff59
    5781 
    5782 > color sel #00fdff4e
    5783 
    5784 > color sel #00fdff4a
    5785 
    5786 > color sel #00fdff46
    5787 
    5788 > color sel #00fdff3c
    5789 
    5790 > color sel #00fdff3a
    5791 
    5792 > color sel #00fdff37
    5793 
    5794 > color sel #00fdff36
    5795 
    5796 > color sel #00fdff34
    5797 
    5798 > color sel #00fdff31
    5799 
    5800 > color sel #00fdff2e
    5801 
    5802 > color sel #00fdff29
    5803 
    5804 > color sel #00fdff28
    5805 
    5806 > color sel #00fdff27
    5807 
    5808 > color sel #00fdff26
    5809 
    5810 > color sel #00fdff25
    5811 
    5812 > color sel #00fdff24
    5813 
    5814 > color sel #00fdff23
    5815 
    5816 > color sel #00fdff21
    5817 
    5818 > color sel #00fdff1f
    5819 
    5820 > color sel #00fdff1d
    5821 
    5822 > color sel #00fdff1c
    5823 
    5824 > color sel #00fdff18
    5825 
    5826 > color sel #00fdff17
    5827 
    5828 > color sel #00fdff16
    5829 
    5830 > color sel #00fdff17
    5831 
    5832 > color sel #00fdff18
    5833 
    5834 > color sel #00fdff19
    5835 
    5836 > color sel #00fdff1a
    5837 
    5838 > color sel #00fdff19
    5839 
    5840 > color sel #00fdff18
    5841 
    5842 > color sel #00fdff17
    5843 
    5844 > color sel #00fdff16
    5845 
    5846 > color sel #00fdff15
    5847 
    5848 > color sel #00fdff14
    5849 
    5850 > color sel #00fdff13
    5851 
    5852 > color sel #00fdff12
    5853 
    5854 > color sel #00fdff11
    5855 
    5856 > color sel #00fdff10
    5857 
    5858 > color sel #00fdff0f
    5859 
    5860 > color sel #00fdff0e
    5861 
    5862 > color sel #00fdff0d
    5863 
    5864 > color sel #00fdff0c
    5865 
    5866 > select #2/I:-69-56
    5867 
    5868 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    5869 
    5870 > color sel #00fdffff
    5871 
    5872 > color sel #00fdfffe
    5873 
    5874 > color sel #00fdffb6
    5875 
    5876 > color sel #00fdffa8
    5877 
    5878 > color sel #00fdff70
    5879 
    5880 > color sel #00fdff6b
    5881 
    5882 > color sel #00fdff5d
    5883 
    5884 > color sel #00fdff54
    5885 
    5886 > color sel #00fdff4d
    5887 
    5888 > color sel #00fdff43
    5889 
    5890 > color sel #00fdff41
    5891 
    5892 > color sel #00fdff40
    5893 
    5894 > color sel #00fdff3e
    5895 
    5896 > color sel #00fdff39
    5897 
    5898 > color sel #00fdff33
    5899 
    5900 > color sel #00fdff31
    5901 
    5902 > color sel #00fdff2d
    5903 
    5904 > color sel #00fdff2c
    5905 
    5906 > color sel #00fdff2b
    5907 
    5908 > color sel #00fdff25
    5909 
    5910 > color sel #00fdff24
    5911 
    5912 > color sel #00fdff22
    5913 
    5914 > color sel #00fdff20
    5915 
    5916 > color sel #00fdff1f
    5917 
    5918 > color sel #00fdff1e
    5919 
    5920 > color sel #00fdff1b
    5921 
    5922 > color sel #00fdff1a
    5923 
    5924 > color sel #00fdff19
    5925 
    5926 > color sel #00fdff18
    5927 
    5928 > color sel #00fdff15
    5929 
    5930 > color sel #00fdff14
    5931 
    5932 > color sel #00fdff13
    5933 
    5934 > color sel #00fdff12
    5935 
    5936 > color sel #00fdff0f
    5937 
    5938 > color sel #00fdff0e
    5939 
    5940 > color sel #00fdff0d
    5941 
    5942 > select #1/Y:4-129
    5943 
    5944 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    5945 
    5946 > color sel #ff2600ff
    5947 
    5948 > color sel #ff2600fd
    5949 
    5950 > color sel #ff2600fc
    5951 
    5952 > color sel #ff2600fa
    5953 
    5954 > color sel #ff2600e7
    5955 
    5956 > color sel #ff2600a0
    5957 
    5958 > color sel #ff260096
    5959 
    5960 > color sel #ff260092
    5961 
    5962 > color sel #ff26006e
    5963 
    5964 > color sel #ff260067
    5965 
    5966 > color sel #ff260055
    5967 
    5968 > color sel #ff26003d
    5969 
    5970 > color sel #ff260039
    5971 
    5972 > color sel #ff260038
    5973 
    5974 > color sel #ff260032
    5975 
    5976 > color sel #ff260029
    5977 
    5978 > color sel #ff260027
    5979 
    5980 > color sel #ff260025
    5981 
    5982 > color sel #ff260020
    5983 
    5984 > color sel #ff260018
    5985 
    5986 > color sel #ff260008
    5987 
    5988 > color sel #ff260007
    5989 
    5990 > color sel #ff260004
    5991 
    5992 > color sel #ff260000
    5993 
    5994 > color sel #ff260006
    5995 
    5996 > color sel #ff260007
    5997 
    5998 > color sel #ff260009
    5999 
    6000 > color sel #ff26000a
    6001 
    6002 > color sel #ff26000b
    6003 
    6004 > color sel #ff26000d
    6005 
    6006 > select #1/X:16-141
    6007 
    6008 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    6009 
    6010 > color sel #ff2600ff
    6011 
    6012 > color sel #ff2600d9
    6013 
    6014 > color sel #ff2600ba
    6015 
    6016 > color sel #ff2600a7
    6017 
    6018 > color sel #ff260069
    6019 
    6020 > color sel #ff260065
    6021 
    6022 > color sel #ff260060
    6023 
    6024 > color sel #ff26004c
    6025 
    6026 > color sel #ff26003c
    6027 
    6028 > color sel #ff26002d
    6029 
    6030 > color sel #ff26002a
    6031 
    6032 > color sel #ff260028
    6033 
    6034 > color sel #ff260026
    6035 
    6036 > color sel #ff260023
    6037 
    6038 > color sel #ff260021
    6039 
    6040 > color sel #ff260016
    6041 
    6042 > color sel #ff260015
    6043 
    6044 > color sel #ff260013
    6045 
    6046 > color sel #ff260010
    6047 
    6048 > color sel #ff26000f
    6049 
    6050 > color sel #ff26000e
    6051 
    6052 > color sel #ff26000d
    6053 
    6054 > color sel #ff26000c
    6055 
    6056 > color sel #ff26000d
    6057 
    6058 > select clear
    6059 
    6060 > select #1/Y#2/I
    6061 
    6062 5692 atoms, 6392 bonds, 276 residues, 2 models selected 
    6063 
    6064 > color sel #ffc000ff
    6065 
    6066 > color sel #ff9300ff
    6067 
    6068 > select #1/Y:4-129#2/I:-69-56
    6069 
    6070 5202 atoms, 5842 bonds, 252 residues, 2 models selected 
    6071 
    6072 > color sel #ff9300ff
    6073 
    6074 > color sel #ff9300fe
    6075 
    6076 > color sel #ff9300fa
    6077 
    6078 > color sel #ff9300f9
    6079 
    6080 > color sel #ff9300f3
    6081 
    6082 > color sel #ff9300e5
    6083 
    6084 > color sel #ff9300e4
    6085 
    6086 > color sel #ff9300d9
    6087 
    6088 > color sel #ff9300d8
    6089 
    6090 > color sel #ff9300cb
    6091 
    6092 > color sel #ff9300c6
    6093 
    6094 > color sel #ff9300bf
    6095 
    6096 > color sel #ff9300bc
    6097 
    6098 > color sel #ff9300bb
    6099 
    6100 > color sel #ff9300b1
    6101 
    6102 > color sel #ff9300a5
    6103 
    6104 > color sel #ff930098
    6105 
    6106 > color sel #ff930084
    6107 
    6108 > color sel #ff93007c
    6109 
    6110 > color sel #ff930070
    6111 
    6112 > color sel #ff930069
    6113 
    6114 > color sel #ff93005c
    6115 
    6116 > color sel #ff930051
    6117 
    6118 > color sel #ff930042
    6119 
    6120 > color sel #ff93003c
    6121 
    6122 > color sel #ff930038
    6123 
    6124 > color sel #ff930031
    6125 
    6126 > color sel #ff93002f
    6127 
    6128 > color sel #ff93002d
    6129 
    6130 > color sel #ff93002b
    6131 
    6132 > color sel #ff93002a
    6133 
    6134 > color sel #ff930028
    6135 
    6136 > color sel #ff930027
    6137 
    6138 > color sel #ff930026
    6139 
    6140 > color sel #ff930023
    6141 
    6142 > color sel #ff930021
    6143 
    6144 > color sel #ff930020
    6145 
    6146 > color sel #ff93001f
    6147 
    6148 > color sel #ff93001e
    6149 
    6150 > color sel #ff93001d
    6151 
    6152 > color sel #ff93001b
    6153 
    6154 > color sel #ff93001a
    6155 
    6156 > color sel #ff930019
    6157 
    6158 > color sel #ff930017
    6159 
    6160 > color sel #ff930016
    6161 
    6162 > color sel #ff930014
    6163 
    6164 > color sel #ff930013
    6165 
    6166 > color sel #ff930012
    6167 
    6168 > color sel #ff930011
    6169 
    6170 > color sel #ff93000f
    6171 
    6172 > color sel #ff93000e
    6173 
    6174 > color sel #ff93000d
    6175 
    6176 > color sel #ff93000e
    6177 
    6178 > select #1/Y#2/X
    6179 
    6180 2661 atoms, 2988 bonds, 129 residues, 1 model selected 
    6181 
    6182 > select #1/Y#1/X
    6183 
    6184 5289 atoms, 5932 bonds, 258 residues, 1 model selected 
    6185 
    6186 > color sel #ff9300ff
    6187 
    6188 > select #1/Y:4-129#1/X:16-141
    6189 
    6190 5166 atoms, 5794 bonds, 252 residues, 1 model selected 
    6191 
    6192 > color sel #ff9300ff
    6193 
    6194 > color sel #ff9300fe
    6195 
    6196 > color sel #ff9300ee
    6197 
    6198 > color sel #ff9300c3
    6199 
    6200 > color sel #ff9300b8
    6201 
    6202 > color sel #ff9300a5
    6203 
    6204 > color sel #ff9300a1
    6205 
    6206 > color sel #ff93009b
    6207 
    6208 > color sel #ff930095
    6209 
    6210 > color sel #ff930094
    6211 
    6212 > color sel #ff930090
    6213 
    6214 > color sel #ff93008b
    6215 
    6216 > color sel #ff930089
    6217 
    6218 > color sel #ff93007f
    6219 
    6220 > color sel #ff93007a
    6221 
    6222 > color sel #ff930071
    6223 
    6224 > color sel #ff93006a
    6225 
    6226 > color sel #ff930068
    6227 
    6228 > color sel #ff930066
    6229 
    6230 > color sel #ff930065
    6231 
    6232 > color sel #ff930062
    6233 
    6234 > color sel #ff93005f
    6235 
    6236 > color sel #ff930046
    6237 
    6238 > color sel #ff930044
    6239 
    6240 > color sel #ff930043
    6241 
    6242 > color sel #ff93003b
    6243 
    6244 > color sel #ff930037
    6245 
    6246 > color sel #ff930035
    6247 
    6248 > color sel #ff930031
    6249 
    6250 > color sel #ff93002f
    6251 
    6252 > color sel #ff93002c
    6253 
    6254 > color sel #ff930027
    6255 
    6256 > color sel #ff930025
    6257 
    6258 > color sel #ff930023
    6259 
    6260 > color sel #ff930022
    6261 
    6262 > color sel #ff930021
    6263 
    6264 > color sel #ff930022
    6265 
    6266 > color sel #ff930023
    6267 
    6268 > color sel #ff930024
    6269 
    6270 > color sel #ff930025
    6271 
    6272 > color sel #ff930024
    6273 
    6274 > color sel #ff930021
    6275 
    6276 > color sel #ff930020
    6277 
    6278 > color sel #ff93001f
    6279 
    6280 > color sel #ff93001e
    6281 
    6282 > color sel #ff93001d
    6283 
    6284 > color sel #ff93001c
    6285 
    6286 > color sel #ff930019
    6287 
    6288 > color sel #ff930018
    6289 
    6290 > color sel #ff930016
    6291 
    6292 > color sel #ff930015
    6293 
    6294 > color sel #ff930012
    6295 
    6296 > color sel #ff930011
    6297 
    6298 > color sel #ff930010
    6299 
    6300 > color sel #ff93000e
    6301 
    6302 > color sel #ff93000d
    6303 
    6304 > color sel #ff93000c
    6305 
    6306 > color sel #ff93000b
    6307 
    6308 > color sel #ff93000c
    6309 
    6310 > color sel #ff93000d
    6311 
    6312 > select #2/I#2/J
    6313 
    6314 6027 atoms, 6760 bonds, 294 residues, 1 model selected 
    6315 
    6316 > color sel #537bc4ff
    6317 
    6318 > color sel #0096ffff
    6319 
    6320 > color sel #76d6ffff
    6321 
    6322 > color sel #0096ffff
    6323 
    6324 > color sel #7a81ffff
    6325 
    6326 > color sel #009193ff
    6327 
    6328 > color sel #7a81ffff
    6329 
    6330 > select #2/I:-69-56#2/J:-56-69
    6331 
    6332 5166 atoms, 5794 bonds, 252 residues, 1 model selected 
    6333 
    6334 > color sel #7a81fffe
    6335 
    6336 > color sel #7a81ffe2
    6337 
    6338 > color sel #7a81ffe1
    6339 
    6340 > color sel #7a81ffd8
    6341 
    6342 > color sel #7a81ffd0
    6343 
    6344 > color sel #7a81ffcc
    6345 
    6346 > color sel #7a81ffcb
    6347 
    6348 > color sel #7a81ffc7
    6349 
    6350 > color sel #7a81ffc5
    6351 
    6352 > color sel #7a81ffc4
    6353 
    6354 > color sel #7a81ffbe
    6355 
    6356 > color sel #7a81ffb9
    6357 
    6358 > color sel #7a81ffb8
    6359 
    6360 > color sel #7a81ffb6
    6361 
    6362 > color sel #7a81ffb5
    6363 
    6364 > color sel #7a81ffaa
    6365 
    6366 > color sel #7a81ffa9
    6367 
    6368 > color sel #7a81ffa5
    6369 
    6370 > color sel #7a81ffa3
    6371 
    6372 > color sel #7a81ff8c
    6373 
    6374 > color sel #7a81ff85
    6375 
    6376 > color sel #7a81ff7b
    6377 
    6378 > color sel #7a81ff78
    6379 
    6380 > color sel #7a81ff75
    6381 
    6382 > color sel #7a81ff68
    6383 
    6384 > color sel #7a81ff67
    6385 
    6386 > color sel #7a81ff63
    6387 
    6388 > color sel #7a81ff61
    6389 
    6390 > color sel #7a81ff60
    6391 
    6392 > color sel #7a81ff5d
    6393 
    6394 > color sel #7a81ff5b
    6395 
    6396 > color sel #7a81ff53
    6397 
    6398 > color sel #7a81ff48
    6399 
    6400 > color sel #7a81ff47
    6401 
    6402 > color sel #7a81ff3f
    6403 
    6404 > color sel #7a81ff39
    6405 
    6406 > color sel #7a81ff38
    6407 
    6408 > color sel #7a81ff32
    6409 
    6410 > color sel #7a81ff30
    6411 
    6412 > color sel #7a81ff2e
    6413 
    6414 > color sel #7a81ff2d
    6415 
    6416 > color sel #7a81ff2a
    6417 
    6418 > color sel #7a81ff28
    6419 
    6420 > color sel #7a81ff23
    6421 
    6422 > color sel #7a81ff22
    6423 
    6424 > color sel #7a81ff15
    6425 
    6426 > color sel #7a81ff10
    6427 
    6428 > color sel #7a81ff0f
    6429 
    6430 > color sel #7a81ff0c
    6431 
    6432 > select clear
    6433 
    6434 > select #2/I:-69-56#2/S
    6435 
    6436 2730 atoms, 3053 bonds, 140 residues, 1 model selected 
    6437 
    6438 > select #2/S
    6439 
    6440 129 atoms, 132 bonds, 14 residues, 1 model selected 
    6441 
    6442 > color sel #7a81ffff
    6443 
    6444 > color sel byhetero
    6445 
    6446 > select clear
    6447 
    6448 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6449 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/Comp_SSX1RD-NCP-
    6450 > class1p3_vs_8HR1_ShowDNAandSSX_Schain.cxs
    6451 
    6452 > save /Users/kenjiman/Desktop/image1.png supersample 3
    6453 
    6454 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6455 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/Comp_SSX1RD-NCP-
    6456 > class1p3_vs_8HR1_ShowDNAandSSX_Schain.cxs includeMaps true
    6457 
    6458 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6459 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_SSX1RD-
    6460 > NCP-class1p3_vs_8HR1_ShowDNAandSSX_Schain.cxs includeMaps true
    6461 
    6462 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6463 > Nuc/NatComm/原稿/Figures/Materials/SSX1RD-NCPs/SSX1RD-NCP-
    6464 > class4/NCP_SS1_class4_RR_19.pdb
    6465 
    6466 Chain information for NCP_SS1_class4_RR_19.pdb #3 
    6467 --- 
    6468 Chain | Description 
    6469 A E | No description available 
    6470 B F | No description available 
    6471 C G | No description available 
    6472 D | No description available 
    6473 H | No description available 
    6474 R | No description available 
    6475 S | No description available 
    6476 X | No description available 
    6477 Y | No description available 
    6478  
    6479 40 atoms have alternate locations. Control/examine alternate locations with
    6480 Altloc Explorer [start tool...] or the altlocs command. 
    6481 
    6482 > hide atoms
    6483 
    6484 > show cartoons
    6485 
    6486 > ui tool show Matchmaker
    6487 
    6488 > matchmaker #3 to #1
    6489 
    6490 Computing secondary structure 
    6491 Parameters 
    6492 --- 
    6493 Chain pairing | bb 
    6494 Alignment algorithm | Needleman-Wunsch 
    6495 Similarity matrix | BLOSUM-62 
    6496 SS fraction | 0.3 
    6497 Gap open (HH/SS/other) | 18/18/6 
    6498 Gap extend | 1 
    6499 SS matrix |  |  | H | S | O 
    6500 ---|---|---|--- 
    6501 H | 6 | -9 | -6 
    6502 S |  | 6 | -6 
    6503 O |  |  | 4 
    6504 Iteration cutoff | 2 
    6505  
    6506 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    6507 NCP_SS1_class4_RR_19.pdb, chain X (#3), sequence alignment score = 721.8 
    6508 RMSD between 129 pruned atom pairs is 0.388 angstroms; (across all 129 pairs:
    6509 0.388) 
    6510  
    6511 
    6512 > matchmaker #3 to #1
    6513 
    6514 Computing secondary structure 
    6515 Parameters 
    6516 --- 
    6517 Chain pairing | bb 
    6518 Alignment algorithm | Needleman-Wunsch 
    6519 Similarity matrix | BLOSUM-62 
    6520 SS fraction | 0.3 
    6521 Gap open (HH/SS/other) | 18/18/6 
    6522 Gap extend | 1 
    6523 SS matrix |  |  | H | S | O 
    6524 ---|---|---|--- 
    6525 H | 6 | -9 | -6 
    6526 S |  | 6 | -6 
    6527 O |  |  | 4 
    6528 Iteration cutoff | 2 
    6529  
    6530 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    6531 NCP_SS1_class4_RR_19.pdb, chain X (#3), sequence alignment score = 721.8 
    6532 RMSD between 129 pruned atom pairs is 0.388 angstroms; (across all 129 pairs:
    6533 0.388) 
    6534  
    6535 
    6536 > hide #2 models
    6537 
    6538 > show #2 models
    6539 
    6540 > hide #2 models
    6541 
    6542 > show #2 models
    6543 
    6544 > hide #2 models
    6545 
    6546 > show #2 models
    6547 
    6548 > hide #2 models
    6549 
    6550 > show #2 models
    6551 
    6552 > select #3/A-H
    6553 
    6554 6044 atoms, 6124 bonds, 764 residues, 1 model selected 
    6555 
    6556 > hide sel cartoons
    6557 
    6558 > hide sel atoms
    6559 
    6560 > select #2/A-H#3/A-H
    6561 
    6562 11998 atoms, 12157 bonds, 1515 residues, 2 models selected 
    6563 
    6564 > hide sel cartoons
    6565 
    6566 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6567 QFlags(NoModifier) 
    6568 
    6569 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6570 QFlags(ShiftModifier) 
    6571 
    6572 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6573 QFlags(ControlModifier) 
    6574 
    6575 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6576 QFlags(ShiftModifier|ControlModifier) 
    6577 
    6578 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6579 QFlags(AltModifier) 
    6580 
    6581 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6582 QFlags(ShiftModifier|AltModifier) 
    6583 
    6584 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6585 QFlags(ControlModifier|AltModifier) 
    6586 
    6587 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6588 QFlags(ShiftModifier|ControlModifier|AltModifier) 
    6589 
    6590 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6591 QFlags(MetaModifier) 
    6592 
    6593 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6594 QFlags(ShiftModifier|MetaModifier) 
    6595 
    6596 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6597 QFlags(ControlModifier|MetaModifier) 
    6598 
    6599 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6600 QFlags(ShiftModifier|ControlModifier|MetaModifier) 
    6601 
    6602 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6603 QFlags(AltModifier|MetaModifier) 
    6604 
    6605 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6606 QFlags(ShiftModifier|AltModifier|MetaModifier) 
    6607 
    6608 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6609 QFlags(ControlModifier|AltModifier|MetaModifier) 
    6610 
    6611 Mismatch between Cocoa '\x0' and Carbon '\x1b' for virtual key 53 with
    6612 QFlags(ShiftModifier|ControlModifier|AltModifier|MetaModifier) 
    6613 
    6614 > select #1/A-H#2/A-H#3/A-H
    6615 
    6616 18001 atoms, 18238 bonds, 2276 residues, 3 models selected 
    6617 
    6618 > hide sel cartoons
    6619 
    6620 > select #3/R
    6621 
    6622 93 atoms, 95 bonds, 11 residues, 1 model selected 
    6623 
    6624 > hide sel cartoons
    6625 
    6626 > select #1/R
    6627 
    6628 98 atoms, 100 bonds, 12 residues, 1 model selected 
    6629 
    6630 > hide sel cartoons
    6631 
    6632 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6633 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_SSX1RD-
    6634 > NCP-class1p3_vs_8HR1_vs_class4_ShowDNAandSSX_Schain.cxs
    6635 
    6636 > select #3/X
    6637 
    6638 2934 atoms, 3287 bonds, 144 residues, 1 model selected 
    6639 
    6640 > color sel #00f900ff
    6641 
    6642 > color sel #73fa79ff
    6643 
    6644 > ui tool show "Show Sequence Viewer"
    6645 
    6646 > sequence chain #3/Y
    6647 
    6648 Alignment identifier is 3/Y 
    6649 
    6650 > sequence chain #3/X
    6651 
    6652 Alignment identifier is 3/X 
    6653 
    6654 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6655 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/SequenceComp/SSX1RD-
    6656 > NCP-class4_chainX.fasta format fasta alignment 3/X
    6657 
    6658 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    6659 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/SequenceComp/SSX1RD-
    6660 > NCP-class4_chainY.fasta format fasta alignment 3/Y
    6661 
    6662 > select #3/Y:142
    6663 
    6664 20 atoms, 21 bonds, 1 residue, 1 model selected 
    6665 
    6666 > select #3/Y:1-142
    6667 
    6668 2927 atoms, 3286 bonds, 142 residues, 1 model selected 
    6669 
    6670 > select #3/Y:142
    6671 
    6672 20 atoms, 21 bonds, 1 residue, 1 model selected 
    6673 
    6674 > select #3/Y:4-142
    6675 
    6676 2867 atoms, 3219 bonds, 139 residues, 1 model selected 
    6677 
    6678 > select #2/J:69
    6679 
    6680 19 atoms, 20 bonds, 1 residue, 1 model selected 
    6681 
    6682 > select #2/J:65-69
    6683 
    6684 100 atoms, 111 bonds, 5 residues, 1 model selected 
    6685 
    6686 > select #3/X
    6687 
    6688 2934 atoms, 3287 bonds, 144 residues, 1 model selected 
    6689 
    6690 > select #3/X:3-141
    6691 
    6692 2832 atoms, 3173 bonds, 139 residues, 1 model selected 
    6693 
    6694 > color sel #73fa79fd
    6695 
    6696 > color sel #73fa79e7
    6697 
    6698 > color sel #73fa79dc
    6699 
    6700 > color sel #73fa79db
    6701 
    6702 > color sel #73fa79da
    6703 
    6704 > color sel #73fa79d6
    6705 
    6706 > color sel #73fa79d3
    6707 
    6708 > color sel #73fa79be
    6709 
    6710 > color sel #73fa79b6
    6711 
    6712 > color sel #73fa799c
    6713 
    6714 > color sel #73fa7981
    6715 
    6716 > color sel #73fa7973
    6717 
    6718 > color sel #73fa7966
    6719 
    6720 > color sel #73fa7961
    6721 
    6722 > color sel #73fa7960
    6723 
    6724 > color sel #73fa7954
    6725 
    6726 > color sel #73fa7953
    6727 
    6728 > color sel #73fa7951
    6729 
    6730 > color sel #73fa794e
    6731 
    6732 > color sel #73fa794b
    6733 
    6734 > color sel #73fa7948
    6735 
    6736 > color sel #73fa7947
    6737 
    6738 > color sel #73fa7943
    6739 
    6740 > color sel #73fa7941
    6741 
    6742 > color sel #73fa793f
    6743 
    6744 > color sel #73fa793a
    6745 
    6746 > color sel #73fa7939
    6747 
    6748 > color sel #73fa7938
    6749 
    6750 > color sel #73fa7931
    6751 
    6752 > color sel #73fa7930
    6753 
    6754 > color sel #73fa792f
    6755 
    6756 > color sel #73fa792e
    6757 
    6758 > color sel #73fa792d
    6759 
    6760 > color sel #73fa792b
    6761 
    6762 > color sel #73fa792a
    6763 
    6764 > color sel #73fa7929
    6765 
    6766 > color sel #73fa7928
    6767 
    6768 > color sel #73fa7926
    6769 
    6770 > color sel #73fa7924
    6771 
    6772 > color sel #73fa7923
    6773 
    6774 > color sel #73fa7924
    6775 
    6776 > color sel #73fa7926
    6777 
    6778 > color sel #73fa7927
    6779 
    6780 > color sel #73fa7928
    6781 
    6782 > color sel #73fa792a
    6783 
    6784 > color sel #73fa7929
    6785 
    6786 > color sel #73fa7928
    6787 
    6788 > color sel #73fa7927
    6789 
    6790 > select #3/X:1-2,142-144
    6791 
    6792 102 atoms, 112 bonds, 5 residues, 1 model selected 
    6793 
    6794 > color sel #73fa79ff
    6795 
    6796 > select #3/X:142-144
    6797 
    6798 63 atoms, 70 bonds, 3 residues, 1 model selected 
    6799 
    6800 > cartoon style width 3 thickness 1
    6801 
    6802 > select #3/Y:4-142
    6803 
    6804 2867 atoms, 3219 bonds, 139 residues, 1 model selected 
    6805 
    6806 > color sel #73fa79ff
    6807 
    6808 > color sel #73fa79fe
    6809 
    6810 > color sel #73fa79f9
    6811 
    6812 > color sel #73fa79f1
    6813 
    6814 > color sel #73fa79e9
    6815 
    6816 > color sel #73fa79e2
    6817 
    6818 > color sel #73fa79cd
    6819 
    6820 > color sel #73fa79cb
    6821 
    6822 > color sel #73fa79ca
    6823 
    6824 > color sel #73fa79c2
    6825 
    6826 > color sel #73fa79b1
    6827 
    6828 > color sel #73fa79af
    6829 
    6830 > color sel #73fa79a1
    6831 
    6832 > color sel #73fa7993
    6833 
    6834 > color sel #73fa7992
    6835 
    6836 > color sel #73fa7991
    6837 
    6838 > color sel #73fa798f
    6839 
    6840 > color sel #73fa798d
    6841 
    6842 > color sel #73fa7986
    6843 
    6844 > color sel #73fa7981
    6845 
    6846 > color sel #73fa7968
    6847 
    6848 > color sel #73fa7953
    6849 
    6850 > color sel #73fa7951
    6851 
    6852 > color sel #73fa794f
    6853 
    6854 > color sel #73fa794b
    6855 
    6856 > color sel #73fa7947
    6857 
    6858 > color sel #73fa7946
    6859 
    6860 > color sel #73fa7945
    6861 
    6862 > color sel #73fa7942
    6863 
    6864 > color sel #73fa793b
    6865 
    6866 > color sel #73fa7939
    6867 
    6868 > color sel #73fa792f
    6869 
    6870 > color sel #73fa792d
    6871 
    6872 > color sel #73fa792c
    6873 
    6874 > color sel #73fa792b
    6875 
    6876 > color sel #73fa792a
    6877 
    6878 > color sel #73fa7928
    6879 
    6880 > color sel #73fa7925
    6881 
    6882 > color sel #73fa7924
    6883 
    6884 > color sel #73fa7923
    6885 
    6886 > color sel #73fa7922
    6887 
    6888 > color sel #73fa7921
    6889 
    6890 > color sel #73fa7920
    6891 
    6892 > color sel #73fa791f
    6893 
    6894 > color sel #73fa791d
    6895 
    6896 > color sel #73fa791c
    6897 
    6898 > color sel #73fa791a
    6899 
    6900 > color sel #73fa7919
    6901 
    6902 > color sel #73fa7918
    6903 
    6904 > color sel #73fa7916
    6905 
    6906 > color sel #73fa7915
    6907 
    6908 > color sel #73fa7914
    6909 
    6910 > color sel #73fa7913
    6911 
    6912 > color sel #73fa7912
    6913 
    6914 > color sel #73fa7911
    6915 
    6916 > color sel #73fa7910
    6917 
    6918 > color sel #73fa790f
    6919 
    6920 > color sel #73fa790e
    6921 
    6922 > select #3/X:3-141
    6923 
    6924 2832 atoms, 3173 bonds, 139 residues, 1 model selected 
    6925 
    6926 > select #3/X:1-2
    6927 
    6928 39 atoms, 42 bonds, 2 residues, 1 model selected 
    6929 
    6930 > color sel #73fa79ff
    6931 
    6932 > select #3/X:142-144
    6933 
    6934 63 atoms, 70 bonds, 3 residues, 1 model selected 
    6935 
    6936 > color sel #73fa79ff
    6937 
    6938 > color sel #73fa79fe
    6939 
    6940 > color sel #73fa79f8
    6941 
    6942 > color sel #73fa79f4
    6943 
    6944 > color sel #73fa79f3
    6945 
    6946 > color sel #73fa79f8
    6947 
    6948 > color sel #73fa79fa
    6949 
    6950 > color sel #73fa79ff
    6951 
    6952 > color sel #73fa79fe
    6953 
    6954 > color sel #73fa79fd
    6955 
    6956 > color sel #73fa79fc
    6957 
    6958 > color sel #73fa79f2
    6959 
    6960 > color sel #73fa79f1
    6961 
    6962 > color sel #73fa79f0
    6963 
    6964 > color sel #73fa79ed
    6965 
    6966 > color sel #73fa79e5
    6967 
    6968 > color sel #73fa79e6
    6969 
    6970 > color sel #73fa79e8
    6971 
    6972 > color sel #73fa79f1
    6973 
    6974 > color sel #73fa79f9
    6975 
    6976 > color sel #73fa79ff
    6977 
    6978 > select #3/S
    6979 
    6980 103 atoms, 104 bonds, 13 residues, 1 model selected 
    6981 
    6982 > color sel #73fa79fe
    6983 
    6984 > color sel #73fa79f2
    6985 
    6986 > color sel #73fa79d1
    6987 
    6988 > color sel #73fa79ca
    6989 
    6990 > color sel #73fa79c1
    6991 
    6992 > color sel #73fa79b5
    6993 
    6994 > color sel #73fa79b7
    6995 
    6996 > color sel #73fa79bc
    6997 
    6998 > color sel #73fa79d0
    6999 
    7000 > color sel #73fa79ff
    7001 
    7002 > select clear
    7003 
    7004 > hide #1 models
    7005 
    7006 > select #3/Y:1-3
    7007 
    7008 60 atoms, 66 bonds, 3 residues, 1 model selected 
    7009 
    7010 > color sel forest green
    7011 
    7012 > color sel #73fa79ff
    7013 
    7014 > select #3/Y:143-144
    7015 
    7016 43 atoms, 48 bonds, 2 residues, 1 model selected 
    7017 
    7018 > color sel #73fa79ff
    7019 
    7020 > show #1 models
    7021 
    7022 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7023 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    7024 > NCP-class1p3_vs_class4_ShowDNAandSSX_Schain.cxs includeMaps true
    7025 
    7026 > hide #1 models
    7027 
    7028 > hide #3 models
    7029 
    7030 > show #1 models
    7031 
    7032 > save /Users/kenjiman/Desktop/image1.png supersample 3
    7033 
    7034 > show #3 models
    7035 
    7036 > hide #1 models
    7037 
    7038 > save /Users/kenjiman/Desktop/image1.png supersample 3
    7039 
    7040 > save /Users/kenjiman/Desktop/image2.png supersample 3
    7041 
    7042 > style sel stick
    7043 
    7044 Changed 43 atom styles 
    7045 
    7046 > select #3/S
    7047 
    7048 103 atoms, 104 bonds, 13 residues, 1 model selected 
    7049 
    7050 > show sel atoms
    7051 
    7052 > style sel stick
    7053 
    7054 Changed 103 atom styles 
    7055 
    7056 > size sel stickRadius +.5
    7057 
    7058 Changed 104 bond radii 
    7059 
    7060 > color sel byhetero
    7061 
    7062 > select solvent
    7063 
    7064 6 atoms, 6 residues, 2 models selected 
    7065 
    7066 > hide sel & #3 atoms
    7067 
    7068 > select #1/S
    7069 
    7070 158 atoms, 160 bonds, 20 residues, 1 model selected 
    7071 
    7072 > select #2/S
    7073 
    7074 129 atoms, 132 bonds, 14 residues, 1 model selected 
    7075 
    7076 > show sel atoms
    7077 
    7078 > select #3/S
    7079 
    7080 103 atoms, 104 bonds, 13 residues, 1 model selected 
    7081 
    7082 > size sel stickRadius -.5
    7083 
    7084 Changed 104 bond radii 
    7085 
    7086 > size sel stickRadius +.5
    7087 
    7088 Changed 104 bond radii 
    7089 
    7090 > size sel stickRadius 1
    7091 
    7092 Changed 104 bond radii 
    7093 
    7094 > size sel stickRadius 0.5
    7095 
    7096 Changed 104 bond radii 
    7097 
    7098 > select clear
    7099 
    7100 > save /Users/kenjiman/Desktop/image1.png supersample 3
    7101 
    7102 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7103 > Nuc/NatComm/原稿/Figures/Materials/SSX2RD-NCPs/SSX2RD-NCP-
    7104 > class2/NCP_SSX2_class2_RR_09.pdb
    7105 
    7106 Chain information for NCP_SSX2_class2_RR_09.pdb #4 
    7107 --- 
    7108 Chain | Description 
    7109 A | No description available 
    7110 B F | No description available 
    7111 C | No description available 
    7112 D | No description available 
    7113 E | No description available 
    7114 G | No description available 
    7115 H | No description available 
    7116 R | No description available 
    7117 S | No description available 
    7118 X | No description available 
    7119 Y | No description available 
    7120  
    7121 52 atoms have alternate locations. Control/examine alternate locations with
    7122 Altloc Explorer [start tool...] or the altlocs command. 
    7123 
    7124 > hide #2-4 atoms
    7125 
    7126 > show #2-4 cartoons
    7127 
    7128 > select #4/A-H
    7129 
    7130 5986 atoms, 6063 bonds, 758 residues, 1 model selected 
    7131 
    7132 > hide sel cartoons
    7133 
    7134 > select #1-3/A-H
    7135 
    7136 18001 atoms, 18238 bonds, 2276 residues, 3 models selected 
    7137 
    7138 > hide sel & #2-3 cartoons
    7139 
    7140 > ui tool show Matchmaker
    7141 
    7142 > matchmaker #4 to #1
    7143 
    7144 Computing secondary structure 
    7145 Parameters 
    7146 --- 
    7147 Chain pairing | bb 
    7148 Alignment algorithm | Needleman-Wunsch 
    7149 Similarity matrix | BLOSUM-62 
    7150 SS fraction | 0.3 
    7151 Gap open (HH/SS/other) | 18/18/6 
    7152 Gap extend | 1 
    7153 SS matrix |  |  | H | S | O 
    7154 ---|---|---|--- 
    7155 H | 6 | -9 | -6 
    7156 S |  | 6 | -6 
    7157 O |  |  | 4 
    7158 Iteration cutoff | 2 
    7159  
    7160 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    7161 NCP_SSX2_class2_RR_09.pdb, chain X (#4), sequence alignment score = 721.8 
    7162 RMSD between 129 pruned atom pairs is 0.546 angstroms; (across all 129 pairs:
    7163 0.546) 
    7164  
    7165 
    7166 > matchmaker #4 to #2
    7167 
    7168 Computing secondary structure 
    7169 Parameters 
    7170 --- 
    7171 Chain pairing | bb 
    7172 Alignment algorithm | Needleman-Wunsch 
    7173 Similarity matrix | BLOSUM-62 
    7174 SS fraction | 0.3 
    7175 Gap open (HH/SS/other) | 18/18/6 
    7176 Gap extend | 1 
    7177 SS matrix |  |  | H | S | O 
    7178 ---|---|---|--- 
    7179 H | 6 | -9 | -6 
    7180 S |  | 6 | -6 
    7181 O |  |  | 4 
    7182 Iteration cutoff | 2 
    7183  
    7184 Matchmaker 8hr1.pdb1, chain J (#2) with NCP_SSX2_class2_RR_09.pdb, chain X
    7185 (#4), sequence alignment score = 707.8 
    7186 RMSD between 129 pruned atom pairs is 0.639 angstroms; (across all 129 pairs:
    7187 0.639) 
    7188  
    7189 
    7190 > matchmaker #4 to #1
    7191 
    7192 Computing secondary structure 
    7193 Parameters 
    7194 --- 
    7195 Chain pairing | bb 
    7196 Alignment algorithm | Needleman-Wunsch 
    7197 Similarity matrix | BLOSUM-62 
    7198 SS fraction | 0.3 
    7199 Gap open (HH/SS/other) | 18/18/6 
    7200 Gap extend | 1 
    7201 SS matrix |  |  | H | S | O 
    7202 ---|---|---|--- 
    7203 H | 6 | -9 | -6 
    7204 S |  | 6 | -6 
    7205 O |  |  | 4 
    7206 Iteration cutoff | 2 
    7207  
    7208 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    7209 NCP_SSX2_class2_RR_09.pdb, chain X (#4), sequence alignment score = 721.8 
    7210 RMSD between 129 pruned atom pairs is 0.546 angstroms; (across all 129 pairs:
    7211 0.546) 
    7212  
    7213 
    7214 > matchmaker #4 to #1
    7215 
    7216 Computing secondary structure 
    7217 Parameters 
    7218 --- 
    7219 Chain pairing | bb 
    7220 Alignment algorithm | Needleman-Wunsch 
    7221 Similarity matrix | BLOSUM-62 
    7222 SS fraction | 0.3 
    7223 Gap open (HH/SS/other) | 18/18/6 
    7224 Gap extend | 1 
    7225 SS matrix |  |  | H | S | O 
    7226 ---|---|---|--- 
    7227 H | 6 | -9 | -6 
    7228 S |  | 6 | -6 
    7229 O |  |  | 4 
    7230 Iteration cutoff | 2 
    7231  
    7232 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    7233 NCP_SSX2_class2_RR_09.pdb, chain X (#4), sequence alignment score = 721.8 
    7234 RMSD between 129 pruned atom pairs is 0.546 angstroms; (across all 129 pairs:
    7235 0.546) 
    7236  
    7237 
    7238 > hide #3 models
    7239 
    7240 > select #4/R
    7241 
    7242 71 atoms, 73 bonds, 8 residues, 1 model selected 
    7243 
    7244 > hide sel cartoons
    7245 
    7246 > select up
    7247 
    7248 11543 atoms, 12277 bonds, 1043 residues, 1 model selected 
    7249 
    7250 > cartoon style width 3 thickness 1
    7251 
    7252 > select #4/X
    7253 
    7254 2628 atoms, 2944 bonds, 129 residues, 1 model selected 
    7255 
    7256 > ui tool show "Color Actions"
    7257 
    7258 > color sel yellow
    7259 
    7260 > color sel #fffb00ff
    7261 
    7262 > color sel #fffc79ff
    7263 
    7264 > select #4/Y
    7265 
    7266 2723 atoms, 3058 bonds, 132 residues, 1 model selected 
    7267 
    7268 > color sel #fffc79ff
    7269 
    7270 > select clear
    7271 
    7272 > select #4/S
    7273 
    7274 135 atoms, 139 bonds, 16 residues, 1 model selected 
    7275 
    7276 > color sel #fffc79ff
    7277 
    7278 > select clear
    7279 
    7280 > ui tool show "Show Sequence Viewer"
    7281 
    7282 > sequence chain #4/Y
    7283 
    7284 Alignment identifier is 4/Y 
    7285 
    7286 > sequence chain #4/X
    7287 
    7288 Alignment identifier is 4/X 
    7289 
    7290 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7291 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    7292 > NCP-class2_chainX.fasta format fasta alignment 4/X
    7293 
    7294 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7295 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    7296 > NCP-class2_chainY.fasta format fasta alignment 4/Y
    7297 
    7298 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7299 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    7300 > NCP-class2_vs_class3_ShowDNAandSSX_Schain.cxs includeMaps true
    7301 
    7302 > select #4/Y:4
    7303 
    7304 22 atoms, 24 bonds, 1 residue, 1 model selected 
    7305 
    7306 > select #4/Y:4-132
    7307 
    7308 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    7309 
    7310 > color sel #fffc79ff
    7311 
    7312 > color sel #fffc79fc
    7313 
    7314 > color sel #fffc79a7
    7315 
    7316 > color sel #fffc793e
    7317 
    7318 > color sel #fffc7933
    7319 
    7320 > color sel #fffc7932
    7321 
    7322 > color sel #fffc7931
    7323 
    7324 > color sel #fffc792f
    7325 
    7326 > color sel #fffc792c
    7327 
    7328 > color sel #fffc7925
    7329 
    7330 > color sel #fffc7913
    7331 
    7332 > color sel #fffc7911
    7333 
    7334 > color sel #fffc7910
    7335 
    7336 > color sel #fffc790e
    7337 
    7338 > color sel #fffc790d
    7339 
    7340 > color sel #fffc790c
    7341 
    7342 > select #4/Y:1
    7343 
    7344 21 atoms, 23 bonds, 1 residue, 1 model selected 
    7345 
    7346 > select #4/Y:1-3
    7347 
    7348 60 atoms, 66 bonds, 3 residues, 1 model selected 
    7349 
    7350 > color sel #fffc79ff
    7351 
    7352 > color sel #fffc79fe
    7353 
    7354 > color sel #fffc79eb
    7355 
    7356 > color sel #fffc79bd
    7357 
    7358 > color sel #fffc79c0
    7359 
    7360 > color sel #fffc79ff
    7361 
    7362 > select clear
    7363 
    7364 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7365 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    7366 > NCP-class2_vs_class3_ShowDNAandSSX_Schain.cxs
    7367 
    7368 > select #2/J:50
    7369 
    7370 21 atoms, 23 bonds, 1 residue, 1 model selected 
    7371 
    7372 > select #2/J:-43-50
    7373 
    7374 1911 atoms, 2139 bonds, 94 residues, 1 model selected 
    7375 
    7376 > select #4/I:-73--70
    7377 
    7378 Nothing selected 
    7379 
    7380 > select #1/I:-73--70
    7381 
    7382 Nothing selected 
    7383 
    7384 > select #2/I:-73--70
    7385 
    7386 83 atoms, 93 bonds, 4 residues, 1 model selected 
    7387 
    7388 > color sel #7a81ffff
    7389 
    7390 > select #2/I:60-73
    7391 
    7392 285 atoms, 318 bonds, 14 residues, 1 model selected 
    7393 
    7394 > color sel #7a81ffff
    7395 
    7396 > select #2/I:-69-59
    7397 
    7398 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    7399 
    7400 > color sel #7a81ffff
    7401 
    7402 > color sel #7a81fffe
    7403 
    7404 > color sel #7a81fffc
    7405 
    7406 > color sel #7a81fff3
    7407 
    7408 > color sel #7a81ffe9
    7409 
    7410 > color sel #7a81ffda
    7411 
    7412 > color sel #7a81ffd7
    7413 
    7414 > color sel #7a81ffcb
    7415 
    7416 > color sel #7a81ffc5
    7417 
    7418 > color sel #7a81ffc3
    7419 
    7420 > color sel #7a81ffc2
    7421 
    7422 > color sel #7a81ffbe
    7423 
    7424 > color sel #7a81ffb2
    7425 
    7426 > color sel #7a81ffa7
    7427 
    7428 > color sel #7a81ff9b
    7429 
    7430 > color sel #7a81ff80
    7431 
    7432 > color sel #7a81ff79
    7433 
    7434 > color sel #7a81ff77
    7435 
    7436 > color sel #7a81ff70
    7437 
    7438 > color sel #7a81ff69
    7439 
    7440 > color sel #7a81ff41
    7441 
    7442 > color sel #7a81ff3c
    7443 
    7444 > color sel #7a81ff3b
    7445 
    7446 > color sel #7a81ff37
    7447 
    7448 > color sel #7a81ff2d
    7449 
    7450 > color sel #7a81ff2c
    7451 
    7452 > color sel #7a81ff2a
    7453 
    7454 > color sel #7a81ff20
    7455 
    7456 > color sel #7a81ff17
    7457 
    7458 > color sel #7a81ff11
    7459 
    7460 > color sel #7a81ff10
    7461 
    7462 > color sel #7a81ff0f
    7463 
    7464 > color sel #7a81ff0e
    7465 
    7466 > color sel #7a81ff0d
    7467 
    7468 > color sel #7a81ff0c
    7469 
    7470 > color sel #7a81ff0d
    7471 
    7472 > color sel #7a81ff0e
    7473 
    7474 > color sel #7a81ff0f
    7475 
    7476 > color sel #7a81ff0e
    7477 
    7478 > color sel #7a81ff0d
    7479 
    7480 > color sel #7a81ff0c
    7481 
    7482 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    7483 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    7484 > NCP-class2_vs_class3_ShowDNAandSSX_Schain.cxs
    7485 
    7486 > select #2/J:-73--70
    7487 
    7488 83 atoms, 92 bonds, 4 residues, 1 model selected 
    7489 
    7490 > select #2/J:-69-59
    7491 
    7492 2630 atoms, 2947 bonds, 129 residues, 1 model selected 
    7493 
    7494 > color sel #7a81ffff
    7495 
    7496 > color sel #7a81fffe
    7497 
    7498 > color sel #7a81fffb
    7499 
    7500 > color sel #7a81ffe6
    7501 
    7502 > color sel #7a81ffcf
    7503 
    7504 > color sel #7a81ff79
    7505 
    7506 > color sel #7a81ff64
    7507 
    7508 > color sel #7a81ff53
    7509 
    7510 > color sel #7a81ff50
    7511 
    7512 > color sel #7a81ff4d
    7513 
    7514 > color sel #7a81ff44
    7515 
    7516 > color sel #7a81ff40
    7517 
    7518 > color sel #7a81ff3e
    7519 
    7520 > color sel #7a81ff3d
    7521 
    7522 > color sel #7a81ff30
    7523 
    7524 > color sel #7a81ff28
    7525 
    7526 > color sel #7a81ff1b
    7527 
    7528 > color sel #7a81ff14
    7529 
    7530 > color sel #7a81ff0f
    7531 
    7532 > color sel #7a81ff0e
    7533 
    7534 > color sel #7a81ff0d
    7535 
    7536 > color sel #7a81ff0c
    7537 
    7538 > color sel #7a81ff0d
    7539 
    7540 > select #2/I:-69-59
    7541 
    7542 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    7543 
    7544 > color sel #fffc79ff
    7545 
    7546 > color sel #fffc79fe
    7547 
    7548 > color sel #fffc79f8
    7549 
    7550 > color sel #fffc79f0
    7551 
    7552 > color sel #fffc79e4
    7553 
    7554 > color sel #fffc79db
    7555 
    7556 > color sel #fffc79c3
    7557 
    7558 > color sel #fffc79b5
    7559 
    7560 > color sel #fffc79b3
    7561 
    7562 > color sel #fffc799f
    7563 
    7564 > color sel #fffc799c
    7565 
    7566 > color sel #fffc799b
    7567 
    7568 > color sel #fffc7998
    7569 
    7570 > color sel #fffc7991
    7571 
    7572 > color sel #fffc7988
    7573 
    7574 > color sel #fffc7974
    7575 
    7576 > color sel #fffc796a
    7577 
    7578 > color sel #fffc7953
    7579 
    7580 > color sel #fffc7952
    7581 
    7582 > color sel #fffc794e
    7583 
    7584 > color sel #fffc794a
    7585 
    7586 > color sel #fffc7947
    7587 
    7588 > color sel #fffc7944
    7589 
    7590 > color sel #fffc793e
    7591 
    7592 > color sel #fffc793a
    7593 
    7594 > color sel #fffc7937
    7595 
    7596 > color sel #fffc7936
    7597 
    7598 > color sel #fffc7935
    7599 
    7600 > color sel #fffc7934
    7601 
    7602 > color sel #fffc7932
    7603 
    7604 > color sel #fffc7931
    7605 
    7606 > color sel #fffc7930
    7607 
    7608 > color sel #fffc792d
    7609 
    7610 > color sel #fffc792c
    7611 
    7612 > color sel #fffc792b
    7613 
    7614 > color sel #fffc792a
    7615 
    7616 > color sel #fffc7929
    7617 
    7618 > color sel #fffc7928
    7619 
    7620 > color sel #fffc7927
    7621 
    7622 > color sel #fffc7926
    7623 
    7624 > color sel #fffc7925
    7625 
    7626 > color sel #fffc7924
    7627 
    7628 > color sel #fffc7923
    7629 
    7630 > color sel #fffc7922
    7631 
    7632 > color sel #fffc7920
    7633 
    7634 > color sel #fffc791f
    7635 
    7636 > color sel #fffc791e
    7637 
    7638 > color sel #fffc791d
    7639 
    7640 > color sel #fffc791c
    7641 
    7642 > color sel #fffc791b
    7643 
    7644 > color sel #fffc791a
    7645 
    7646 > color sel #fffc7917
    7647 
    7648 > color sel #fffc7916
    7649 
    7650 > color sel #fffc7915
    7651 
    7652 > color sel #fffc7914
    7653 
    7654 > color sel #fffc7913
    7655 
    7656 > color sel #fffc7912
    7657 
    7658 > color sel #fffc7911
    7659 
    7660 > color sel #fffc7910
    7661 
    7662 > color sel #fffc790f
    7663 
    7664 > color sel #fffc790e
    7665 
    7666 > color sel #fffc790d
    7667 
    7668 > select #2/I:-73-70
    7669 
    7670 2969 atoms, 3334 bonds, 144 residues, 1 model selected 
    7671 
    7672 > select #2/I:-73--70
    7673 
    7674 83 atoms, 93 bonds, 4 residues, 1 model selected 
    7675 
    7676 > color sel #fffc79ff
    7677 
    7678 > select #2/I:60-73
    7679 
    7680 285 atoms, 318 bonds, 14 residues, 1 model selected 
    7681 
    7682 > color sel #fffc79ff
    7683 
    7684 > select #2/I:-69-59
    7685 
    7686 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    7687 
    7688 > color sel #fffc79ff
    7689 
    7690 > color sel #fffc79fe
    7691 
    7692 > color sel #fffc79fc
    7693 
    7694 > color sel #fffc79d3
    7695 
    7696 > color sel #fffc79c4
    7697 
    7698 > color sel #fffc79c3
    7699 
    7700 > color sel #fffc79be
    7701 
    7702 > color sel #fffc79a7
    7703 
    7704 > color sel #fffc79a0
    7705 
    7706 > color sel #fffc799d
    7707 
    7708 > color sel #fffc7990
    7709 
    7710 > color sel #fffc798b
    7711 
    7712 > color sel #fffc798a
    7713 
    7714 > color sel #fffc7988
    7715 
    7716 > color sel #fffc7985
    7717 
    7718 > color sel #fffc7983
    7719 
    7720 > color sel #fffc7981
    7721 
    7722 > color sel #fffc7979
    7723 
    7724 > color sel #fffc7976
    7725 
    7726 > color sel #fffc7973
    7727 
    7728 > color sel #fffc7962
    7729 
    7730 > color sel #fffc7958
    7731 
    7732 > color sel #fffc7949
    7733 
    7734 > color sel #fffc7944
    7735 
    7736 > color sel #fffc7938
    7737 
    7738 > color sel #fffc7930
    7739 
    7740 > color sel #fffc792e
    7741 
    7742 > color sel #fffc792d
    7743 
    7744 > color sel #fffc792b
    7745 
    7746 > color sel #fffc7928
    7747 
    7748 > color sel #fffc7925
    7749 
    7750 > color sel #fffc791f
    7751 
    7752 > color sel #fffc791c
    7753 
    7754 > color sel #fffc7915
    7755 
    7756 > color sel #fffc7914
    7757 
    7758 > color sel #fffc7913
    7759 
    7760 > color sel #fffc7912
    7761 
    7762 > color sel #fffc7911
    7763 
    7764 > color sel #fffc7910
    7765 
    7766 > color sel #fffc790f
    7767 
    7768 > color sel #fffc790e
    7769 
    7770 > select #2/J:-69-59
    7771 
    7772 2630 atoms, 2947 bonds, 129 residues, 1 model selected 
    7773 
    7774 > color sel #fffc79ff
    7775 
    7776 > color sel #fffc79f3
    7777 
    7778 > color sel #fffc79e4
    7779 
    7780 > color sel #fffc79c4
    7781 
    7782 > color sel #fffc79b0
    7783 
    7784 > color sel #fffc799c
    7785 
    7786 > color sel #fffc7999
    7787 
    7788 > color sel #fffc7990
    7789 
    7790 > color sel #fffc798d
    7791 
    7792 > color sel #fffc7989
    7793 
    7794 > color sel #fffc7987
    7795 
    7796 > color sel #fffc7986
    7797 
    7798 > color sel #fffc7984
    7799 
    7800 > color sel #fffc7980
    7801 
    7802 > color sel #fffc7974
    7803 
    7804 > color sel #fffc796a
    7805 
    7806 > color sel #fffc795c
    7807 
    7808 > color sel #fffc794a
    7809 
    7810 > color sel #fffc792a
    7811 
    7812 > color sel #fffc791f
    7813 
    7814 > color sel #fffc790f
    7815 
    7816 > color sel #fffc7905
    7817 
    7818 > color sel #fffc7903
    7819 
    7820 > color sel #fffc7904
    7821 
    7822 > color sel #fffc7905
    7823 
    7824 > color sel #fffc7907
    7825 
    7826 > color sel #fffc7908
    7827 
    7828 > color sel #fffc7909
    7829 
    7830 > color sel #fffc790a
    7831 
    7832 > color sel #fffc790b
    7833 
    7834 > color sel #fffc790c
    7835 
    7836 > color sel #fffc790d
    7837 
    7838 > color sel #fffc790e
    7839 
    7840 > color sel #7a81ffff
    7841 
    7842 > color sel #7a81fff3
    7843 
    7844 > color sel #7a81ffe6
    7845 
    7846 > color sel #7a81ffe0
    7847 
    7848 > color sel #7a81ffda
    7849 
    7850 > color sel #7a81ffc2
    7851 
    7852 > color sel #7a81ffac
    7853 
    7854 > color sel #7a81ffa7
    7855 
    7856 > color sel #7a81ffa1
    7857 
    7858 > color sel #7a81ff9c
    7859 
    7860 > color sel #7a81ff99
    7861 
    7862 > color sel #7a81ff97
    7863 
    7864 > color sel #7a81ff90
    7865 
    7866 > color sel #7a81ff88
    7867 
    7868 > color sel #7a81ff77
    7869 
    7870 > color sel #7a81ff75
    7871 
    7872 > color sel #7a81ff6f
    7873 
    7874 > color sel #7a81ff69
    7875 
    7876 > color sel #7a81ff61
    7877 
    7878 > color sel #7a81ff5b
    7879 
    7880 > color sel #7a81ff59
    7881 
    7882 > color sel #7a81ff53
    7883 
    7884 > color sel #7a81ff44
    7885 
    7886 > color sel #7a81ff3d
    7887 
    7888 > color sel #7a81ff35
    7889 
    7890 > color sel #7a81ff2e
    7891 
    7892 > color sel #7a81ff2b
    7893 
    7894 > color sel #7a81ff24
    7895 
    7896 > color sel #7a81ff20
    7897 
    7898 > color sel #7a81ff16
    7899 
    7900 > color sel #7a81ff14
    7901 
    7902 > color sel #7a81ff12
    7903 
    7904 > color sel #7a81ff11
    7905 
    7906 > color sel #7a81ff0f
    7907 
    7908 > color sel #7a81ff0e
    7909 
    7910 > color sel #7a81ff0d
    7911 
    7912 > color sel #7a81ff0e
    7913 
    7914 > select #2/J:-73-70
    7915 
    7916 2934 atoms, 3287 bonds, 144 residues, 1 model selected 
    7917 
    7918 > color sel #7a81ffff
    7919 
    7920 > select #2/J:-73--70
    7921 
    7922 83 atoms, 92 bonds, 4 residues, 1 model selected 
    7923 
    7924 > color sel #7a81ffff
    7925 
    7926 > select #2/J:-59-59
    7927 
    7928 2424 atoms, 2715 bonds, 119 residues, 1 model selected 
    7929 
    7930 > color sel #7a81fffe
    7931 
    7932 > color sel #7a81ffe8
    7933 
    7934 > color sel #7a81ff5f
    7935 
    7936 > color sel #7a81ff4a
    7937 
    7938 > color sel #7a81ff44
    7939 
    7940 > color sel #7a81ff43
    7941 
    7942 > color sel #7a81ff3f
    7943 
    7944 > color sel #7a81ff39
    7945 
    7946 > color sel #7a81ff38
    7947 
    7948 > color sel #7a81ff37
    7949 
    7950 > color sel #7a81ff34
    7951 
    7952 > color sel #7a81ff33
    7953 
    7954 > color sel #7a81ff32
    7955 
    7956 > color sel #7a81ff30
    7957 
    7958 > color sel #7a81ff2e
    7959 
    7960 > color sel #7a81ff2d
    7961 
    7962 > color sel #7a81ff2c
    7963 
    7964 > color sel #7a81ff2a
    7965 
    7966 > color sel #7a81ff28
    7967 
    7968 > color sel #7a81ff26
    7969 
    7970 > color sel #7a81ff23
    7971 
    7972 > color sel #7a81ff22
    7973 
    7974 > color sel #7a81ff21
    7975 
    7976 > color sel #7a81ff20
    7977 
    7978 > color sel #7a81ff1f
    7979 
    7980 > color sel #7a81ff1d
    7981 
    7982 > color sel #7a81ff1c
    7983 
    7984 > color sel #7a81ff19
    7985 
    7986 > color sel #7a81ff18
    7987 
    7988 > color sel #7a81ff17
    7989 
    7990 > color sel #7a81ff16
    7991 
    7992 > color sel #7a81ff15
    7993 
    7994 > color sel #7a81ff14
    7995 
    7996 > color sel #7a81ff13
    7997 
    7998 > color sel #7a81ff12
    7999 
    8000 > color sel #7a81ff11
    8001 
    8002 > color sel #7a81ff10
    8003 
    8004 > color sel #7a81ff0f
    8005 
    8006 > color sel #7a81ff0e
    8007 
    8008 > select #2/J:60-73
    8009 
    8010 283 atoms, 315 bonds, 14 residues, 1 model selected 
    8011 
    8012 > color sel #7a81ffff
    8013 
    8014 > select #2/J:-69-+50
    8015 
    8016 Expected an objects specifier or a keyword 
    8017 
    8018 > select #2/J:-69-50
    8019 
    8020 2444 atoms, 2738 bonds, 120 residues, 1 model selected 
    8021 
    8022 > color sel #7a81ffff
    8023 
    8024 > color sel #7a81fffe
    8025 
    8026 > color sel #7a81fff7
    8027 
    8028 > color sel #7a81fff6
    8029 
    8030 > color sel #7a81fff4
    8031 
    8032 > color sel #7a81fff3
    8033 
    8034 > color sel #7a81ffef
    8035 
    8036 > color sel #7a81ffee
    8037 
    8038 > color sel #7a81ffed
    8039 
    8040 > color sel #7a81ffe4
    8041 
    8042 > color sel #7a81ffdc
    8043 
    8044 > color sel #7a81ffd9
    8045 
    8046 > color sel #7a81ffd0
    8047 
    8048 > color sel #7a81ffca
    8049 
    8050 > color sel #7a81ffc8
    8051 
    8052 > color sel #7a81ffc2
    8053 
    8054 > color sel #7a81ffba
    8055 
    8056 > color sel #7a81ffb5
    8057 
    8058 > color sel #7a81ffac
    8059 
    8060 > color sel #7a81ff88
    8061 
    8062 > color sel #7a81ff81
    8063 
    8064 > color sel #7a81ff7f
    8065 
    8066 > color sel #7a81ff75
    8067 
    8068 > color sel #7a81ff6f
    8069 
    8070 > color sel #7a81ff61
    8071 
    8072 > color sel #7a81ff5a
    8073 
    8074 > color sel #7a81ff4a
    8075 
    8076 > color sel #7a81ff45
    8077 
    8078 > color sel #7a81ff42
    8079 
    8080 > color sel #7a81ff40
    8081 
    8082 > color sel #7a81ff39
    8083 
    8084 > color sel #7a81ff38
    8085 
    8086 > color sel #7a81ff36
    8087 
    8088 > color sel #7a81ff32
    8089 
    8090 > color sel #7a81ff2f
    8091 
    8092 > color sel #7a81ff2e
    8093 
    8094 > color sel #7a81ff2c
    8095 
    8096 > color sel #7a81ff2b
    8097 
    8098 > color sel #7a81ff2a
    8099 
    8100 > color sel #7a81ff27
    8101 
    8102 > color sel #7a81ff25
    8103 
    8104 > color sel #7a81ff23
    8105 
    8106 > color sel #7a81ff21
    8107 
    8108 > color sel #7a81ff1e
    8109 
    8110 > color sel #7a81ff1d
    8111 
    8112 > color sel #7a81ff19
    8113 
    8114 > color sel #7a81ff17
    8115 
    8116 > color sel #7a81ff15
    8117 
    8118 > color sel #7a81ff11
    8119 
    8120 > color sel #7a81ff0e
    8121 
    8122 > color sel #7a81ff0c
    8123 
    8124 > select #2/I:-73--70
    8125 
    8126 83 atoms, 93 bonds, 4 residues, 1 model selected 
    8127 
    8128 > color sel #7a81ffff
    8129 
    8130 > select #2/I:-69-50
    8131 
    8132 2480 atoms, 2786 bonds, 120 residues, 1 model selected 
    8133 
    8134 > color sel #7a81ffff
    8135 
    8136 > color sel #7a81ffe8
    8137 
    8138 > color sel #7a81ff8c
    8139 
    8140 > color sel #7a81ff5d
    8141 
    8142 > color sel #7a81ff52
    8143 
    8144 > color sel #7a81ff4d
    8145 
    8146 > color sel #7a81ff49
    8147 
    8148 > color sel #7a81ff48
    8149 
    8150 > color sel #7a81ff47
    8151 
    8152 > color sel #7a81ff42
    8153 
    8154 > color sel #7a81ff41
    8155 
    8156 > color sel #7a81ff3d
    8157 
    8158 > color sel #7a81ff39
    8159 
    8160 > color sel #7a81ff38
    8161 
    8162 > color sel #7a81ff34
    8163 
    8164 > color sel #7a81ff32
    8165 
    8166 > color sel #7a81ff30
    8167 
    8168 > color sel #7a81ff2f
    8169 
    8170 > color sel #7a81ff2e
    8171 
    8172 > color sel #7a81ff23
    8173 
    8174 > color sel #7a81ff0f
    8175 
    8176 > color sel #7a81ff0e
    8177 
    8178 > color sel #7a81ff0c
    8179 
    8180 > color sel #7a81ff07
    8181 
    8182 > color sel #7a81ff08
    8183 
    8184 > color sel #7a81ff09
    8185 
    8186 > color sel #7a81ff0a
    8187 
    8188 > color sel #7a81ff0b
    8189 
    8190 > color sel #7a81ff0d
    8191 
    8192 > select #2/I:60-73
    8193 
    8194 285 atoms, 318 bonds, 14 residues, 1 model selected 
    8195 
    8196 > color sel #7a81ffff
    8197 
    8198 > select #2/J:-73--57
    8199 
    8200 350 atoms, 392 bonds, 17 residues, 1 model selected 
    8201 
    8202 > color sel #7a81ffff
    8203 
    8204 > select #2/J:-56-69
    8205 
    8206 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    8207 
    8208 > color sel #7a81ffff
    8209 
    8210 > color sel #7a81fffe
    8211 
    8212 > color sel #7a81fff5
    8213 
    8214 > color sel #7a81ffe3
    8215 
    8216 > color sel #7a81ffc7
    8217 
    8218 > color sel #7a81ffa0
    8219 
    8220 > color sel #7a81ff81
    8221 
    8222 > color sel #7a81ff73
    8223 
    8224 > color sel #7a81ff66
    8225 
    8226 > color sel #7a81ff63
    8227 
    8228 > color sel #7a81ff5a
    8229 
    8230 > color sel #7a81ff55
    8231 
    8232 > color sel #7a81ff4b
    8233 
    8234 > color sel #7a81ff48
    8235 
    8236 > color sel #7a81ff43
    8237 
    8238 > color sel #7a81ff3d
    8239 
    8240 > color sel #7a81ff3c
    8241 
    8242 > color sel #7a81ff3b
    8243 
    8244 > color sel #7a81ff3a
    8245 
    8246 > color sel #7a81ff37
    8247 
    8248 > color sel #7a81ff33
    8249 
    8250 > color sel #7a81ff31
    8251 
    8252 > color sel #7a81ff2d
    8253 
    8254 > color sel #7a81ff2c
    8255 
    8256 > color sel #7a81ff2b
    8257 
    8258 > color sel #7a81ff2a
    8259 
    8260 > color sel #7a81ff29
    8261 
    8262 > color sel #7a81ff28
    8263 
    8264 > color sel #7a81ff25
    8265 
    8266 > color sel #7a81ff24
    8267 
    8268 > color sel #7a81ff21
    8269 
    8270 > color sel #7a81ff20
    8271 
    8272 > color sel #7a81ff1e
    8273 
    8274 > color sel #7a81ff1d
    8275 
    8276 > color sel #7a81ff1c
    8277 
    8278 > color sel #7a81ff1b
    8279 
    8280 > color sel #7a81ff1a
    8281 
    8282 > color sel #7a81ff19
    8283 
    8284 > color sel #7a81ff18
    8285 
    8286 > color sel #7a81ff17
    8287 
    8288 > color sel #7a81ff16
    8289 
    8290 > color sel #7a81ff15
    8291 
    8292 > color sel #7a81ff14
    8293 
    8294 > color sel #7a81ff13
    8295 
    8296 > color sel #7a81ff12
    8297 
    8298 > color sel #7a81ff11
    8299 
    8300 > color sel #7a81ff10
    8301 
    8302 > color sel #7a81ff0f
    8303 
    8304 > color sel #7a81ff0e
    8305 
    8306 > color sel #7a81ff0d
    8307 
    8308 > color sel #7a81ff0c
    8309 
    8310 > color sel #7a81ff0d
    8311 
    8312 > select #2/J:70-73
    8313 
    8314 81 atoms, 89 bonds, 4 residues, 1 model selected 
    8315 
    8316 > color sel #7a81ffff
    8317 
    8318 > select #4/Y:1-3
    8319 
    8320 60 atoms, 66 bonds, 3 residues, 1 model selected 
    8321 
    8322 > color sel #fffc79ff
    8323 
    8324 > select #4/Y:4-132
    8325 
    8326 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    8327 
    8328 > color sel #fffc79ff
    8329 
    8330 > color sel #fffc79fe
    8331 
    8332 > color sel #fffc79fd
    8333 
    8334 > color sel #fffc79e6
    8335 
    8336 > color sel #fffc79c5
    8337 
    8338 > color sel #fffc79a1
    8339 
    8340 > color sel #fffc7982
    8341 
    8342 > color sel #fffc7974
    8343 
    8344 > color sel #fffc7966
    8345 
    8346 > color sel #fffc7956
    8347 
    8348 > color sel #fffc7955
    8349 
    8350 > color sel #fffc7952
    8351 
    8352 > color sel #fffc7946
    8353 
    8354 > color sel #fffc7943
    8355 
    8356 > color sel #fffc7940
    8357 
    8358 > color sel #fffc793e
    8359 
    8360 > color sel #fffc793d
    8361 
    8362 > color sel #fffc793c
    8363 
    8364 > color sel #fffc7938
    8365 
    8366 > color sel #fffc7936
    8367 
    8368 > color sel #fffc7935
    8369 
    8370 > color sel #fffc7932
    8371 
    8372 > color sel #fffc792d
    8373 
    8374 > color sel #fffc792c
    8375 
    8376 > color sel #fffc7929
    8377 
    8378 > color sel #fffc7925
    8379 
    8380 > color sel #fffc7924
    8381 
    8382 > color sel #fffc7923
    8383 
    8384 > color sel #fffc7922
    8385 
    8386 > color sel #fffc7920
    8387 
    8388 > color sel #fffc791f
    8389 
    8390 > color sel #fffc791c
    8391 
    8392 > color sel #fffc791a
    8393 
    8394 > color sel #fffc7919
    8395 
    8396 > color sel #fffc7917
    8397 
    8398 > color sel #fffc7916
    8399 
    8400 > color sel #fffc7915
    8401 
    8402 > color sel #fffc7913
    8403 
    8404 > color sel #fffc7912
    8405 
    8406 > color sel #fffc7911
    8407 
    8408 > color sel #fffc7910
    8409 
    8410 > color sel #fffc790f
    8411 
    8412 > color sel #fffc790e
    8413 
    8414 > color sel #fffc790f
    8415 
    8416 > color sel #fffc7910
    8417 
    8418 > color sel #fffc790f
    8419 
    8420 > color sel #fffc790e
    8421 
    8422 > select #4/X:16-141
    8423 
    8424 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    8425 
    8426 > color sel #fffc79ff
    8427 
    8428 > color sel #fffc79f6
    8429 
    8430 > color sel #fffc79c2
    8431 
    8432 > color sel #fffc795e
    8433 
    8434 > color sel #fffc792d
    8435 
    8436 > color sel #fffc7910
    8437 
    8438 > color sel #fffc790f
    8439 
    8440 > color sel #fffc790e
    8441 
    8442 > color sel #fffc790a
    8443 
    8444 > color sel #fffc7906
    8445 
    8446 > color sel #fffc7901
    8447 
    8448 > color sel #fffc7900
    8449 
    8450 > color sel #fffc7906
    8451 
    8452 > color sel #fffc7908
    8453 
    8454 > color sel #fffc7909
    8455 
    8456 > color sel #fffc790b
    8457 
    8458 > color sel #fffc790e
    8459 
    8460 > select #4/X:142-144
    8461 
    8462 63 atoms, 70 bonds, 3 residues, 1 model selected 
    8463 
    8464 > color sel #fffc79ff
    8465 
    8466 > select clear
    8467 
    8468 > select #4/Y:131
    8469 
    8470 19 atoms, 20 bonds, 1 residue, 1 model selected 
    8471 
    8472 > select add #4/Y:132
    8473 
    8474 40 atoms, 43 bonds, 2 residues, 1 model selected 
    8475 
    8476 > select add #4/Y:130
    8477 
    8478 62 atoms, 67 bonds, 3 residues, 1 model selected 
    8479 
    8480 > color sel #fffc79ff
    8481 
    8482 > select #2/I:59
    8483 
    8484 21 atoms, 23 bonds, 1 residue, 1 model selected 
    8485 
    8486 > select add #2/I:57
    8487 
    8488 43 atoms, 47 bonds, 2 residues, 1 model selected 
    8489 
    8490 > select add #2/I:58
    8491 
    8492 62 atoms, 67 bonds, 3 residues, 1 model selected 
    8493 
    8494 > color sel #7a81ffff
    8495 
    8496 > select clear
    8497 
    8498 > save /Users/kenjiman/Desktop/image1.png supersample 3
    8499 
    8500 > select #4/S#2/S
    8501 
    8502 264 atoms, 271 bonds, 30 residues, 2 models selected 
    8503 
    8504 > show sel atoms
    8505 
    8506 > style sel stick
    8507 
    8508 Changed 264 atom styles 
    8509 
    8510 > color sel byhetero
    8511 
    8512 > size stickRadius 0.5S
    8513 
    8514 Invalid "stickRadius" argument: Expected a number >= 0 or a +/- delta 
    8515 
    8516 > size stickRadius 0.5
    8517 
    8518 Changed 50420 bond radii 
    8519 
    8520 > select clear
    8521 
    8522 > save /Users/kenjiman/Desktop/image2.png supersample 3
    8523 
    8524 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8525 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    8526 > NCP-class2_ShowDNAandSSX_Schain_STICK.cxs includeMaps true
    8527 
    8528 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8529 > Nuc/NatComm/原稿/Figures/Materials/SSX2RD-NCPs/SSX2RD-NCP-
    8530 > class3/NCP_SSX2_class3_RR_24.pdb
    8531 
    8532 Chain information for NCP_SSX2_class3_RR_24.pdb #5 
    8533 --- 
    8534 Chain | Description 
    8535 A | No description available 
    8536 B | No description available 
    8537 C | No description available 
    8538 D | No description available 
    8539 E | No description available 
    8540 F | No description available 
    8541 G | No description available 
    8542 H | No description available 
    8543 R | No description available 
    8544 S | No description available 
    8545 X | No description available 
    8546 Y | No description available 
    8547  
    8548 54 atoms have alternate locations. Control/examine alternate locations with
    8549 Altloc Explorer [start tool...] or the altlocs command. 
    8550 
    8551 > hide #2,4-5 atoms
    8552 
    8553 > show #2,4-5 cartoons
    8554 
    8555 > select #1-4/A-H
    8556 
    8557 23987 atoms, 24301 bonds, 3034 residues, 4 models selected 
    8558 
    8559 > hide sel & #2,4 cartoons
    8560 
    8561 > select #5/A-H
    8562 
    8563 5927 atoms, 6003 bonds, 753 residues, 1 model selected 
    8564 
    8565 > hide sel cartoons
    8566 
    8567 > select #5/R
    8568 
    8569 81 atoms, 84 bonds, 9 residues, 1 model selected 
    8570 
    8571 > hide sel cartoons
    8572 
    8573 > select #4/R
    8574 
    8575 71 atoms, 73 bonds, 8 residues, 1 model selected 
    8576 
    8577 > hide sel cartoons
    8578 
    8579 > ui tool show Matchmaker
    8580 
    8581 > matchmaker #5 to #1
    8582 
    8583 Computing secondary structure 
    8584 Parameters 
    8585 --- 
    8586 Chain pairing | bb 
    8587 Alignment algorithm | Needleman-Wunsch 
    8588 Similarity matrix | BLOSUM-62 
    8589 SS fraction | 0.3 
    8590 Gap open (HH/SS/other) | 18/18/6 
    8591 Gap extend | 1 
    8592 SS matrix |  |  | H | S | O 
    8593 ---|---|---|--- 
    8594 H | 6 | -9 | -6 
    8595 S |  | 6 | -6 
    8596 O |  |  | 4 
    8597 Iteration cutoff | 2 
    8598  
    8599 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    8600 NCP_SSX2_class3_RR_24.pdb, chain X (#5), sequence alignment score = 631.4 
    8601 RMSD between 110 pruned atom pairs is 0.588 angstroms; (across all 112 pairs:
    8602 0.724) 
    8603  
    8604 
    8605 > matchmaker #5 to #1
    8606 
    8607 Computing secondary structure 
    8608 Parameters 
    8609 --- 
    8610 Chain pairing | bb 
    8611 Alignment algorithm | Needleman-Wunsch 
    8612 Similarity matrix | BLOSUM-62 
    8613 SS fraction | 0.3 
    8614 Gap open (HH/SS/other) | 18/18/6 
    8615 Gap extend | 1 
    8616 SS matrix |  |  | H | S | O 
    8617 ---|---|---|--- 
    8618 H | 6 | -9 | -6 
    8619 S |  | 6 | -6 
    8620 O |  |  | 4 
    8621 Iteration cutoff | 2 
    8622  
    8623 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#1) with
    8624 NCP_SSX2_class3_RR_24.pdb, chain X (#5), sequence alignment score = 631.4 
    8625 RMSD between 110 pruned atom pairs is 0.588 angstroms; (across all 112 pairs:
    8626 0.724) 
    8627  
    8628 
    8629 > select #4
    8630 
    8631 11543 atoms, 12277 bonds, 1043 residues, 1 model selected 
    8632 
    8633 > color sel #ffd479ff
    8634 
    8635 > color sel #fffc79ff
    8636 
    8637 > color sel #ffd479ff
    8638 
    8639 > color sel #ff9300ff
    8640 
    8641 > color sel #ff7e79ff
    8642 
    8643 > color sel #ff2600ff
    8644 
    8645 > color sel #941100ff
    8646 
    8647 > color sel #941751ff
    8648 
    8649 > color sel #942193ff
    8650 
    8651 > color sel #531b93ff
    8652 
    8653 > color sel #011993ff
    8654 
    8655 > color sel #005493ff
    8656 
    8657 > color sel #009193ff
    8658 
    8659 > color sel #009051ff
    8660 
    8661 > color sel #008f00ff
    8662 
    8663 > color sel #fffc79ff
    8664 
    8665 > color sel #d4fb79ff
    8666 
    8667 > color sel #73fa79ff
    8668 
    8669 > color sel #ff2600ff
    8670 
    8671 > color sel #ff7e79ff
    8672 
    8673 > color sel #941100ff
    8674 
    8675 > color sel #ff2f92ff
    8676 
    8677 > color sel #941751ff
    8678 
    8679 > color sel #942193ff
    8680 
    8681 > color sel #ff2f92ff
    8682 
    8683 > color sel #ff7e79ff
    8684 
    8685 > cartoon style width 3 thickness 1
    8686 
    8687 > ui tool show "Show Sequence Viewer"
    8688 
    8689 > sequence chain #5/X
    8690 
    8691 Alignment identifier is 5/X 
    8692 
    8693 > sequence chain #5/Y
    8694 
    8695 Alignment identifier is 5/Y 
    8696 
    8697 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8698 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    8699 > NCP-class3_chainX.fasta format fasta alignment 5/Y
    8700 
    8701 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8702 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    8703 > NCP-class3_chainX.fasta format fasta alignment 5/X
    8704 
    8705 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8706 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    8707 > NCP-class3_chainY.fasta format fasta alignment 5/Y
    8708 
    8709 > ui tool show "Show Sequence Viewer"
    8710 
    8711 > sequence chain #4/X
    8712 
    8713 Destroying pre-existing alignment with identifier 4/X 
    8714 Alignment identifier is 4/X 
    8715 
    8716 > sequence chain #4/Y
    8717 
    8718 Destroying pre-existing alignment with identifier 4/Y 
    8719 Alignment identifier is 4/Y 
    8720 
    8721 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8722 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    8723 > NCP-class2_chainY.fasta format fasta alignment 4/Y
    8724 
    8725 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    8726 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/SequenceComp/SSX2RD-
    8727 > NCP-class2_chainX.fasta format fasta alignment 4/X
    8728 
    8729 > select clear
    8730 
    8731 > select #2/I:-69-56
    8732 
    8733 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    8734 
    8735 > select #2/I:-61
    8736 
    8737 20 atoms, 21 bonds, 1 residue, 1 model selected 
    8738 
    8739 > select #2/I:-61-50
    8740 
    8741 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    8742 
    8743 > select 4/12-123
    8744 
    8745 Expected an objects specifier or a keyword 
    8746 
    8747 > select 4/Y:12-123
    8748 
    8749 Expected an objects specifier or a keyword 
    8750 
    8751 > select #4/Y:12-123
    8752 
    8753 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    8754 
    8755 > color sel #ff7e79ff
    8756 
    8757 > color sel #ff7e79fe
    8758 
    8759 > color sel #ff7e79fd
    8760 
    8761 > color sel #ff7e79fc
    8762 
    8763 > color sel #ff7e79f1
    8764 
    8765 > color sel #ff7e79ec
    8766 
    8767 > color sel #ff7e79d9
    8768 
    8769 > color sel #ff7e79d8
    8770 
    8771 > color sel #ff7e79d4
    8772 
    8773 > color sel #ff7e79d2
    8774 
    8775 > color sel #ff7e79ce
    8776 
    8777 > color sel #ff7e79cb
    8778 
    8779 > color sel #ff7e79bd
    8780 
    8781 > color sel #ff7e7991
    8782 
    8783 > color sel #ff7e7985
    8784 
    8785 > color sel #ff7e7977
    8786 
    8787 > color sel #ff7e796d
    8788 
    8789 > color sel #ff7e7964
    8790 
    8791 > color sel #ff7e795a
    8792 
    8793 > color sel #ff7e7959
    8794 
    8795 > color sel #ff7e7957
    8796 
    8797 > color sel #ff7e7950
    8798 
    8799 > color sel #ff7e794c
    8800 
    8801 > color sel #ff7e794a
    8802 
    8803 > color sel #ff7e7948
    8804 
    8805 > color sel #ff7e7946
    8806 
    8807 > color sel #ff7e7943
    8808 
    8809 > color sel #ff7e7940
    8810 
    8811 > color sel #ff7e793e
    8812 
    8813 > color sel #ff7e793c
    8814 
    8815 > color sel #ff7e793b
    8816 
    8817 > color sel #ff7e793a
    8818 
    8819 > color sel #ff7e7939
    8820 
    8821 > color sel #ff7e7938
    8822 
    8823 > color sel #ff7e7936
    8824 
    8825 > color sel #ff7e7935
    8826 
    8827 > color sel #ff7e7932
    8828 
    8829 > color sel #ff7e7931
    8830 
    8831 > color sel #ff7e7930
    8832 
    8833 > color sel #ff7e792f
    8834 
    8835 > color sel #ff7e792e
    8836 
    8837 > color sel #ff7e792d
    8838 
    8839 > color sel #ff7e792c
    8840 
    8841 > color sel #ff7e792b
    8842 
    8843 > color sel #ff7e7928
    8844 
    8845 > color sel #ff7e7926
    8846 
    8847 > color sel #ff7e7924
    8848 
    8849 > color sel #ff7e7923
    8850 
    8851 > color sel #ff7e7922
    8852 
    8853 > color sel #ff7e7920
    8854 
    8855 > color sel #ff7e791f
    8856 
    8857 > color sel #ff7e791e
    8858 
    8859 > color sel #ff7e791d
    8860 
    8861 > color sel #ff7e791c
    8862 
    8863 > color sel #ff7e791b
    8864 
    8865 > color sel #ff7e791a
    8866 
    8867 > color sel #ff7e7918
    8868 
    8869 > color sel #ff7e7917
    8870 
    8871 > color sel #ff7e7916
    8872 
    8873 > color sel #ff7e7915
    8874 
    8875 > color sel #ff7e7913
    8876 
    8877 > color sel #ff7e7912
    8878 
    8879 > color sel #ff7e7911
    8880 
    8881 > color sel #ff7e7910
    8882 
    8883 > color sel #ff7e790f
    8884 
    8885 > color sel #ff7e790e
    8886 
    8887 > color sel #ff7e790d
    8888 
    8889 > hide #4 models
    8890 
    8891 > select #2/I:-61-50
    8892 
    8893 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    8894 
    8895 > color sel #ff7e79ff
    8896 
    8897 > color sel #ff7e79fa
    8898 
    8899 > color sel #ff7e79f1
    8900 
    8901 > color sel #ff7e79d7
    8902 
    8903 > color sel #ff7e79ca
    8904 
    8905 > color sel #ff7e79bb
    8906 
    8907 > color sel #ff7e79ad
    8908 
    8909 > color sel #ff7e79a1
    8910 
    8911 > color sel #ff7e7992
    8912 
    8913 > color sel #ff7e7989
    8914 
    8915 > color sel #ff7e797a
    8916 
    8917 > color sel #ff7e7975
    8918 
    8919 > color sel #ff7e7968
    8920 
    8921 > color sel #ff7e7965
    8922 
    8923 > color sel #ff7e7960
    8924 
    8925 > color sel #ff7e795f
    8926 
    8927 > color sel #ff7e795a
    8928 
    8929 > color sel #ff7e7959
    8930 
    8931 > color sel #ff7e7957
    8932 
    8933 > color sel #ff7e7955
    8934 
    8935 > color sel #ff7e7953
    8936 
    8937 > color sel #ff7e794e
    8938 
    8939 > color sel #ff7e794d
    8940 
    8941 > color sel #ff7e794c
    8942 
    8943 > color sel #ff7e7949
    8944 
    8945 > color sel #ff7e7947
    8946 
    8947 > color sel #ff7e7944
    8948 
    8949 > color sel #ff7e7942
    8950 
    8951 > color sel #ff7e7940
    8952 
    8953 > color sel #ff7e793d
    8954 
    8955 > color sel #ff7e793b
    8956 
    8957 > color sel #ff7e793a
    8958 
    8959 > color sel #ff7e7939
    8960 
    8961 > color sel #ff7e7937
    8962 
    8963 > color sel #ff7e7935
    8964 
    8965 > color sel #ff7e7934
    8966 
    8967 > color sel #ff7e7933
    8968 
    8969 > color sel #ff7e7930
    8970 
    8971 > color sel #ff7e792c
    8972 
    8973 > color sel #ff7e792a
    8974 
    8975 > color sel #ff7e7927
    8976 
    8977 > color sel #ff7e7926
    8978 
    8979 > color sel #ff7e7925
    8980 
    8981 > color sel #ff7e7923
    8982 
    8983 > color sel #ff7e7919
    8984 
    8985 > color sel #ff7e7917
    8986 
    8987 > color sel #ff7e7916
    8988 
    8989 > color sel #ff7e7915
    8990 
    8991 > color sel #ff7e7914
    8992 
    8993 > color sel #ff7e7913
    8994 
    8995 > color sel #ff7e7912
    8996 
    8997 > color sel #ff7e7911
    8998 
    8999 > color sel #ff7e7910
    9000 
    9001 > color sel #ff7e790f
    9002 
    9003 > color sel #ff7e790e
    9004 
    9005 > color sel #ff7e790d
    9006 
    9007 > color sel #ff7e790c
    9008 
    9009 > color sel #ff7e790d
    9010 
    9011 > color sel #ff7e790e
    9012 
    9013 > select #4/Y:12-123
    9014 
    9015 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    9016 
    9017 > color #2,5 #ff7e79ff
    9018 
    9019 > color #2,5 #ff7e79fe
    9020 
    9021 > color #2,5 #ff7e79e5
    9022 
    9023 > color #2,5 #ff7e7992
    9024 
    9025 > color #2,5 #ff7e798d
    9026 
    9027 > color #2,5 #ff7e7988
    9028 
    9029 > color #2,5 #ff7e795d
    9030 
    9031 > color #2,5 #ff7e7943
    9032 
    9033 > color #2,5 #ff7e793f
    9034 
    9035 > color #2,5 #ff7e793a
    9036 
    9037 > color #2,5 #ff7e7935
    9038 
    9039 > color #2,5 #ff7e7932
    9040 
    9041 > color #2,5 #ff7e792f
    9042 
    9043 > color #2,5 #ff7e7923
    9044 
    9045 > color #2,5 #ff7e7920
    9046 
    9047 > color #2,5 #ff7e791f
    9048 
    9049 > color #2,5 #ff7e791a
    9050 
    9051 > color #2,5 #ff7e7917
    9052 
    9053 > color #2,5 #ff7e7916
    9054 
    9055 > color #2,5 #ff7e7917
    9056 
    9057 > color #2,5 #ff7e7918
    9058 
    9059 > color #2,5 #ff7e7919
    9060 
    9061 > color #2,5 #ff7e791b
    9062 
    9063 > color #2,5 #ff7e791a
    9064 
    9065 > color #2,5 #ff7e7917
    9066 
    9067 > color #2,5 #ff7e7916
    9068 
    9069 > color #2,5 #ff7e7914
    9070 
    9071 > color #2,5 #ff7e7913
    9072 
    9073 > color #2,5 #ff7e7911
    9074 
    9075 > color #2,5 #ff7e7910
    9076 
    9077 > color #2,5 #ff7e790f
    9078 
    9079 > color #2,5 #ff7e790d
    9080 
    9081 > undo
    9082 
    9083 > select #4/Y:12-123
    9084 
    9085 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    9086 
    9087 > select #5/Y:12-123
    9088 
    9089 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    9090 
    9091 > color sel #ff7e790d
    9092 
    9093 > color sel #ff7e790e
    9094 
    9095 > color sel #ff7e7910
    9096 
    9097 > color sel #ff7e7911
    9098 
    9099 > color sel #ff7e7913
    9100 
    9101 > color sel #ff7e7916
    9102 
    9103 > color sel #ff7e7918
    9104 
    9105 > color sel #ff7e7919
    9106 
    9107 > color sel #ff7e791a
    9108 
    9109 > color sel #ff7e791c
    9110 
    9111 > color sel #ff7e791e
    9112 
    9113 > color sel #ff7e791f
    9114 
    9115 > color sel #ff7e7922
    9116 
    9117 > color sel #ff7e7923
    9118 
    9119 > color sel #ff7e7924
    9120 
    9121 > color sel #ff7e7926
    9122 
    9123 > color sel #ff7e7925
    9124 
    9125 > color sel #ff7e7922
    9126 
    9127 > color sel #ff7e791e
    9128 
    9129 > color sel #ff7e791a
    9130 
    9131 > color sel #ff7e7917
    9132 
    9133 > color sel #ff7e7913
    9134 
    9135 > color sel #ff7e7911
    9136 
    9137 > color sel #ff7e7912
    9138 
    9139 > color sel #ff7e7919
    9140 
    9141 > color sel #ff7e7922
    9142 
    9143 > color sel #ff7e7924
    9144 
    9145 > color sel #ff7e792e
    9146 
    9147 > color sel #ff7e7931
    9148 
    9149 > color sel #ff7e7933
    9150 
    9151 > color sel #ff7e7934
    9152 
    9153 > color sel #ff7e7937
    9154 
    9155 > color sel #ff7e7936
    9156 
    9157 > color sel #ff7e7932
    9158 
    9159 > color sel #ff7e7931
    9160 
    9161 > color sel #ff7e792f
    9162 
    9163 > color sel #ff7e792d
    9164 
    9165 > color sel #ff7e792c
    9166 
    9167 > color sel #ff7e792b
    9168 
    9169 > color sel #ff7e7929
    9170 
    9171 > color sel #ff7e7928
    9172 
    9173 > color sel #ff7e7927
    9174 
    9175 > color sel #ff7e7925
    9176 
    9177 > color sel #ff7e7924
    9178 
    9179 > color sel #ff7e7923
    9180 
    9181 > color sel #ff7e7922
    9182 
    9183 > color sel #ff7e7920
    9184 
    9185 > color sel #ff7e791f
    9186 
    9187 > color sel #ff7e791e
    9188 
    9189 > color sel #ff7e791d
    9190 
    9191 > color sel #ff7e791c
    9192 
    9193 > color sel #ff7e791b
    9194 
    9195 > color sel #ff7e791a
    9196 
    9197 > color sel #ff7e7919
    9198 
    9199 > color sel #ff7e7916
    9200 
    9201 > color sel #ff7e7913
    9202 
    9203 > color sel #ff7e7912
    9204 
    9205 > color sel #ff7e7911
    9206 
    9207 > color sel #ff7e790f
    9208 
    9209 > color sel #ff7e790e
    9210 
    9211 > color sel #ff7e790d
    9212 
    9213 > color sel #ff7e790c
    9214 
    9215 > color sel #ff7e790b
    9216 
    9217 > color sel #ff7e790d
    9218 
    9219 > color sel #ff7e790e
    9220 
    9221 > color sel #ff7e790d
    9222 
    9223 > show #4 models
    9224 
    9225 > hide #4 models
    9226 
    9227 > select #2/I:-61-50
    9228 
    9229 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    9230 
    9231 > color sel #7a81ffff
    9232 
    9233 > select #2/I:-72--62
    9234 
    9235 229 atoms, 257 bonds, 11 residues, 1 model selected 
    9236 
    9237 > color sel #7a81ffff
    9238 
    9239 > color sel #7a81fffa
    9240 
    9241 > color sel #7a81ffe5
    9242 
    9243 > color sel #7a81ffe2
    9244 
    9245 > color sel #7a81ffe1
    9246 
    9247 > color sel #7a81ffe2
    9248 
    9249 > color sel #7a81ffe6
    9250 
    9251 > color sel #7a81fffc
    9252 
    9253 > color sel #7a81ffff
    9254 
    9255 > color sel #7a81fffe
    9256 
    9257 > color sel #7a81ffee
    9258 
    9259 > color sel #7a81ffa8
    9260 
    9261 > color sel #7a81ff97
    9262 
    9263 > color sel #7a81ff8b
    9264 
    9265 > color sel #7a81ff76
    9266 
    9267 > color sel #7a81ff6e
    9268 
    9269 > color sel #7a81ff67
    9270 
    9271 > color sel #7a81ff5e
    9272 
    9273 > color sel #7a81ff4d
    9274 
    9275 > color sel #7a81ff4a
    9276 
    9277 > color sel #7a81ff45
    9278 
    9279 > color sel #7a81ff41
    9280 
    9281 > color sel #7a81ff38
    9282 
    9283 > color sel #7a81ff32
    9284 
    9285 > color sel #7a81ff27
    9286 
    9287 > color sel #7a81ff00
    9288 
    9289 > color sel #7a81ff0d
    9290 
    9291 > color sel #7a81ff45
    9292 
    9293 > color sel #7a81ff81
    9294 
    9295 > color sel #7a81ffe0
    9296 
    9297 > color sel #7a81ffff
    9298 
    9299 > select #2/I:-61-50
    9300 
    9301 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    9302 
    9303 > color sel #7a81ffff
    9304 
    9305 > color sel #7a81fffe
    9306 
    9307 > color sel #7a81fffd
    9308 
    9309 > color sel #7a81fffa
    9310 
    9311 > color sel #7a81fff9
    9312 
    9313 > color sel #7a81fff4
    9314 
    9315 > color sel #7a81fff0
    9316 
    9317 > color sel #7a81ffef
    9318 
    9319 > color sel #7a81ffeb
    9320 
    9321 > color sel #7a81ffe8
    9322 
    9323 > color sel #7a81ffe1
    9324 
    9325 > color sel #7a81ffdd
    9326 
    9327 > color sel #7a81ffcf
    9328 
    9329 > color sel #7a81ffce
    9330 
    9331 > color sel #7a81ffcb
    9332 
    9333 > color sel #7a81ffc9
    9334 
    9335 > color sel #7a81ffc5
    9336 
    9337 > color sel #7a81ffc4
    9338 
    9339 > color sel #7a81ffc3
    9340 
    9341 > color sel #7a81ffc1
    9342 
    9343 > color sel #7a81ffc0
    9344 
    9345 > color sel #7a81ffbf
    9346 
    9347 > color sel #7a81ffba
    9348 
    9349 > color sel #7a81ffb9
    9350 
    9351 > color sel #7a81ffb8
    9352 
    9353 > color sel #7a81ffb7
    9354 
    9355 > color sel #7a81ffb5
    9356 
    9357 > color sel #7a81ffb3
    9358 
    9359 > color sel #7a81ffaf
    9360 
    9361 > color sel #7a81ffa7
    9362 
    9363 > color sel #7a81ffa1
    9364 
    9365 > color sel #7a81ff9a
    9366 
    9367 > color sel #7a81ff90
    9368 
    9369 > color sel #7a81ff87
    9370 
    9371 > color sel #7a81ff82
    9372 
    9373 > color sel #7a81ff7c
    9374 
    9375 > color sel #7a81ff79
    9376 
    9377 > color sel #7a81ff75
    9378 
    9379 > color sel #7a81ff6f
    9380 
    9381 > color sel #7a81ff6d
    9382 
    9383 > color sel #7a81ff6c
    9384 
    9385 > color sel #7a81ff6a
    9386 
    9387 > color sel #7a81ff69
    9388 
    9389 > color sel #7a81ff67
    9390 
    9391 > color sel #7a81ff66
    9392 
    9393 > color sel #7a81ff65
    9394 
    9395 > color sel #7a81ff62
    9396 
    9397 > color sel #7a81ff5d
    9398 
    9399 > color sel #7a81ff5a
    9400 
    9401 > color sel #7a81ff4b
    9402 
    9403 > color sel #7a81ff31
    9404 
    9405 > color sel #7a81ff27
    9406 
    9407 > color sel #7a81ff25
    9408 
    9409 > color sel #7a81ff24
    9410 
    9411 > color sel #7a81ff23
    9412 
    9413 > color sel #7a81ff21
    9414 
    9415 > color sel #7a81ff20
    9416 
    9417 > color sel #7a81ff1f
    9418 
    9419 > color sel #7a81ff1e
    9420 
    9421 > color sel #7a81ff1d
    9422 
    9423 > color sel #7a81ff1c
    9424 
    9425 > color sel #7a81ff1b
    9426 
    9427 > color sel #7a81ff1a
    9428 
    9429 > color sel #7a81ff18
    9430 
    9431 > color sel #7a81ff17
    9432 
    9433 > color sel #7a81ff16
    9434 
    9435 > color sel #7a81ff15
    9436 
    9437 > color sel #7a81ff14
    9438 
    9439 > color sel #7a81ff13
    9440 
    9441 > color sel #7a81ff12
    9442 
    9443 > color sel #7a81ff11
    9444 
    9445 > color sel #7a81ff10
    9446 
    9447 > color sel #7a81ff0f
    9448 
    9449 > color sel #7a81ff0e
    9450 
    9451 > color sel #7a81ff0d
    9452 
    9453 > select #2/I:51-73
    9454 
    9455 468 atoms, 523 bonds, 23 residues, 1 model selected 
    9456 
    9457 > color sel #7a81ffff
    9458 
    9459 > color sel #7a81fffa
    9460 
    9461 > color sel #7a81ffda
    9462 
    9463 > color sel #7a81ffc8
    9464 
    9465 > color sel #7a81ffc6
    9466 
    9467 > color sel #7a81ffc0
    9468 
    9469 > color sel #7a81ffc1
    9470 
    9471 > color sel #7a81ffca
    9472 
    9473 > color sel #7a81ffff
    9474 
    9475 > select #5/S
    9476 
    9477 154 atoms, 158 bonds, 19 residues, 1 model selected 
    9478 
    9479 > color sel #ff7e79ff
    9480 
    9481 > color sel #ff7e79fc
    9482 
    9483 > color sel #ff7e79f9
    9484 
    9485 > color sel #ff7e79f7
    9486 
    9487 > color sel #ff7e79fe
    9488 
    9489 > color sel #ff7e79ff
    9490 
    9491 > select #2/S
    9492 
    9493 129 atoms, 132 bonds, 14 residues, 1 model selected 
    9494 
    9495 > color sel #7a81ffff
    9496 
    9497 > color sel #7a81fffa
    9498 
    9499 > color sel #7a81fff2
    9500 
    9501 > color sel #7a81ffee
    9502 
    9503 > color sel #7a81ffef
    9504 
    9505 > color sel #7a81fff4
    9506 
    9507 > color sel #7a81ffff
    9508 
    9509 > select clear
    9510 
    9511 > select #2/I:-73--62
    9512 
    9513 250 atoms, 281 bonds, 12 residues, 1 model selected 
    9514 
    9515 > color sel #7a81ffff
    9516 
    9517 > select #2/I:51-73
    9518 
    9519 468 atoms, 523 bonds, 23 residues, 1 model selected 
    9520 
    9521 > color sel #7a81ffff
    9522 
    9523 > select #2/I:-61-50
    9524 
    9525 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    9526 
    9527 > color sel #7a81ffff
    9528 
    9529 > color sel #7a81fffd
    9530 
    9531 > color sel #7a81ffeb
    9532 
    9533 > color sel #7a81ffba
    9534 
    9535 > color sel #7a81ffa2
    9536 
    9537 > color sel #7a81ff7d
    9538 
    9539 > color sel #7a81ff7a
    9540 
    9541 > color sel #7a81ff79
    9542 
    9543 > color sel #7a81ff76
    9544 
    9545 > color sel #7a81ff74
    9546 
    9547 > color sel #7a81ff72
    9548 
    9549 > color sel #7a81ff6d
    9550 
    9551 > color sel #7a81ff60
    9552 
    9553 > color sel #7a81ff5f
    9554 
    9555 > color sel #7a81ff5e
    9556 
    9557 > color sel #7a81ff59
    9558 
    9559 > color sel #7a81ff57
    9560 
    9561 > color sel #7a81ff54
    9562 
    9563 > color sel #7a81ff52
    9564 
    9565 > color sel #7a81ff4d
    9566 
    9567 > color sel #7a81ff4b
    9568 
    9569 > color sel #7a81ff48
    9570 
    9571 > color sel #7a81ff46
    9572 
    9573 > color sel #7a81ff44
    9574 
    9575 > color sel #7a81ff43
    9576 
    9577 > color sel #7a81ff41
    9578 
    9579 > color sel #7a81ff3f
    9580 
    9581 > color sel #7a81ff3d
    9582 
    9583 > color sel #7a81ff3b
    9584 
    9585 > color sel #7a81ff36
    9586 
    9587 > color sel #7a81ff35
    9588 
    9589 > color sel #7a81ff33
    9590 
    9591 > color sel #7a81ff34
    9592 
    9593 > color sel #7a81ff3f
    9594 
    9595 > color sel #7a81ff60
    9596 
    9597 > color sel #7a81ff61
    9598 
    9599 > color sel #7a81ff62
    9600 
    9601 > color sel #7a81ff63
    9602 
    9603 > color sel #7a81ff62
    9604 
    9605 > color sel #7a81ff61
    9606 
    9607 > color sel #7a81ff5c
    9608 
    9609 > color sel #7a81ff5b
    9610 
    9611 > color sel #7a81ff58
    9612 
    9613 > color sel #7a81ff52
    9614 
    9615 > color sel #7a81ff51
    9616 
    9617 > color sel #7a81ff50
    9618 
    9619 > color sel #7a81ff4f
    9620 
    9621 > color sel #7a81ff4d
    9622 
    9623 > color sel #7a81ff49
    9624 
    9625 > color sel #7a81ff48
    9626 
    9627 > color sel #7a81ff46
    9628 
    9629 > color sel #7a81ff44
    9630 
    9631 > color sel #7a81ff42
    9632 
    9633 > color sel #7a81ff41
    9634 
    9635 > color sel #7a81ff42
    9636 
    9637 > color sel #7a81ff46
    9638 
    9639 > color sel #7a81ff7a
    9640 
    9641 > color sel #7a81ff80
    9642 
    9643 > color sel #7a81ff84
    9644 
    9645 > color sel #7a81ff85
    9646 
    9647 > color sel #7a81ff84
    9648 
    9649 > color sel #7a81ff82
    9650 
    9651 > color sel #7a81ff7f
    9652 
    9653 > color sel #7a81ff79
    9654 
    9655 > color sel #7a81ff62
    9656 
    9657 > color sel #7a81ff5a
    9658 
    9659 > color sel #7a81ff54
    9660 
    9661 > color sel #7a81ff51
    9662 
    9663 > color sel #7a81ff50
    9664 
    9665 > color sel #7a81ff4e
    9666 
    9667 > color sel #7a81ff4d
    9668 
    9669 > color sel #7a81ff4c
    9670 
    9671 > color sel #7a81ff4b
    9672 
    9673 > color sel #7a81ff4a
    9674 
    9675 > color sel #7a81ff49
    9676 
    9677 > color sel #7a81ff48
    9678 
    9679 > color sel #7a81ff45
    9680 
    9681 > color sel #7a81ff43
    9682 
    9683 > color sel #7a81ff41
    9684 
    9685 > color sel #7a81ff3e
    9686 
    9687 > color sel #7a81ff31
    9688 
    9689 > color sel #7a81ff2d
    9690 
    9691 > color sel #7a81ff2b
    9692 
    9693 > color sel #7a81ff26
    9694 
    9695 > color sel #7a81ff24
    9696 
    9697 > color sel #7a81ff23
    9698 
    9699 > color sel #7a81ff22
    9700 
    9701 > color sel #7a81ff21
    9702 
    9703 > color sel #7a81ff1f
    9704 
    9705 > color sel #7a81ff1b
    9706 
    9707 > color sel #7a81ff18
    9708 
    9709 > color sel #7a81ff16
    9710 
    9711 > color sel #7a81ff15
    9712 
    9713 > color sel #7a81ff14
    9714 
    9715 > color sel #7a81ff13
    9716 
    9717 > color sel #7a81ff12
    9718 
    9719 > color sel #7a81ff11
    9720 
    9721 > color sel #7a81ff10
    9722 
    9723 > color sel #7a81ff0f
    9724 
    9725 > color sel #7a81ff0e
    9726 
    9727 > color sel #7a81ff0d
    9728 
    9729 > color sel #7a81ff0c
    9730 
    9731 > select clear
    9732 
    9733 > select #2/J:-50
    9734 
    9735 19 atoms, 20 bonds, 1 residue, 1 model selected 
    9736 
    9737 > select #2/J:-50--45
    9738 
    9739 120 atoms, 133 bonds, 6 residues, 1 model selected 
    9740 
    9741 > select #2/J:61
    9742 
    9743 21 atoms, 23 bonds, 1 residue, 1 model selected 
    9744 
    9745 > select #2/J:-50-61
    9746 
    9747 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    9748 
    9749 > select #2/J:-73--51
    9750 
    9751 475 atoms, 533 bonds, 23 residues, 1 model selected 
    9752 
    9753 > color sel #7a81ffff
    9754 
    9755 > select #2/J:-50-61
    9756 
    9757 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    9758 
    9759 > color sel #7a81ffff
    9760 
    9761 > color sel #7a81fffd
    9762 
    9763 > color sel #7a81fffb
    9764 
    9765 > color sel #7a81ffe8
    9766 
    9767 > color sel #7a81ffe1
    9768 
    9769 > color sel #7a81ffd7
    9770 
    9771 > color sel #7a81ffd0
    9772 
    9773 > color sel #7a81ffca
    9774 
    9775 > color sel #7a81ffc5
    9776 
    9777 > color sel #7a81ffb6
    9778 
    9779 > color sel #7a81ff99
    9780 
    9781 > color sel #7a81ff86
    9782 
    9783 > color sel #7a81ff70
    9784 
    9785 > color sel #7a81ff64
    9786 
    9787 > color sel #7a81ff53
    9788 
    9789 > color sel #7a81ff39
    9790 
    9791 > color sel #7a81ff32
    9792 
    9793 > color sel #7a81ff30
    9794 
    9795 > color sel #7a81ff2e
    9796 
    9797 > color sel #7a81ff2c
    9798 
    9799 > color sel #7a81ff29
    9800 
    9801 > color sel #7a81ff28
    9802 
    9803 > color sel #7a81ff24
    9804 
    9805 > color sel #7a81ff23
    9806 
    9807 > color sel #7a81ff21
    9808 
    9809 > color sel #7a81ff20
    9810 
    9811 > color sel #7a81ff1f
    9812 
    9813 > color sel #7a81ff1c
    9814 
    9815 > color sel #7a81ff19
    9816 
    9817 > color sel #7a81ff16
    9818 
    9819 > color sel #7a81ff13
    9820 
    9821 > color sel #7a81ff12
    9822 
    9823 > color sel #7a81ff11
    9824 
    9825 > color sel #7a81ff10
    9826 
    9827 > color sel #7a81ff0f
    9828 
    9829 > color sel #7a81ff0e
    9830 
    9831 > color sel #7a81ff0d
    9832 
    9833 > color sel #7a81ff0c
    9834 
    9835 > select #2/J:62-73
    9836 
    9837 242 atoms, 269 bonds, 12 residues, 1 model selected 
    9838 
    9839 > color sel #7a81ffff
    9840 
    9841 > select #5/X:22-133
    9842 
    9843 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    9844 
    9845 > color sel #ff7e79ff
    9846 
    9847 > color sel #ff7e79fe
    9848 
    9849 > color sel #ff7e79f8
    9850 
    9851 > color sel #ff7e79d0
    9852 
    9853 > color sel #ff7e79cc
    9854 
    9855 > color sel #ff7e79b7
    9856 
    9857 > color sel #ff7e79a8
    9858 
    9859 > color sel #ff7e79a4
    9860 
    9861 > color sel #ff7e799e
    9862 
    9863 > color sel #ff7e7984
    9864 
    9865 > color sel #ff7e797e
    9866 
    9867 > color sel #ff7e7977
    9868 
    9869 > color sel #ff7e7974
    9870 
    9871 > color sel #ff7e7973
    9872 
    9873 > color sel #ff7e7972
    9874 
    9875 > color sel #ff7e7971
    9876 
    9877 > color sel #ff7e796f
    9878 
    9879 > color sel #ff7e796d
    9880 
    9881 > color sel #ff7e796c
    9882 
    9883 > color sel #ff7e796b
    9884 
    9885 > color sel #ff7e7967
    9886 
    9887 > color sel #ff7e7966
    9888 
    9889 > color sel #ff7e7964
    9890 
    9891 > color sel #ff7e7962
    9892 
    9893 > color sel #ff7e7960
    9894 
    9895 > color sel #ff7e795e
    9896 
    9897 > color sel #ff7e795d
    9898 
    9899 > color sel #ff7e795c
    9900 
    9901 > color sel #ff7e795b
    9902 
    9903 > color sel #ff7e7955
    9904 
    9905 > color sel #ff7e7953
    9906 
    9907 > color sel #ff7e794f
    9908 
    9909 > color sel #ff7e794c
    9910 
    9911 > color sel #ff7e794a
    9912 
    9913 > color sel #ff7e7946
    9914 
    9915 > color sel #ff7e7945
    9916 
    9917 > color sel #ff7e7943
    9918 
    9919 > color sel #ff7e793d
    9920 
    9921 > color sel #ff7e7935
    9922 
    9923 > color sel #ff7e7934
    9924 
    9925 > color sel #ff7e7933
    9926 
    9927 > color sel #ff7e792e
    9928 
    9929 > color sel #ff7e792d
    9930 
    9931 > color sel #ff7e7929
    9932 
    9933 > color sel #ff7e7927
    9934 
    9935 > color sel #ff7e7926
    9936 
    9937 > color sel #ff7e7925
    9938 
    9939 > color sel #ff7e7924
    9940 
    9941 > color sel #ff7e7923
    9942 
    9943 > color sel #ff7e7922
    9944 
    9945 > color sel #ff7e7921
    9946 
    9947 > color sel #ff7e7920
    9948 
    9949 > color sel #ff7e791f
    9950 
    9951 > color sel #ff7e791e
    9952 
    9953 > color sel #ff7e791d
    9954 
    9955 > color sel #ff7e791c
    9956 
    9957 > color sel #ff7e791b
    9958 
    9959 > color sel #ff7e791a
    9960 
    9961 > color sel #ff7e7919
    9962 
    9963 > color sel #ff7e7918
    9964 
    9965 > color sel #ff7e7917
    9966 
    9967 > color sel #ff7e7916
    9968 
    9969 > color sel #ff7e7915
    9970 
    9971 > color sel #ff7e7914
    9972 
    9973 > color sel #ff7e7913
    9974 
    9975 > color sel #ff7e7912
    9976 
    9977 > color sel #ff7e7911
    9978 
    9979 > color sel #ff7e7910
    9980 
    9981 > color sel #ff7e790e
    9982 
    9983 > color sel #ff7e790d
    9984 
    9985 > select clear
    9986 
    9987 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    9988 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    9989 > NCP-class3_ShowDNAandSSX_Schain_RIBBON.cxs
    9990 
    9991 > save /Users/kenjiman/Desktop/image1.png supersample 3
    9992 
    9993 > select #5/S
    9994 
    9995 154 atoms, 158 bonds, 19 residues, 1 model selected 
    9996 
    9997 > show sel atoms
    9998 
    9999 > style sel stick
    10000 
    10001 Changed 154 atom styles 
    10002 
    10003 > size stickRadius 0.5
    10004 
    10005 Changed 61815 bond radii 
    10006 
    10007 > color sel byhetero
    10008 
    10009 > select #2/S
    10010 
    10011 129 atoms, 132 bonds, 14 residues, 1 model selected 
    10012 
    10013 > show sel atoms
    10014 
    10015 > color sel byhetero
    10016 
    10017 > select clear
    10018 
    10019 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10020 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    10021 > NCP-class3_ShowDNAandSSX_Schain_STICK.cxs
    10022 
    10023 > save /Users/kenjiman/Desktop/image1.png supersample 3
    10024 
    10025 > hide #5 models
    10026 
    10027 > show #4 models
    10028 
    10029 > show #5 models
    10030 
    10031 > hide #5 models
    10032 
    10033 > select #2/I:-73--70
    10034 
    10035 83 atoms, 93 bonds, 4 residues, 1 model selected 
    10036 
    10037 > color sel #7a81ffff
    10038 
    10039 > select #2/I:-69-50
    10040 
    10041 2480 atoms, 2786 bonds, 120 residues, 1 model selected 
    10042 
    10043 > select #2/I:-69-59
    10044 
    10045 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    10046 
    10047 > color sel #7a81ffff
    10048 
    10049 > color sel #7a81fffe
    10050 
    10051 > color sel #7a81fffc
    10052 
    10053 > color sel #7a81fff6
    10054 
    10055 > color sel #7a81ffdf
    10056 
    10057 > color sel #7a81ffd4
    10058 
    10059 > color sel #7a81ffb6
    10060 
    10061 > color sel #7a81ffa9
    10062 
    10063 > color sel #7a81ff9e
    10064 
    10065 > color sel #7a81ff91
    10066 
    10067 > color sel #7a81ff85
    10068 
    10069 > color sel #7a81ff7a
    10070 
    10071 > color sel #7a81ff6f
    10072 
    10073 > color sel #7a81ff63
    10074 
    10075 > color sel #7a81ff54
    10076 
    10077 > color sel #7a81ff50
    10078 
    10079 > color sel #7a81ff4e
    10080 
    10081 > color sel #7a81ff45
    10082 
    10083 > color sel #7a81ff3c
    10084 
    10085 > color sel #7a81ff33
    10086 
    10087 > color sel #7a81ff2e
    10088 
    10089 > color sel #7a81ff2a
    10090 
    10091 > color sel #7a81ff20
    10092 
    10093 > color sel #7a81ff1b
    10094 
    10095 > color sel #7a81ff17
    10096 
    10097 > color sel #7a81ff15
    10098 
    10099 > color sel #7a81ff13
    10100 
    10101 > color sel #7a81ff11
    10102 
    10103 > color sel #7a81ff10
    10104 
    10105 > color sel #7a81ff0d
    10106 
    10107 > color sel #7a81ff0c
    10108 
    10109 > color sel #7a81ff0b
    10110 
    10111 > color sel #7a81ff0c
    10112 
    10113 > color sel #7a81ff0d
    10114 
    10115 > select clear
    10116 
    10117 > color #2,4 #7a81ff0d
    10118 
    10119 > undo
    10120 
    10121 > select #2/I:-69-59
    10122 
    10123 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    10124 
    10125 > color sel #7a81ffff
    10126 
    10127 > color sel #7a81fffd
    10128 
    10129 > color sel #7a81fff5
    10130 
    10131 > color sel #7a81ffbd
    10132 
    10133 > color sel #7a81ffb3
    10134 
    10135 > color sel #7a81ff95
    10136 
    10137 > color sel #7a81ff8f
    10138 
    10139 > color sel #7a81ff89
    10140 
    10141 > color sel #7a81ff74
    10142 
    10143 > color sel #7a81ff6f
    10144 
    10145 > color sel #7a81ff67
    10146 
    10147 > color sel #7a81ff5d
    10148 
    10149 > color sel #7a81ff52
    10150 
    10151 > color sel #7a81ff48
    10152 
    10153 > color sel #7a81ff44
    10154 
    10155 > color sel #7a81ff41
    10156 
    10157 > color sel #7a81ff3d
    10158 
    10159 > color sel #7a81ff37
    10160 
    10161 > color sel #7a81ff36
    10162 
    10163 > color sel #7a81ff33
    10164 
    10165 > color sel #7a81ff31
    10166 
    10167 > color sel #7a81ff2e
    10168 
    10169 > color sel #7a81ff2c
    10170 
    10171 > color sel #7a81ff2b
    10172 
    10173 > color sel #7a81ff2a
    10174 
    10175 > color sel #7a81ff29
    10176 
    10177 > color sel #7a81ff28
    10178 
    10179 > color sel #7a81ff26
    10180 
    10181 > color sel #7a81ff24
    10182 
    10183 > color sel #7a81ff23
    10184 
    10185 > color sel #7a81ff22
    10186 
    10187 > color sel #7a81ff21
    10188 
    10189 > color sel #7a81ff20
    10190 
    10191 > color sel #7a81ff1f
    10192 
    10193 > color sel #7a81ff1e
    10194 
    10195 > color sel #7a81ff1d
    10196 
    10197 > color sel #7a81ff1c
    10198 
    10199 > color sel #7a81ff1b
    10200 
    10201 > color sel #7a81ff1a
    10202 
    10203 > color sel #7a81ff19
    10204 
    10205 > color sel #7a81ff18
    10206 
    10207 > color sel #7a81ff17
    10208 
    10209 > color sel #7a81ff16
    10210 
    10211 > color sel #7a81ff15
    10212 
    10213 > color sel #7a81ff14
    10214 
    10215 > color sel #7a81ff13
    10216 
    10217 > color sel #7a81ff12
    10218 
    10219 > color sel #7a81ff11
    10220 
    10221 > color sel #7a81ff10
    10222 
    10223 > color sel #7a81ff0f
    10224 
    10225 > color sel #7a81ff0e
    10226 
    10227 > select #2/I:-73--70
    10228 
    10229 83 atoms, 93 bonds, 4 residues, 1 model selected 
    10230 
    10231 > color sel #7a81ffff
    10232 
    10233 > select #2/I:-69-59
    10234 
    10235 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    10236 
    10237 > color sel #7a81ffff
    10238 
    10239 > color sel #7a81fffc
    10240 
    10241 > color sel #7a81fff6
    10242 
    10243 > color sel #7a81ffec
    10244 
    10245 > color sel #7a81ffdf
    10246 
    10247 > color sel #7a81ffac
    10248 
    10249 > color sel #7a81ffa4
    10250 
    10251 > color sel #7a81ff9e
    10252 
    10253 > color sel #7a81ff84
    10254 
    10255 > color sel #7a81ff78
    10256 
    10257 > color sel #7a81ff63
    10258 
    10259 > color sel #7a81ff55
    10260 
    10261 > color sel #7a81ff4d
    10262 
    10263 > color sel #7a81ff42
    10264 
    10265 > color sel #7a81ff3d
    10266 
    10267 > color sel #7a81ff3a
    10268 
    10269 > color sel #7a81ff38
    10270 
    10271 > color sel #7a81ff35
    10272 
    10273 > color sel #7a81ff34
    10274 
    10275 > color sel #7a81ff2f
    10276 
    10277 > color sel #7a81ff2e
    10278 
    10279 > color sel #7a81ff2b
    10280 
    10281 > color sel #7a81ff2a
    10282 
    10283 > color sel #7a81ff28
    10284 
    10285 > color sel #7a81ff27
    10286 
    10287 > color sel #7a81ff26
    10288 
    10289 > color sel #7a81ff25
    10290 
    10291 > color sel #7a81ff22
    10292 
    10293 > color sel #7a81ff20
    10294 
    10295 > color sel #7a81ff1d
    10296 
    10297 > color sel #7a81ff1b
    10298 
    10299 > color sel #7a81ff1a
    10300 
    10301 > color sel #7a81ff17
    10302 
    10303 > color sel #7a81ff16
    10304 
    10305 > color sel #7a81ff14
    10306 
    10307 > color sel #7a81ff13
    10308 
    10309 > color sel #7a81ff11
    10310 
    10311 > color sel #7a81ff10
    10312 
    10313 > color sel #7a81ff0f
    10314 
    10315 > color sel #7a81ff0e
    10316 
    10317 > color sel #7a81ff0d
    10318 
    10319 > select #2/I:60-73
    10320 
    10321 285 atoms, 318 bonds, 14 residues, 1 model selected 
    10322 
    10323 > color sel #7a81ffff
    10324 
    10325 > select #2/I:-69-59
    10326 
    10327 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    10328 
    10329 > select #2/I:60-73
    10330 
    10331 285 atoms, 318 bonds, 14 residues, 1 model selected 
    10332 
    10333 > select #2/I:70-73
    10334 
    10335 81 atoms, 90 bonds, 4 residues, 1 model selected 
    10336 
    10337 > select #2/I:-73--70
    10338 
    10339 83 atoms, 93 bonds, 4 residues, 1 model selected 
    10340 
    10341 > color sel #7a81ffff
    10342 
    10343 > select #2/I:-69-59
    10344 
    10345 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    10346 
    10347 > color sel #7a81ffff
    10348 
    10349 > color sel #7a81fffe
    10350 
    10351 > color sel #7a81fffa
    10352 
    10353 > color sel #7a81ffeb
    10354 
    10355 > color sel #7a81ffe7
    10356 
    10357 > color sel #7a81ffe5
    10358 
    10359 > color sel #7a81ffd8
    10360 
    10361 > color sel #7a81ffd3
    10362 
    10363 > color sel #7a81ffcb
    10364 
    10365 > color sel #7a81ffc7
    10366 
    10367 > color sel #7a81ffc1
    10368 
    10369 > color sel #7a81ffab
    10370 
    10371 > color sel #7a81ffa5
    10372 
    10373 > color sel #7a81ffa2
    10374 
    10375 > color sel #7a81ff99
    10376 
    10377 > color sel #7a81ff97
    10378 
    10379 > color sel #7a81ff8f
    10380 
    10381 > color sel #7a81ff89
    10382 
    10383 > color sel #7a81ff88
    10384 
    10385 > color sel #7a81ff86
    10386 
    10387 > color sel #7a81ff84
    10388 
    10389 > color sel #7a81ff7f
    10390 
    10391 > color sel #7a81ff7d
    10392 
    10393 > color sel #7a81ff78
    10394 
    10395 > color sel #7a81ff77
    10396 
    10397 > color sel #7a81ff75
    10398 
    10399 > color sel #7a81ff70
    10400 
    10401 > color sel #7a81ff6e
    10402 
    10403 > color sel #7a81ff6d
    10404 
    10405 > color sel #7a81ff6b
    10406 
    10407 > color sel #7a81ff69
    10408 
    10409 > color sel #7a81ff67
    10410 
    10411 > color sel #7a81ff65
    10412 
    10413 > color sel #7a81ff5b
    10414 
    10415 > color sel #7a81ff54
    10416 
    10417 > color sel #7a81ff4b
    10418 
    10419 > color sel #7a81ff48
    10420 
    10421 > color sel #7a81ff43
    10422 
    10423 > color sel #7a81ff42
    10424 
    10425 > color sel #7a81ff3c
    10426 
    10427 > color sel #7a81ff3b
    10428 
    10429 > color sel #7a81ff36
    10430 
    10431 > color sel #7a81ff34
    10432 
    10433 > color sel #7a81ff30
    10434 
    10435 > color sel #7a81ff2e
    10436 
    10437 > color sel #7a81ff2d
    10438 
    10439 > color sel #7a81ff2c
    10440 
    10441 > color sel #7a81ff28
    10442 
    10443 > color sel #7a81ff27
    10444 
    10445 > color sel #7a81ff26
    10446 
    10447 > color sel #7a81ff25
    10448 
    10449 > color sel #7a81ff24
    10450 
    10451 > color sel #7a81ff21
    10452 
    10453 > color sel #7a81ff20
    10454 
    10455 > color sel #7a81ff1f
    10456 
    10457 > color sel #7a81ff1e
    10458 
    10459 > color sel #7a81ff1b
    10460 
    10461 > color sel #7a81ff16
    10462 
    10463 > color sel #7a81ff15
    10464 
    10465 > color sel #7a81ff13
    10466 
    10467 > color sel #7a81ff12
    10468 
    10469 > color sel #7a81ff10
    10470 
    10471 > color sel #7a81ff0f
    10472 
    10473 > color sel #7a81ff0e
    10474 
    10475 > color sel #7a81ff0d
    10476 
    10477 > color sel #7a81ff0c
    10478 
    10479 > select #2/J:-73--57
    10480 
    10481 350 atoms, 392 bonds, 17 residues, 1 model selected 
    10482 
    10483 > color sel #7a81ffff
    10484 
    10485 > select #2/J:-56-69
    10486 
    10487 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    10488 
    10489 > color sel #7a81ffff
    10490 
    10491 > color sel #7a81fffe
    10492 
    10493 > color sel #7a81fffd
    10494 
    10495 > color sel #7a81fff8
    10496 
    10497 > color sel #7a81fff5
    10498 
    10499 > color sel #7a81ffe4
    10500 
    10501 > color sel #7a81ffd7
    10502 
    10503 > color sel #7a81ffcb
    10504 
    10505 > color sel #7a81ffc4
    10506 
    10507 > color sel #7a81ffbc
    10508 
    10509 > color sel #7a81ffb2
    10510 
    10511 > color sel #7a81ffae
    10512 
    10513 > color sel #7a81ffac
    10514 
    10515 > color sel #7a81ffa9
    10516 
    10517 > color sel #7a81ff8f
    10518 
    10519 > color sel #7a81ff7b
    10520 
    10521 > color sel #7a81ff39
    10522 
    10523 > color sel #7a81ff31
    10524 
    10525 > color sel #7a81ff2f
    10526 
    10527 > color sel #7a81ff2e
    10528 
    10529 > color sel #7a81ff2b
    10530 
    10531 > color sel #7a81ff29
    10532 
    10533 > color sel #7a81ff27
    10534 
    10535 > color sel #7a81ff26
    10536 
    10537 > color sel #7a81ff24
    10538 
    10539 > color sel #7a81ff21
    10540 
    10541 > color sel #7a81ff1f
    10542 
    10543 > color sel #7a81ff1e
    10544 
    10545 > color sel #7a81ff1b
    10546 
    10547 > color sel #7a81ff16
    10548 
    10549 > color sel #7a81ff13
    10550 
    10551 > color sel #7a81ff11
    10552 
    10553 > color sel #7a81ff10
    10554 
    10555 > color sel #7a81ff0f
    10556 
    10557 > color sel #7a81ff0a
    10558 
    10559 > color sel #7a81ff04
    10560 
    10561 > color sel #7a81ff00
    10562 
    10563 > color sel #7a81ff07
    10564 
    10565 > color sel #7a81ff0d
    10566 
    10567 > color sel #7a81ff0e
    10568 
    10569 > color sel #7a81ff0d
    10570 
    10571 > select #2/J:70-73
    10572 
    10573 81 atoms, 89 bonds, 4 residues, 1 model selected 
    10574 
    10575 > color sel #7a81ffff
    10576 
    10577 > select #4/Y:1-3
    10578 
    10579 60 atoms, 66 bonds, 3 residues, 1 model selected 
    10580 
    10581 > color sel #fffc79ff
    10582 
    10583 > select #4/Y:4-129
    10584 
    10585 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    10586 
    10587 > color sel #fffc79ff
    10588 
    10589 > color sel #fffc79fe
    10590 
    10591 > color sel #fffc79f5
    10592 
    10593 > color sel #fffc79a5
    10594 
    10595 > color sel #fffc7998
    10596 
    10597 > color sel #fffc7993
    10598 
    10599 > color sel #fffc7991
    10600 
    10601 > color sel #fffc7990
    10602 
    10603 > color sel #fffc798e
    10604 
    10605 > color sel #fffc798d
    10606 
    10607 > color sel #fffc798c
    10608 
    10609 > color sel #fffc798b
    10610 
    10611 > color sel #fffc798a
    10612 
    10613 > color sel #fffc7987
    10614 
    10615 > color sel #fffc7982
    10616 
    10617 > color sel #fffc797d
    10618 
    10619 > color sel #fffc797a
    10620 
    10621 > color sel #fffc7976
    10622 
    10623 > color sel #fffc7975
    10624 
    10625 > color sel #fffc7972
    10626 
    10627 > color sel #fffc7971
    10628 
    10629 > color sel #fffc7970
    10630 
    10631 > color sel #fffc796e
    10632 
    10633 > color sel #fffc796d
    10634 
    10635 > color sel #fffc7969
    10636 
    10637 > color sel #fffc7967
    10638 
    10639 > color sel #fffc7966
    10640 
    10641 > color sel #fffc7964
    10642 
    10643 > color sel #fffc7961
    10644 
    10645 > color sel #fffc795a
    10646 
    10647 > color sel #fffc7955
    10648 
    10649 > color sel #fffc7949
    10650 
    10651 > color sel #fffc7942
    10652 
    10653 > color sel #fffc793f
    10654 
    10655 > color sel #fffc793c
    10656 
    10657 > color sel #fffc793b
    10658 
    10659 > color sel #fffc793a
    10660 
    10661 > color sel #fffc7931
    10662 
    10663 > color sel #fffc7930
    10664 
    10665 > color sel #fffc792f
    10666 
    10667 > color sel #fffc792e
    10668 
    10669 > color sel #fffc792d
    10670 
    10671 > color sel #fffc792c
    10672 
    10673 > color sel #fffc792b
    10674 
    10675 > color sel #fffc792a
    10676 
    10677 > color sel #fffc7929
    10678 
    10679 > color sel #fffc7928
    10680 
    10681 > color sel #fffc7927
    10682 
    10683 > color sel #fffc7925
    10684 
    10685 > color sel #fffc7924
    10686 
    10687 > color sel #fffc7922
    10688 
    10689 > color sel #fffc7921
    10690 
    10691 > color sel #fffc791f
    10692 
    10693 > color sel #fffc791d
    10694 
    10695 > color sel #fffc791c
    10696 
    10697 > color sel #fffc791b
    10698 
    10699 > color sel #fffc791a
    10700 
    10701 > color sel #fffc7918
    10702 
    10703 > color sel #fffc7917
    10704 
    10705 > color sel #fffc7916
    10706 
    10707 > color sel #fffc7915
    10708 
    10709 > color sel #fffc7914
    10710 
    10711 > color sel #fffc7913
    10712 
    10713 > color sel #fffc7912
    10714 
    10715 > color sel #fffc7911
    10716 
    10717 > color sel #fffc7910
    10718 
    10719 > color sel #fffc790f
    10720 
    10721 > color sel #fffc790e
    10722 
    10723 > select #4/Y:130-132
    10724 
    10725 62 atoms, 69 bonds, 3 residues, 1 model selected 
    10726 
    10727 > color sel #fffc79ff
    10728 
    10729 > select #4/X:16-141
    10730 
    10731 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    10732 
    10733 > color sel #fffc79ff
    10734 
    10735 > color sel #fffc79fe
    10736 
    10737 > color sel #fffc79fa
    10738 
    10739 > color sel #fffc79df
    10740 
    10741 > color sel #fffc79bf
    10742 
    10743 > color sel #fffc79aa
    10744 
    10745 > color sel #fffc799d
    10746 
    10747 > color sel #fffc7982
    10748 
    10749 > color sel #fffc7975
    10750 
    10751 > color sel #fffc7969
    10752 
    10753 > color sel #fffc7965
    10754 
    10755 > color sel #fffc7962
    10756 
    10757 > color sel #fffc795f
    10758 
    10759 > color sel #fffc795c
    10760 
    10761 > color sel #fffc795b
    10762 
    10763 > color sel #fffc7945
    10764 
    10765 > color sel #fffc793e
    10766 
    10767 > color sel #fffc7938
    10768 
    10769 > color sel #fffc792d
    10770 
    10771 > color sel #fffc792a
    10772 
    10773 > color sel #fffc7929
    10774 
    10775 > color sel #fffc7925
    10776 
    10777 > color sel #fffc7923
    10778 
    10779 > color sel #fffc7920
    10780 
    10781 > color sel #fffc791e
    10782 
    10783 > color sel #fffc791d
    10784 
    10785 > color sel #fffc791b
    10786 
    10787 > color sel #fffc791a
    10788 
    10789 > color sel #fffc7919
    10790 
    10791 > color sel #fffc7917
    10792 
    10793 > color sel #fffc7916
    10794 
    10795 > color sel #fffc7915
    10796 
    10797 > color sel #fffc7914
    10798 
    10799 > color sel #fffc7913
    10800 
    10801 > color sel #fffc7912
    10802 
    10803 > color sel #fffc7911
    10804 
    10805 > color sel #fffc7910
    10806 
    10807 > color sel #fffc790f
    10808 
    10809 > color sel #fffc790e
    10810 
    10811 > color sel #fffc790d
    10812 
    10813 > select #4/X:142-144
    10814 
    10815 63 atoms, 70 bonds, 3 residues, 1 model selected 
    10816 
    10817 > color sel #fffc79ff
    10818 
    10819 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10820 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    10821 > NCP-class2_ShowDNAandSSX_Schain_STICK.cxs
    10822 
    10823 > select #4/S
    10824 
    10825 135 atoms, 139 bonds, 16 residues, 1 model selected 
    10826 
    10827 > hide sel atoms
    10828 
    10829 > select #2/S
    10830 
    10831 129 atoms, 132 bonds, 14 residues, 1 model selected 
    10832 
    10833 > hide sel atoms
    10834 
    10835 > select clear
    10836 
    10837 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10838 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    10839 > NCP-class2_ShowDNAandSSX_Schain_RIBBON.cxs includeMaps true
    10840 
    10841 > hide #4 models
    10842 
    10843 > show #4 models
    10844 
    10845 > hide #4 models
    10846 
    10847 > show #3 models
    10848 
    10849 > select #3/R
    10850 
    10851 93 atoms, 95 bonds, 11 residues, 1 model selected 
    10852 
    10853 > hide sel cartoons
    10854 
    10855 > select clear
    10856 
    10857 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10858 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    10859 > NCP-class2_ShowDNAandSSX_Schain_RIBBON.cxs
    10860 
    10861 > hide #3 models
    10862 
    10863 > show #1 models
    10864 
    10865 > hide #1 models
    10866 
    10867 > show #3 models
    10868 
    10869 > select #3/S
    10870 
    10871 103 atoms, 104 bonds, 13 residues, 1 model selected 
    10872 
    10873 > hide sel atoms
    10874 
    10875 > show sel atoms
    10876 
    10877 > select solvent
    10878 
    10879 6 atoms, 6 residues, 2 models selected 
    10880 
    10881 > hide sel & #3 atoms
    10882 
    10883 > select #2/S
    10884 
    10885 129 atoms, 132 bonds, 14 residues, 1 model selected 
    10886 
    10887 > show sel atoms
    10888 
    10889 > select clear
    10890 
    10891 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10892 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    10893 > NCP-class4_ShowDNAandSSX_Schain_STICK.cxs
    10894 
    10895 > hide #3 models
    10896 
    10897 > show #1 models
    10898 
    10899 > select #1/S
    10900 
    10901 158 atoms, 160 bonds, 20 residues, 1 model selected 
    10902 
    10903 > show sel atoms
    10904 
    10905 > select solvent
    10906 
    10907 6 atoms, 6 residues, 2 models selected 
    10908 
    10909 > hide sel & #1 atoms
    10910 
    10911 > select clear
    10912 
    10913 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10914 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    10915 > NCP-class1p3_ShowDNAandSSX_Schain_STICK.cxs
    10916 
    10917 > select #1/S
    10918 
    10919 158 atoms, 160 bonds, 20 residues, 1 model selected 
    10920 
    10921 > hide sel atoms
    10922 
    10923 > select #2/S
    10924 
    10925 129 atoms, 132 bonds, 14 residues, 1 model selected 
    10926 
    10927 > hide sel atoms
    10928 
    10929 > select clear
    10930 
    10931 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    10932 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    10933 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    10934 
    10935 > hide #1 models
    10936 
    10937 > show #3 models
    10938 
    10939 > select #2/S
    10940 
    10941 129 atoms, 132 bonds, 14 residues, 1 model selected 
    10942 
    10943 > show sel atoms
    10944 
    10945 > select clear
    10946 
    10947 > select #2/J:-73--68
    10948 
    10949 126 atoms, 141 bonds, 6 residues, 1 model selected 
    10950 
    10951 > color sel #7a81ffff
    10952 
    10953 > select #2/J:-69
    10954 
    10955 21 atoms, 23 bonds, 1 residue, 1 model selected 
    10956 
    10957 > select #2/J:-69--61
    10958 
    10959 184 atoms, 206 bonds, 9 residues, 1 model selected 
    10960 
    10961 > select #2/J:70
    10962 
    10963 19 atoms, 20 bonds, 1 residue, 1 model selected 
    10964 
    10965 > select #2/J:-69-70
    10966 
    10967 2851 atoms, 3194 bonds, 140 residues, 1 model selected 
    10968 
    10969 > select #2/J:-73--70
    10970 
    10971 83 atoms, 92 bonds, 4 residues, 1 model selected 
    10972 
    10973 > color sel #7a81ffff
    10974 
    10975 > select #2/J:-69-70
    10976 
    10977 2851 atoms, 3194 bonds, 140 residues, 1 model selected 
    10978 
    10979 > color sel #7a81ffff
    10980 
    10981 > color sel #7a81fffe
    10982 
    10983 > color sel #7a81ffd9
    10984 
    10985 > color sel #7a81ff82
    10986 
    10987 > color sel #7a81ff6d
    10988 
    10989 > color sel #7a81ff64
    10990 
    10991 > color sel #7a81ff50
    10992 
    10993 > color sel #7a81ff47
    10994 
    10995 > color sel #7a81ff41
    10996 
    10997 > color sel #7a81ff3e
    10998 
    10999 > color sel #7a81ff3d
    11000 
    11001 > color sel #7a81ff3b
    11002 
    11003 > color sel #7a81ff3a
    11004 
    11005 > color sel #7a81ff39
    11006 
    11007 > color sel #7a81ff37
    11008 
    11009 > color sel #7a81ff35
    11010 
    11011 > color sel #7a81ff32
    11012 
    11013 > color sel #7a81ff30
    11014 
    11015 > color sel #7a81ff2f
    11016 
    11017 > color sel #7a81ff2b
    11018 
    11019 > color sel #7a81ff2a
    11020 
    11021 > color sel #7a81ff27
    11022 
    11023 > color sel #7a81ff25
    11024 
    11025 > color sel #7a81ff24
    11026 
    11027 > color sel #7a81ff23
    11028 
    11029 > color sel #7a81ff21
    11030 
    11031 > color sel #7a81ff20
    11032 
    11033 > color sel #7a81ff1e
    11034 
    11035 > color sel #7a81ff1d
    11036 
    11037 > color sel #7a81ff1c
    11038 
    11039 > color sel #7a81ff1b
    11040 
    11041 > color sel #7a81ff1a
    11042 
    11043 > color sel #7a81ff19
    11044 
    11045 > color sel #7a81ff18
    11046 
    11047 > color sel #7a81ff17
    11048 
    11049 > color sel #7a81ff16
    11050 
    11051 > color sel #7a81ff15
    11052 
    11053 > color sel #7a81ff14
    11054 
    11055 > color sel #7a81ff13
    11056 
    11057 > color sel #7a81ff12
    11058 
    11059 > color sel #7a81ff11
    11060 
    11061 > color sel #7a81ff10
    11062 
    11063 > color sel #7a81ff0f
    11064 
    11065 > color sel #7a81ff0e
    11066 
    11067 > color sel #7a81ff0d
    11068 
    11069 > color sel #7a81ff0c
    11070 
    11071 > color sel #7a81ff0b
    11072 
    11073 > color sel #7a81ff0c
    11074 
    11075 > color sel #7a81ff0d
    11076 
    11077 > select #2/J:71-73
    11078 
    11079 62 atoms, 68 bonds, 3 residues, 1 model selected 
    11080 
    11081 > color sel #7a81ffff
    11082 
    11083 > select #2/I:-69
    11084 
    11085 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11086 
    11087 > select #2/I:-69-53
    11088 
    11089 2540 atoms, 2853 bonds, 123 residues, 1 model selected 
    11090 
    11091 > select #2/I:-69
    11092 
    11093 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11094 
    11095 > select #2/I:-69-71
    11096 
    11097 2905 atoms, 3261 bonds, 141 residues, 1 model selected 
    11098 
    11099 > select #2/I:69-70
    11100 
    11101 39 atoms, 42 bonds, 2 residues, 1 model selected 
    11102 
    11103 > select #2/I:-69-70
    11104 
    11105 2886 atoms, 3240 bonds, 140 residues, 1 model selected 
    11106 
    11107 > select #2/I:70
    11108 
    11109 19 atoms, 20 bonds, 1 residue, 1 model selected 
    11110 
    11111 > select #2/I:68-70
    11112 
    11113 58 atoms, 63 bonds, 3 residues, 1 model selected 
    11114 
    11115 > select #2/I:69
    11116 
    11117 20 atoms, 21 bonds, 1 residue, 1 model selected 
    11118 
    11119 > select #2/I:-69-69
    11120 
    11121 2867 atoms, 3219 bonds, 139 residues, 1 model selected 
    11122 
    11123 > select #2/I:-73--70
    11124 
    11125 83 atoms, 93 bonds, 4 residues, 1 model selected 
    11126 
    11127 > color sel #7a81ffff
    11128 
    11129 > select #2/I:-69-70
    11130 
    11131 2886 atoms, 3240 bonds, 140 residues, 1 model selected 
    11132 
    11133 > color sel #7a81ffff
    11134 
    11135 > color sel #7a81fff4
    11136 
    11137 > color sel #7a81ffa8
    11138 
    11139 > color sel #7a81ff6d
    11140 
    11141 > color sel #7a81ff5c
    11142 
    11143 > color sel #7a81ff41
    11144 
    11145 > color sel #7a81ff3a
    11146 
    11147 > color sel #7a81ff36
    11148 
    11149 > color sel #7a81ff34
    11150 
    11151 > color sel #7a81ff31
    11152 
    11153 > color sel #7a81ff2e
    11154 
    11155 > color sel #7a81ff2b
    11156 
    11157 > color sel #7a81ff2a
    11158 
    11159 > color sel #7a81ff29
    11160 
    11161 > color sel #7a81ff28
    11162 
    11163 > color sel #7a81ff27
    11164 
    11165 > color sel #7a81ff26
    11166 
    11167 > color sel #7a81ff22
    11168 
    11169 > color sel #7a81ff20
    11170 
    11171 > color sel #7a81ff1d
    11172 
    11173 > color sel #7a81ff1b
    11174 
    11175 > color sel #7a81ff19
    11176 
    11177 > color sel #7a81ff18
    11178 
    11179 > color sel #7a81ff15
    11180 
    11181 > color sel #7a81ff13
    11182 
    11183 > color sel #7a81ff12
    11184 
    11185 > color sel #7a81ff11
    11186 
    11187 > color sel #7a81ff10
    11188 
    11189 > color sel #7a81ff0e
    11190 
    11191 > color sel #7a81ff0d
    11192 
    11193 > color sel #7a81ff0c
    11194 
    11195 > select #2/I:70-73
    11196 
    11197 81 atoms, 90 bonds, 4 residues, 1 model selected 
    11198 
    11199 > color sel #7a81ffff
    11200 
    11201 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11202 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11203 > NCP-class4_ShowDNAandSSX_Schain_STICK.cxs
    11204 
    11205 > select #2/S#3/S
    11206 
    11207 232 atoms, 236 bonds, 27 residues, 2 models selected 
    11208 
    11209 > hide sel atoms
    11210 
    11211 > select clear
    11212 
    11213 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11214 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11215 > NCP-class4_ShowDNAandSSX_Schain_RIBBON.cxs
    11216 
    11217 > save /Users/kenjiman/Desktop/image1.png supersample 3
    11218 
    11219 > select #2/S#3/S
    11220 
    11221 232 atoms, 236 bonds, 27 residues, 2 models selected 
    11222 
    11223 > show sel atoms
    11224 
    11225 > select clear
    11226 
    11227 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11228 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11229 > NCP-class4_ShowDNAandSSX_Schain_STICK.cxs
    11230 
    11231 > save /Users/kenjiman/Desktop/image1.png supersample 3
    11232 
    11233 > select solvent
    11234 
    11235 6 atoms, 6 residues, 2 models selected 
    11236 
    11237 > hide sel & #3 atoms
    11238 
    11239 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11240 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11241 > NCP-class4_ShowDNAandSSX_Schain_STICK.cxs
    11242 
    11243 > hide #3 models
    11244 
    11245 > show #1 models
    11246 
    11247 > select #2/J:-56--3
    11248 
    11249 1104 atoms, 1238 bonds, 54 residues, 1 model selected 
    11250 
    11251 > select #2/J:-56-48
    11252 
    11253 2137 atoms, 2393 bonds, 105 residues, 1 model selected 
    11254 
    11255 > select #2/J:68-69
    11256 
    11257 39 atoms, 42 bonds, 2 residues, 1 model selected 
    11258 
    11259 > select #2/J:-56-69
    11260 
    11261 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    11262 
    11263 > color sel #7a81ffff
    11264 
    11265 > color sel #7a81fffc
    11266 
    11267 > color sel #7a81ffe5
    11268 
    11269 > color sel #7a81ffb2
    11270 
    11271 > color sel #7a81ff9e
    11272 
    11273 > color sel #7a81ff6d
    11274 
    11275 > color sel #7a81ff59
    11276 
    11277 > color sel #7a81ff4d
    11278 
    11279 > color sel #7a81ff49
    11280 
    11281 > color sel #7a81ff47
    11282 
    11283 > color sel #7a81ff43
    11284 
    11285 > color sel #7a81ff35
    11286 
    11287 > color sel #7a81ff30
    11288 
    11289 > color sel #7a81ff2f
    11290 
    11291 > color sel #7a81ff2c
    11292 
    11293 > color sel #7a81ff2b
    11294 
    11295 > color sel #7a81ff2a
    11296 
    11297 > color sel #7a81ff28
    11298 
    11299 > color sel #7a81ff22
    11300 
    11301 > color sel #7a81ff21
    11302 
    11303 > color sel #7a81ff20
    11304 
    11305 > color sel #7a81ff1f
    11306 
    11307 > color sel #7a81ff1d
    11308 
    11309 > color sel #7a81ff1c
    11310 
    11311 > color sel #7a81ff1b
    11312 
    11313 > color sel #7a81ff1a
    11314 
    11315 > color sel #7a81ff19
    11316 
    11317 > color sel #7a81ff18
    11318 
    11319 > color sel #7a81ff17
    11320 
    11321 > color sel #7a81ff16
    11322 
    11323 > color sel #7a81ff15
    11324 
    11325 > color sel #7a81ff13
    11326 
    11327 > color sel #7a81ff12
    11328 
    11329 > color sel #7a81ff11
    11330 
    11331 > color sel #7a81ff10
    11332 
    11333 > color sel #7a81ff0f
    11334 
    11335 > color sel #7a81ff0d
    11336 
    11337 > color sel #7a81ff0e
    11338 
    11339 > color sel #7a81ff10
    11340 
    11341 > color sel #7a81ff1c
    11342 
    11343 > color sel #7a81ff42
    11344 
    11345 > color sel #7a81ff58
    11346 
    11347 > color sel #7a81ff90
    11348 
    11349 > color sel #7a81ffa5
    11350 
    11351 > color sel #7a81ffb6
    11352 
    11353 > color sel #7a81ffb9
    11354 
    11355 > color sel #7a81ffbd
    11356 
    11357 > color sel #7a81ffc1
    11358 
    11359 > color sel #7a81ffc0
    11360 
    11361 > color sel #7a81ffbb
    11362 
    11363 > color sel #7a81ffb2
    11364 
    11365 > color sel #7a81ff9b
    11366 
    11367 > color sel #7a81ff86
    11368 
    11369 > color sel #7a81ff76
    11370 
    11371 > color sel #7a81ff69
    11372 
    11373 > color sel #7a81ff5e
    11374 
    11375 > color sel #7a81ff5d
    11376 
    11377 > color sel #7a81ff5c
    11378 
    11379 > color sel #7a81ff5b
    11380 
    11381 > color sel #7a81ff59
    11382 
    11383 > color sel #7a81ff58
    11384 
    11385 > color sel #7a81ff56
    11386 
    11387 > color sel #7a81ff55
    11388 
    11389 > color sel #7a81ff54
    11390 
    11391 > color sel #7a81ff52
    11392 
    11393 > color sel #7a81ff4d
    11394 
    11395 > color sel #7a81ff4b
    11396 
    11397 > color sel #7a81ff49
    11398 
    11399 > color sel #7a81ff48
    11400 
    11401 > color sel #7a81ff42
    11402 
    11403 > color sel #7a81ff40
    11404 
    11405 > color sel #7a81ff3d
    11406 
    11407 > color sel #7a81ff3b
    11408 
    11409 > color sel #7a81ff37
    11410 
    11411 > color sel #7a81ff32
    11412 
    11413 > color sel #7a81ff2d
    11414 
    11415 > color sel #7a81ff2b
    11416 
    11417 > color sel #7a81ff26
    11418 
    11419 > color sel #7a81ff24
    11420 
    11421 > color sel #7a81ff23
    11422 
    11423 > color sel #7a81ff1c
    11424 
    11425 > color sel #7a81ff14
    11426 
    11427 > color sel #7a81ff11
    11428 
    11429 > color sel #7a81ff10
    11430 
    11431 > color sel #7a81ff0f
    11432 
    11433 > color sel #7a81ff0e
    11434 
    11435 > color sel #7a81ff0d
    11436 
    11437 > select #2/J:-73--57
    11438 
    11439 350 atoms, 392 bonds, 17 residues, 1 model selected 
    11440 
    11441 > color sel #7a81ffff
    11442 
    11443 > select #2/J:70-73
    11444 
    11445 81 atoms, 89 bonds, 4 residues, 1 model selected 
    11446 
    11447 > color sel #7a81ffff
    11448 
    11449 > select #2/I:-69
    11450 
    11451 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11452 
    11453 > select #2/I:-69-56
    11454 
    11455 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    11456 
    11457 > color sel #7a81ffff
    11458 
    11459 > color sel #7a81fffb
    11460 
    11461 > color sel #7a81ffe5
    11462 
    11463 > color sel #7a81ffa4
    11464 
    11465 > color sel #7a81ff7a
    11466 
    11467 > color sel #7a81ff64
    11468 
    11469 > color sel #7a81ff51
    11470 
    11471 > color sel #7a81ff4a
    11472 
    11473 > color sel #7a81ff43
    11474 
    11475 > color sel #7a81ff40
    11476 
    11477 > color sel #7a81ff3c
    11478 
    11479 > color sel #7a81ff35
    11480 
    11481 > color sel #7a81ff32
    11482 
    11483 > color sel #7a81ff31
    11484 
    11485 > color sel #7a81ff2f
    11486 
    11487 > color sel #7a81ff2d
    11488 
    11489 > color sel #7a81ff2c
    11490 
    11491 > color sel #7a81ff2b
    11492 
    11493 > color sel #7a81ff2a
    11494 
    11495 > color sel #7a81ff29
    11496 
    11497 > color sel #7a81ff28
    11498 
    11499 > color sel #7a81ff26
    11500 
    11501 > color sel #7a81ff25
    11502 
    11503 > color sel #7a81ff24
    11504 
    11505 > color sel #7a81ff23
    11506 
    11507 > color sel #7a81ff22
    11508 
    11509 > color sel #7a81ff21
    11510 
    11511 > color sel #7a81ff20
    11512 
    11513 > color sel #7a81ff1f
    11514 
    11515 > color sel #7a81ff1e
    11516 
    11517 > color sel #7a81ff1d
    11518 
    11519 > color sel #7a81ff1b
    11520 
    11521 > color sel #7a81ff1a
    11522 
    11523 > color sel #7a81ff17
    11524 
    11525 > color sel #7a81ff13
    11526 
    11527 > color sel #7a81ff12
    11528 
    11529 > color sel #7a81ff11
    11530 
    11531 > color sel #7a81ff10
    11532 
    11533 > color sel #7a81ff0f
    11534 
    11535 > color sel #7a81ff0e
    11536 
    11537 > color sel #7a81ff0d
    11538 
    11539 > color sel #7a81ff0c
    11540 
    11541 > select #2/J:-73--70
    11542 
    11543 83 atoms, 92 bonds, 4 residues, 1 model selected 
    11544 
    11545 > color sel #7a81ffff
    11546 
    11547 > select #2/I:-73--70
    11548 
    11549 83 atoms, 93 bonds, 4 residues, 1 model selected 
    11550 
    11551 > color sel #7a81ffff
    11552 
    11553 > select #2/I:70-73
    11554 
    11555 81 atoms, 90 bonds, 4 residues, 1 model selected 
    11556 
    11557 > color sel #7a81ffff
    11558 
    11559 > select #2/I:57
    11560 
    11561 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11562 
    11563 > select #2/I:57-73
    11564 
    11565 347 atoms, 388 bonds, 17 residues, 1 model selected 
    11566 
    11567 > color sel #7a81ffff
    11568 
    11569 > select #2/I:-73
    11570 
    11571 21 atoms, 23 bonds, 1 residue, 1 model selected 
    11572 
    11573 > select #2/I:-73--70
    11574 
    11575 83 atoms, 93 bonds, 4 residues, 1 model selected 
    11576 
    11577 > color sel #7a81ffff
    11578 
    11579 > ui tool show "Show Sequence Viewer"
    11580 
    11581 > sequence chain #1/X
    11582 
    11583 Alignment identifier is 1/X 
    11584 
    11585 > sequence chain #1/Y
    11586 
    11587 Alignment identifier is 1/Y 
    11588 
    11589 > select #1/Y:4-5
    11590 
    11591 43 atoms, 48 bonds, 2 residues, 1 model selected 
    11592 
    11593 > select #1/Y:4-129
    11594 
    11595 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    11596 
    11597 > color sel #ff9300ff
    11598 
    11599 > color sel #ff9300fc
    11600 
    11601 > color sel #ff9300e4
    11602 
    11603 > color sel #ff9300b8
    11604 
    11605 > color sel #ff9300b7
    11606 
    11607 > color sel #ff9300b5
    11608 
    11609 > color sel #ff9300b3
    11610 
    11611 > color sel #ff9300ab
    11612 
    11613 > color sel #ff9300a1
    11614 
    11615 > color sel #ff93009f
    11616 
    11617 > color sel #ff93009d
    11618 
    11619 > color sel #ff930092
    11620 
    11621 > color sel #ff930086
    11622 
    11623 > color sel #ff93007c
    11624 
    11625 > color sel #ff930073
    11626 
    11627 > color sel #ff93006b
    11628 
    11629 > color sel #ff930068
    11630 
    11631 > color sel #ff930064
    11632 
    11633 > color sel #ff93005f
    11634 
    11635 > color sel #ff93005b
    11636 
    11637 > color sel #ff930053
    11638 
    11639 > color sel #ff930041
    11640 
    11641 > color sel #ff930040
    11642 
    11643 > color sel #ff93003f
    11644 
    11645 > color sel #ff93003e
    11646 
    11647 > color sel #ff93003b
    11648 
    11649 > color sel #ff93003a
    11650 
    11651 > color sel #ff930038
    11652 
    11653 > color sel #ff930037
    11654 
    11655 > color sel #ff930034
    11656 
    11657 > color sel #ff930031
    11658 
    11659 > color sel #ff930030
    11660 
    11661 > color sel #ff93002f
    11662 
    11663 > color sel #ff93002e
    11664 
    11665 > color sel #ff93002d
    11666 
    11667 > color sel #ff93002b
    11668 
    11669 > color sel #ff930027
    11670 
    11671 > color sel #ff930023
    11672 
    11673 > color sel #ff930022
    11674 
    11675 > color sel #ff930021
    11676 
    11677 > color sel #ff930020
    11678 
    11679 > color sel #ff93001f
    11680 
    11681 > color sel #ff93001e
    11682 
    11683 > color sel #ff93001c
    11684 
    11685 > color sel #ff93001b
    11686 
    11687 > color sel #ff93001a
    11688 
    11689 > color sel #ff930019
    11690 
    11691 > color sel #ff930018
    11692 
    11693 > color sel #ff930017
    11694 
    11695 > color sel #ff930016
    11696 
    11697 > color sel #ff930015
    11698 
    11699 > color sel #ff930014
    11700 
    11701 > color sel #ff930012
    11702 
    11703 > color sel #ff930010
    11704 
    11705 > color sel #ff93000e
    11706 
    11707 > color sel #ff93000d
    11708 
    11709 > select #1/Y:1
    11710 
    11711 21 atoms, 23 bonds, 1 residue, 1 model selected 
    11712 
    11713 > select #1/Y:1-3
    11714 
    11715 60 atoms, 66 bonds, 3 residues, 1 model selected 
    11716 
    11717 > color sel #ff9300ff
    11718 
    11719 > select #1/X:16
    11720 
    11721 19 atoms, 20 bonds, 1 residue, 1 model selected 
    11722 
    11723 > select #1/X:16-141
    11724 
    11725 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    11726 
    11727 > color sel #ff9300ff
    11728 
    11729 > color sel #ff9300fe
    11730 
    11731 > color sel #ff9300f3
    11732 
    11733 > color sel #ff9300d3
    11734 
    11735 > color sel #ff9300c0
    11736 
    11737 > color sel #ff9300b0
    11738 
    11739 > color sel #ff93009d
    11740 
    11741 > color sel #ff930091
    11742 
    11743 > color sel #ff930089
    11744 
    11745 > color sel #ff930085
    11746 
    11747 > color sel #ff93007f
    11748 
    11749 > color sel #ff930072
    11750 
    11751 > color sel #ff930066
    11752 
    11753 > color sel #ff930060
    11754 
    11755 > color sel #ff93005f
    11756 
    11757 > color sel #ff93005e
    11758 
    11759 > color sel #ff93005d
    11760 
    11761 > color sel #ff93005c
    11762 
    11763 > color sel #ff930058
    11764 
    11765 > color sel #ff930057
    11766 
    11767 > color sel #ff930056
    11768 
    11769 > color sel #ff930055
    11770 
    11771 > color sel #ff930052
    11772 
    11773 > color sel #ff93004e
    11774 
    11775 > color sel #ff930046
    11776 
    11777 > color sel #ff93003e
    11778 
    11779 > color sel #ff93003c
    11780 
    11781 > color sel #ff930039
    11782 
    11783 > color sel #ff930036
    11784 
    11785 > color sel #ff930033
    11786 
    11787 > color sel #ff930031
    11788 
    11789 > color sel #ff93002f
    11790 
    11791 > color sel #ff93002e
    11792 
    11793 > color sel #ff93002d
    11794 
    11795 > color sel #ff93002c
    11796 
    11797 > color sel #ff93002a
    11798 
    11799 > color sel #ff930028
    11800 
    11801 > color sel #ff930025
    11802 
    11803 > color sel #ff930021
    11804 
    11805 > color sel #ff93001d
    11806 
    11807 > color sel #ff93001c
    11808 
    11809 > color sel #ff93001b
    11810 
    11811 > color sel #ff93001a
    11812 
    11813 > color sel #ff930019
    11814 
    11815 > color sel #ff930018
    11816 
    11817 > color sel #ff930015
    11818 
    11819 > color sel #ff930012
    11820 
    11821 > color sel #ff930010
    11822 
    11823 > color sel #ff93000f
    11824 
    11825 > color sel #ff93000e
    11826 
    11827 > color sel #ff93000b
    11828 
    11829 > color sel #ff93000a
    11830 
    11831 > color sel #ff930009
    11832 
    11833 > color sel #ff93000a
    11834 
    11835 > color sel #ff93000b
    11836 
    11837 > color sel #ff93000d
    11838 
    11839 > select #1/X:144
    11840 
    11841 20 atoms, 21 bonds, 1 residue, 1 model selected 
    11842 
    11843 > select #1/X:142-144
    11844 
    11845 63 atoms, 70 bonds, 3 residues, 1 model selected 
    11846 
    11847 > color sel #ff9300ff
    11848 
    11849 > select #1/S
    11850 
    11851 158 atoms, 160 bonds, 20 residues, 1 model selected 
    11852 
    11853 > show sel atoms
    11854 
    11855 > select clear
    11856 
    11857 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11858 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11859 > NCP-class1p3_ShowDNAandSSX_Schain_STICK.cxs
    11860 
    11861 > select #1/S
    11862 
    11863 158 atoms, 160 bonds, 20 residues, 1 model selected 
    11864 
    11865 > hide sel atoms
    11866 
    11867 > select #2/S
    11868 
    11869 129 atoms, 132 bonds, 14 residues, 1 model selected 
    11870 
    11871 > hide sel atoms
    11872 
    11873 > select clear
    11874 
    11875 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11876 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11877 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    11878 
    11879 > save /Users/kenjiman/Desktop/image1.png supersample 3
    11880 
    11881 > select #2/S
    11882 
    11883 129 atoms, 132 bonds, 14 residues, 1 model selected 
    11884 
    11885 > show sel atoms
    11886 
    11887 > select #1/S
    11888 
    11889 158 atoms, 160 bonds, 20 residues, 1 model selected 
    11890 
    11891 > show sel atoms
    11892 
    11893 > select clear
    11894 
    11895 > save /Users/kenjiman/Desktop/image1.png supersample 3
    11896 
    11897 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11898 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11899 > NCP-class1p3_ShowDNAandSSX_Schain_STICK.cxs
    11900 
    11901 > select solvent
    11902 
    11903 6 atoms, 6 residues, 2 models selected 
    11904 
    11905 > hide sel & #1 atoms
    11906 
    11907 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    11908 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    11909 > NCP-class1p3_ShowDNAandSSX_Schain_STICK.cxs
    11910 
    11911 > save /Users/kenjiman/Desktop/image1.png supersample 3
    11912 
    11913 > hide #1 models
    11914 
    11915 > show #4 models
    11916 
    11917 > hide #4 models
    11918 
    11919 > show #5 models
    11920 
    11921 > hide #5 models
    11922 
    11923 > show #4 models
    11924 
    11925 > ui tool show "Show Sequence Viewer"
    11926 
    11927 > sequence chain #4/X
    11928 
    11929 Alignment identifier is 4/X 
    11930 
    11931 > sequence chain #4/Y
    11932 
    11933 Alignment identifier is 4/Y 
    11934 
    11935 > select #4/X:16
    11936 
    11937 19 atoms, 20 bonds, 1 residue, 1 model selected 
    11938 
    11939 > select #4/X:16-141
    11940 
    11941 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    11942 
    11943 > select #4/X:144
    11944 
    11945 20 atoms, 21 bonds, 1 residue, 1 model selected 
    11946 
    11947 > select #4/X:142-144
    11948 
    11949 63 atoms, 70 bonds, 3 residues, 1 model selected 
    11950 
    11951 > select #4/Y:4
    11952 
    11953 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11954 
    11955 > select #4/Y:4-132
    11956 
    11957 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    11958 
    11959 > select #4/Y:130
    11960 
    11961 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11962 
    11963 > select #4/Y:4-130
    11964 
    11965 2623 atoms, 2946 bonds, 127 residues, 1 model selected 
    11966 
    11967 > select #4/Y:132
    11968 
    11969 21 atoms, 23 bonds, 1 residue, 1 model selected 
    11970 
    11971 > select #4/Y:131-132
    11972 
    11973 40 atoms, 44 bonds, 2 residues, 1 model selected 
    11974 
    11975 > select #4/Y:130
    11976 
    11977 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11978 
    11979 > select #4/Y:130
    11980 
    11981 22 atoms, 24 bonds, 1 residue, 1 model selected 
    11982 
    11983 > select #4/Y:132
    11984 
    11985 21 atoms, 23 bonds, 1 residue, 1 model selected 
    11986 
    11987 > select #4/Y:130-132
    11988 
    11989 62 atoms, 69 bonds, 3 residues, 1 model selected 
    11990 
    11991 > select #4/Y:1
    11992 
    11993 21 atoms, 23 bonds, 1 residue, 1 model selected 
    11994 
    11995 > select #4/Y:1-3
    11996 
    11997 60 atoms, 66 bonds, 3 residues, 1 model selected 
    11998 
    11999 > hide #4 models
    12000 
    12001 > show #5 models
    12002 
    12003 > show #4 models
    12004 
    12005 > hide #4 models
    12006 
    12007 > ui tool show "Show Sequence Viewer"
    12008 
    12009 > sequence chain #5/Y
    12010 
    12011 Alignment identifier is 5/Y 
    12012 
    12013 > sequence chain #5/X
    12014 
    12015 Alignment identifier is 5/X 
    12016 
    12017 > select #5/X:22-24
    12018 
    12019 60 atoms, 66 bonds, 3 residues, 1 model selected 
    12020 
    12021 > select #5/X
    12022 
    12023 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    12024 
    12025 > select #2/J:-50
    12026 
    12027 19 atoms, 20 bonds, 1 residue, 1 model selected 
    12028 
    12029 > select #2/J:-50-61
    12030 
    12031 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    12032 
    12033 > select #2/J:-51
    12034 
    12035 19 atoms, 20 bonds, 1 residue, 1 model selected 
    12036 
    12037 > select #2/J:-73--51
    12038 
    12039 475 atoms, 533 bonds, 23 residues, 1 model selected 
    12040 
    12041 > color sel #7a81ffff
    12042 
    12043 > select #2/J:62
    12044 
    12045 20 atoms, 21 bonds, 1 residue, 1 model selected 
    12046 
    12047 > select #2/J:62-73
    12048 
    12049 242 atoms, 269 bonds, 12 residues, 1 model selected 
    12050 
    12051 > color sel #7a81ffff
    12052 
    12053 > select #5/Y:123
    12054 
    12055 22 atoms, 24 bonds, 1 residue, 1 model selected 
    12056 
    12057 > select #5/Y
    12058 
    12059 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    12060 
    12061 > select #2/I:-64--63
    12062 
    12063 41 atoms, 45 bonds, 2 residues, 1 model selected 
    12064 
    12065 > select #2/I:-73--63
    12066 
    12067 229 atoms, 257 bonds, 11 residues, 1 model selected 
    12068 
    12069 > select #2/I:-62--61
    12070 
    12071 41 atoms, 45 bonds, 2 residues, 1 model selected 
    12072 
    12073 > select #2/I:-64--61
    12074 
    12075 82 atoms, 91 bonds, 4 residues, 1 model selected 
    12076 
    12077 > select #2/I:-62
    12078 
    12079 21 atoms, 23 bonds, 1 residue, 1 model selected 
    12080 
    12081 > select #2/I:-73--62
    12082 
    12083 250 atoms, 281 bonds, 12 residues, 1 model selected 
    12084 
    12085 > color sel #7a81ffff
    12086 
    12087 > select #2/I:51
    12088 
    12089 22 atoms, 24 bonds, 1 residue, 1 model selected 
    12090 
    12091 > select #2/I:51-73
    12092 
    12093 468 atoms, 523 bonds, 23 residues, 1 model selected 
    12094 
    12095 > color sel #7a81ffff
    12096 
    12097 > select clear
    12098 
    12099 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12100 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    12101 > NCP-class3_ShowDNAandSSX_Schain_STICK.cxs
    12102 
    12103 > save /Users/kenjiman/Desktop/image1.png supersample 3
    12104 
    12105 > select #2/S#5/S
    12106 
    12107 283 atoms, 290 bonds, 33 residues, 2 models selected 
    12108 
    12109 > hide sel atoms
    12110 
    12111 > select clear
    12112 
    12113 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12114 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    12115 > NCP-class3_ShowDNAandSSX_Schain_RIBBON.cxs
    12116 
    12117 > save /Users/kenjiman/Desktop/image1.png supersample 3
    12118 
    12119 > hide #5 models
    12120 
    12121 > show #4 models
    12122 
    12123 > show #5 models
    12124 
    12125 > hide #4 models
    12126 
    12127 > show #3 models
    12128 
    12129 > hide #3 models
    12130 
    12131 > hide #5 models
    12132 
    12133 > show #4 models
    12134 
    12135 > hide #4 models
    12136 
    12137 > show #3 models
    12138 
    12139 > hide #3 models
    12140 
    12141 > show #3 models
    12142 
    12143 > hide #3 models
    12144 
    12145 > show #5 models
    12146 
    12147 > hide #5 models
    12148 
    12149 > show #4 models
    12150 
    12151 > select #4/S
    12152 
    12153 135 atoms, 139 bonds, 16 residues, 1 model selected 
    12154 
    12155 > color sel #fffc79ff
    12156 
    12157 > select clear
    12158 
    12159 > hide #4 models
    12160 
    12161 > show #5 models
    12162 
    12163 > hide #5 models
    12164 
    12165 > show #4 models
    12166 
    12167 > hide #4 models
    12168 
    12169 > show #3 models
    12170 
    12171 > hide #3 models
    12172 
    12173 > show #4 models
    12174 
    12175 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12176 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX2comp/CXS/Comp_8HR1_vs_SSX2RD-
    12177 > NCP-class2_ShowDNAandSSX_Schain_RIBBON.cxs
    12178 
    12179 > save /Users/kenjiman/Desktop/image1.png supersample 3
    12180 
    12181 > hide #4 models
    12182 
    12183 > show #3 models
    12184 
    12185 > select #3/S
    12186 
    12187 103 atoms, 104 bonds, 13 residues, 1 model selected 
    12188 
    12189 > hide sel atoms
    12190 
    12191 > ui tool show "Show Sequence Viewer"
    12192 
    12193 > sequence chain #3/X
    12194 
    12195 Alignment identifier is 3/X 
    12196 
    12197 > sequence chain #3/Y
    12198 
    12199 Alignment identifier is 3/Y 
    12200 
    12201 > hide #3 models
    12202 
    12203 > show #1 models
    12204 
    12205 > hide #1 models
    12206 
    12207 > show #3 models
    12208 
    12209 > show #4 models
    12210 
    12211 > hide #4 models
    12212 
    12213 > show #4 models
    12214 
    12215 > hide #4 models
    12216 
    12217 > show #4 models
    12218 
    12219 > hide #4 models
    12220 
    12221 > hide #3 models
    12222 
    12223 > show #3 models
    12224 
    12225 > hide #3 models
    12226 
    12227 > hide #2 models
    12228 
    12229 > show #2 models
    12230 
    12231 > show #3 models
    12232 
    12233 > close session
    12234 
    12235 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12236 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    12237 > NCP-class4_ShowDNAandSSX_Schain_RIBBON.cxs
    12238 
    12239 opened ChimeraX session 
    12240 
    12241 > save /Users/kenjiman/Desktop/image1.png supersample 3
    12242 
    12243 > close session
    12244 
    12245 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12246 > Nuc/NatComm/原稿/Figures/Materials/NSMB2024/SSX1-NCP_H2AK119Ub/1to1/8HQY/pdb8hqy.ent
    12247 
    12248 pdb8hqy.ent title: 
    12249 Cryo-em structure of SSX1 bound to the H2AK119UB nucleosome At A resolution of
    12250 3.05 angstrom [more info...] 
    12251  
    12252 Chain information for pdb8hqy.ent #1 
    12253 --- 
    12254 Chain | Description | UniProt 
    12255 A E | histone H3 |   
    12256 B | histone H4 (fragment) |   
    12257 C | histone H2A type 1-B/E | H2A1B_HUMAN 13-118 
    12258 D H | histone H2B type 1-K | H2B1K_HUMAN 34-124 
    12259 F | histone H4 |   
    12260 G | histone H2A type 1-B/E | H2A1B_HUMAN 13-118 
    12261 I | DNA (137-mer) |   
    12262 J | DNA (136-mer) |   
    12263 S | protein SSX2 | SSX2_HUMAN 162-184 
    12264 U | polyubiquitin-B (fragment) | J3QS39_HUMAN 1-74 
    12265  
    12266 
    12267 > hide atoms
    12268 
    12269 > show cartoons
    12270 
    12271 > select #1/A-H
    12272 
    12273 5953 atoms, 6031 bonds, 751 residues, 1 model selected 
    12274 
    12275 > select #1/A-H,U
    12276 
    12277 6546 atoms, 6630 bonds, 825 residues, 1 model selected 
    12278 
    12279 > hide sel cartoons
    12280 
    12281 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12282 > Nuc/NatComm/原稿/Figures/Materials/SSX1RD-NCPs/SSX1RD-NCP-
    12283 > class1p3/NCP_SS1_class13_RR_20.pdb
    12284 
    12285 Chain information for NCP_SS1_class13_RR_20.pdb #2 
    12286 --- 
    12287 Chain | Description 
    12288 A | No description available 
    12289 B F | No description available 
    12290 C | No description available 
    12291 D | No description available 
    12292 E | No description available 
    12293 G | No description available 
    12294 H | No description available 
    12295 R | No description available 
    12296 S | No description available 
    12297 X | No description available 
    12298 Y | No description available 
    12299  
    12300 51 atoms have alternate locations. Control/examine alternate locations with
    12301 Altloc Explorer [start tool...] or the altlocs command. 
    12302 
    12303 > hide sel atoms
    12304 
    12305 > select #2/A-H,R
    12306 
    12307 6101 atoms, 6181 bonds, 773 residues, 1 model selected 
    12308 
    12309 > hide sel atoms
    12310 
    12311 > show sel cartoons
    12312 
    12313 > hide sel cartoons
    12314 
    12315 > select #2/X,Y
    12316 
    12317 5289 atoms, 5932 bonds, 258 residues, 1 model selected 
    12318 
    12319 > show sel cartoons
    12320 
    12321 > hide sel atoms
    12322 
    12323 > select #2/R
    12324 
    12325 98 atoms, 100 bonds, 12 residues, 1 model selected 
    12326 
    12327 > show sel cartoons
    12328 
    12329 > hide sel atoms
    12330 
    12331 > hide sel cartoons
    12332 
    12333 > select #2/S
    12334 
    12335 158 atoms, 160 bonds, 20 residues, 1 model selected 
    12336 
    12337 > hide sel atoms
    12338 
    12339 > show sel cartoons
    12340 
    12341 > ui tool show Matchmaker
    12342 
    12343 > matchmaker #1 to #2
    12344 
    12345 Computing secondary structure 
    12346 Parameters 
    12347 --- 
    12348 Chain pairing | bb 
    12349 Alignment algorithm | Needleman-Wunsch 
    12350 Similarity matrix | BLOSUM-62 
    12351 SS fraction | 0.3 
    12352 Gap open (HH/SS/other) | 18/18/6 
    12353 Gap extend | 1 
    12354 SS matrix |  |  | H | S | O 
    12355 ---|---|---|--- 
    12356 H | 6 | -9 | -6 
    12357 S |  | 6 | -6 
    12358 O |  |  | 4 
    12359 Iteration cutoff | 2 
    12360  
    12361 Matchmaker NCP_SS1_class13_RR_20.pdb, chain X (#2) with pdb8hqy.ent, chain I
    12362 (#1), sequence alignment score = 675.3 
    12363 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12364 3.051) 
    12365  
    12366 
    12367 > select add #2
    12368 
    12369 11548 atoms, 12273 bonds, 1051 residues, 1 model selected 
    12370 
    12371 > select add #1
    12372 
    12373 23850 atoms, 25342 bonds, 2171 residues, 2 models selected 
    12374 
    12375 > select subtract #2
    12376 
    12377 12302 atoms, 13069 bonds, 1120 residues, 1 model selected 
    12378 
    12379 > view matrix models
    12380 > #1,-0.17106,-0.0040455,0.98525,23.615,0.80424,0.57709,0.142,-73.41,-0.56915,0.81667,-0.095464,110.53
    12381 
    12382 > view matrix models
    12383 > #1,-0.093423,-0.20966,0.9733,42.834,0.84626,-0.53172,-0.033312,98.05,0.52451,0.82056,0.22711,-87.041
    12384 
    12385 > ui mousemode right "move picked models"
    12386 
    12387 > ui mousemode right "translate selected atoms"
    12388 
    12389 > ui mousemode right "rotate selected models"
    12390 
    12391 > view matrix models
    12392 > #1,-0.12279,-0.018617,0.99226,16.101,0.80948,-0.58032,0.089281,93.108,0.57417,0.81417,0.086326,-73.232
    12393 
    12394 > ui mousemode right "translate selected atoms"
    12395 
    12396 > ui tool show Matchmaker
    12397 
    12398 > matchmaker #2 to #1
    12399 
    12400 Computing secondary structure 
    12401 Parameters 
    12402 --- 
    12403 Chain pairing | bb 
    12404 Alignment algorithm | Needleman-Wunsch 
    12405 Similarity matrix | BLOSUM-62 
    12406 SS fraction | 0.3 
    12407 Gap open (HH/SS/other) | 18/18/6 
    12408 Gap extend | 1 
    12409 SS matrix |  |  | H | S | O 
    12410 ---|---|---|--- 
    12411 H | 6 | -9 | -6 
    12412 S |  | 6 | -6 
    12413 O |  |  | 4 
    12414 Iteration cutoff | 2 
    12415  
    12416 Matchmaker pdb8hqy.ent, chain I (#1) with NCP_SS1_class13_RR_20.pdb, chain X
    12417 (#2), sequence alignment score = 675.3 
    12418 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12419 3.051) 
    12420  
    12421 
    12422 > matchmaker #2 to #1
    12423 
    12424 Computing secondary structure 
    12425 Parameters 
    12426 --- 
    12427 Chain pairing | bb 
    12428 Alignment algorithm | Needleman-Wunsch 
    12429 Similarity matrix | BLOSUM-62 
    12430 SS fraction | 0.3 
    12431 Gap open (HH/SS/other) | 18/18/6 
    12432 Gap extend | 1 
    12433 SS matrix |  |  | H | S | O 
    12434 ---|---|---|--- 
    12435 H | 6 | -9 | -6 
    12436 S |  | 6 | -6 
    12437 O |  |  | 4 
    12438 Iteration cutoff | 2 
    12439  
    12440 Matchmaker pdb8hqy.ent, chain I (#1) with NCP_SS1_class13_RR_20.pdb, chain X
    12441 (#2), sequence alignment score = 675.3 
    12442 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12443 3.051) 
    12444  
    12445 
    12446 > ui mousemode right "rotate selected models"
    12447 
    12448 > view matrix models
    12449 > #1,-0.55655,0.021801,0.83053,93.09,-0.50651,-0.8013,-0.31838,363.64,0.65856,-0.59786,0.45701,62.799
    12450 
    12451 > view matrix models
    12452 > #1,-0.093078,0.14267,0.98538,-9.8688,-0.88586,0.43992,-0.14737,216.27,-0.45452,-0.88663,0.085443,309.8
    12453 
    12454 > view matrix models
    12455 > #1,-0.22944,0.3127,0.92173,-6.1315,-0.76211,0.53134,-0.36996,217.57,-0.60544,-0.78734,0.1164,312.24
    12456 
    12457 > view matrix models
    12458 > #1,0.042469,0.3223,0.94568,-48.437,-0.83159,0.53603,-0.14534,194.88,-0.55376,-0.78025,0.29079,279.54
    12459 
    12460 > ui mousemode right "translate selected atoms"
    12461 
    12462 > ui mousemode right "rotate selected models"
    12463 
    12464 > view matrix models
    12465 > #1,0.049539,0.12995,0.99028,-28.518,-0.80221,0.59583,-0.038057,167.67,-0.59499,-0.79253,0.13376,308.54
    12466 
    12467 > view matrix models
    12468 > #1,0.040135,0.15781,0.98665,-30.641,-0.85113,0.52267,-0.048976,186.18,-0.52342,-0.8378,0.15529,302.1
    12469 
    12470 > ui mousemode right "translate selected atoms"
    12471 
    12472 > ui tool show Matchmaker
    12473 
    12474 > matchmaker #2 to #1 ssFraction 0.8196
    12475 
    12476 Computing secondary structure 
    12477 Parameters 
    12478 --- 
    12479 Chain pairing | bb 
    12480 Alignment algorithm | Needleman-Wunsch 
    12481 Similarity matrix | BLOSUM-62 
    12482 SS fraction | 0.8196 
    12483 Gap open (HH/SS/other) | 18/18/6 
    12484 Gap extend | 1 
    12485 SS matrix |  |  | H | S | O 
    12486 ---|---|---|--- 
    12487 H | 6 | -9 | -6 
    12488 S |  | 6 | -6 
    12489 O |  |  | 4 
    12490 Iteration cutoff | 2 
    12491  
    12492 Matchmaker pdb8hqy.ent, chain I (#1) with NCP_SS1_class13_RR_20.pdb, chain X
    12493 (#2), sequence alignment score = 530.332 
    12494 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12495 3.051) 
    12496  
    12497 
    12498 > ui tool show Matchmaker
    12499 
    12500 > matchmaker #2 to #1 ssFraction 0.0602
    12501 
    12502 Computing secondary structure 
    12503 Parameters 
    12504 --- 
    12505 Chain pairing | bb 
    12506 Alignment algorithm | Needleman-Wunsch 
    12507 Similarity matrix | BLOSUM-62 
    12508 SS fraction | 0.0602 
    12509 Gap open (HH/SS/other) | 18/18/6 
    12510 Gap extend | 1 
    12511 SS matrix |  |  | H | S | O 
    12512 ---|---|---|--- 
    12513 H | 6 | -9 | -6 
    12514 S |  | 6 | -6 
    12515 O |  |  | 4 
    12516 Iteration cutoff | 2 
    12517  
    12518 Matchmaker pdb8hqy.ent, chain I (#1) with NCP_SS1_class13_RR_20.pdb, chain X
    12519 (#2), sequence alignment score = 742.204 
    12520 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12521 3.051) 
    12522  
    12523 
    12524 > matchmaker #2 to #1 ssFraction 1.0
    12525 
    12526 Computing secondary structure 
    12527 Parameters 
    12528 --- 
    12529 Chain pairing | bb 
    12530 Alignment algorithm | Needleman-Wunsch 
    12531 Similarity matrix | BLOSUM-62 
    12532 SS fraction | 1 
    12533 Gap open (HH/SS/other) | 18/18/6 
    12534 Gap extend | 1 
    12535 SS matrix |  |  | H | S | O 
    12536 ---|---|---|--- 
    12537 H | 6 | -9 | -6 
    12538 S |  | 6 | -6 
    12539 O |  |  | 4 
    12540 Iteration cutoff | 2 
    12541  
    12542 Matchmaker pdb8hqy.ent, chain I (#1) with NCP_SS1_class13_RR_20.pdb, chain X
    12543 (#2), sequence alignment score = 516 
    12544 RMSD between 11 pruned atom pairs is 1.276 angstroms; (across all 129 pairs:
    12545 8.049) 
    12546  
    12547 
    12548 > matchmaker #2 to #1 alg Smith-Waterman ssFraction 0.2678
    12549 
    12550 Computing secondary structure 
    12551 Parameters 
    12552 --- 
    12553 Chain pairing | bb 
    12554 Alignment algorithm | Smith-Waterman 
    12555 Similarity matrix | BLOSUM-62 
    12556 SS fraction | 0.2678 
    12557 Gap open (HH/SS/other) | 18/18/6 
    12558 Gap extend | 1 
    12559 SS matrix |  |  | H | S | O 
    12560 ---|---|---|--- 
    12561 H | 6 | -9 | -6 
    12562 S |  | 6 | -6 
    12563 O |  |  | 4 
    12564 Iteration cutoff | 2 
    12565  
    12566 Matchmaker pdb8hqy.ent (#1) with NCP_SS1_class13_RR_20.pdb (#2), sequence
    12567 alignment score = 684.284 
    12568 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12569 3.051) 
    12570  
    12571 
    12572 > matchmaker #2 to #1 alg Smith-Waterman ssFraction 0.4208
    12573 
    12574 Computing secondary structure 
    12575 Parameters 
    12576 --- 
    12577 Chain pairing | bb 
    12578 Alignment algorithm | Smith-Waterman 
    12579 Similarity matrix | BLOSUM-62 
    12580 SS fraction | 0.4208 
    12581 Gap open (HH/SS/other) | 18/18/6 
    12582 Gap extend | 1 
    12583 SS matrix |  |  | H | S | O 
    12584 ---|---|---|--- 
    12585 H | 6 | -9 | -6 
    12586 S |  | 6 | -6 
    12587 O |  |  | 4 
    12588 Iteration cutoff | 2 
    12589  
    12590 Matchmaker pdb8hqy.ent (#1) with NCP_SS1_class13_RR_20.pdb (#2), sequence
    12591 alignment score = 641.597 
    12592 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12593 3.051) 
    12594  
    12595 
    12596 > matchmaker #2 to #1 alg Smith-Waterman ssFraction 0.2022
    12597 
    12598 Computing secondary structure 
    12599 Parameters 
    12600 --- 
    12601 Chain pairing | bb 
    12602 Alignment algorithm | Smith-Waterman 
    12603 Similarity matrix | BLOSUM-62 
    12604 SS fraction | 0.2022 
    12605 Gap open (HH/SS/other) | 18/18/6 
    12606 Gap extend | 1 
    12607 SS matrix |  |  | H | S | O 
    12608 ---|---|---|--- 
    12609 H | 6 | -9 | -6 
    12610 S |  | 6 | -6 
    12611 O |  |  | 4 
    12612 Iteration cutoff | 2 
    12613  
    12614 Matchmaker pdb8hqy.ent (#1) with NCP_SS1_class13_RR_20.pdb (#2), sequence
    12615 alignment score = 702.586 
    12616 RMSD between 110 pruned atom pairs is 0.685 angstroms; (across all 120 pairs:
    12617 3.051) 
    12618  
    12619 
    12620 > matchmaker #2 to #1 alg Smith-Waterman ssFraction 0.2022 cutoffDistance none
    12621 
    12622 Computing secondary structure 
    12623 Parameters 
    12624 --- 
    12625 Chain pairing | bb 
    12626 Alignment algorithm | Smith-Waterman 
    12627 Similarity matrix | BLOSUM-62 
    12628 SS fraction | 0.2022 
    12629 Gap open (HH/SS/other) | 18/18/6 
    12630 Gap extend | 1 
    12631 SS matrix |  |  | H | S | O 
    12632 ---|---|---|--- 
    12633 H | 6 | -9 | -6 
    12634 S |  | 6 | -6 
    12635 O |  |  | 4 
    12636 No iteration 
    12637  
    12638 Matchmaker pdb8hqy.ent (#1) with NCP_SS1_class13_RR_20.pdb (#2), sequence
    12639 alignment score = 702.586 
    12640 RMSD between 120 atom pairs is 2.935 angstroms 
    12641  
    12642 
    12643 > ui mousemode right "rotate selected models"
    12644 
    12645 > view matrix models
    12646 > #1,-0.20177,-0.0077381,0.9794,27.944,-0.49852,0.86156,-0.095892,94.482,-0.84307,-0.5076,-0.17769,344.08
    12647 
    12648 > view matrix models
    12649 > #1,0.73021,-0.36371,0.57837,9.9578,0.13742,-0.75104,-0.64579,323.93,0.66926,0.55104,-0.49844,26.123
    12650 
    12651 > view matrix models
    12652 > #1,0.34945,-0.047235,0.93576,-35.39,0.73671,-0.60323,-0.30556,171.99,0.57892,0.79617,-0.176,-43.421
    12653 
    12654 > ui mousemode right "translate selected atoms"
    12655 
    12656 > ui mousemode right "rotate selected models"
    12657 
    12658 > view matrix models
    12659 > #1,0.73132,0.18811,0.65558,-85.328,0.56484,-0.7058,-0.42756,228.67,0.38228,0.68298,-0.62241,63.731
    12660 
    12661 > view matrix models
    12662 > #1,-0.28573,0.041307,0.95742,34.743,0.82189,-0.5032,0.267,64.508,0.4928,0.86318,0.10983,-82.127
    12663 
    12664 > ui tool show Matchmaker
    12665 
    12666 > matchmaker #2 to #1 alg Smith-Waterman ssFraction 0.2022 cutoffDistance none
    12667 
    12668 Computing secondary structure 
    12669 Parameters 
    12670 --- 
    12671 Chain pairing | bb 
    12672 Alignment algorithm | Smith-Waterman 
    12673 Similarity matrix | BLOSUM-62 
    12674 SS fraction | 0.2022 
    12675 Gap open (HH/SS/other) | 18/18/6 
    12676 Gap extend | 1 
    12677 SS matrix |  |  | H | S | O 
    12678 ---|---|---|--- 
    12679 H | 6 | -9 | -6 
    12680 S |  | 6 | -6 
    12681 O |  |  | 4 
    12682 No iteration 
    12683  
    12684 Matchmaker pdb8hqy.ent (#1) with NCP_SS1_class13_RR_20.pdb (#2), sequence
    12685 alignment score = 702.586 
    12686 RMSD between 120 atom pairs is 2.935 angstroms 
    12687  
    12688 
    12689 > close #2
    12690 
    12691 > select clear
    12692 
    12693 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12694 > Nuc/NatComm/原稿/Figures/Materials/SSX1RD-NCPs/SSX1RD-NCP-
    12695 > class1p3/NCP_SS1_class13_RR_20_withoutRchain.pdb
    12696 
    12697 Chain information for NCP_SS1_class13_RR_20_withoutRchain.pdb #2 
    12698 --- 
    12699 Chain | Description 
    12700 A | No description available 
    12701 B F | No description available 
    12702 C | No description available 
    12703 D | No description available 
    12704 E | No description available 
    12705 G | No description available 
    12706 H | No description available 
    12707 S | No description available 
    12708 X | No description available 
    12709 Y | No description available 
    12710  
    12711 51 atoms have alternate locations. Control/examine alternate locations with
    12712 Altloc Explorer [start tool...] or the altlocs command. 
    12713 
    12714 > hide atoms
    12715 
    12716 > show cartoons
    12717 
    12718 > select #2/A-H
    12719 
    12720 6003 atoms, 6081 bonds, 761 residues, 1 model selected 
    12721 
    12722 > hide sel cartoons
    12723 
    12724 > select #1/A-H
    12725 
    12726 5953 atoms, 6031 bonds, 751 residues, 1 model selected 
    12727 
    12728 > hide sel cartoons
    12729 
    12730 > ui tool show Matchmaker
    12731 
    12732 > matchmaker #1 to #2 alg Smith-Waterman ssFraction 0.2022 cutoffDistance none
    12733 
    12734 Computing secondary structure 
    12735 Parameters 
    12736 --- 
    12737 Chain pairing | bb 
    12738 Alignment algorithm | Smith-Waterman 
    12739 Similarity matrix | BLOSUM-62 
    12740 SS fraction | 0.2022 
    12741 Gap open (HH/SS/other) | 18/18/6 
    12742 Gap extend | 1 
    12743 SS matrix |  |  | H | S | O 
    12744 ---|---|---|--- 
    12745 H | 6 | -9 | -6 
    12746 S |  | 6 | -6 
    12747 O |  |  | 4 
    12748 No iteration 
    12749  
    12750 Matchmaker NCP_SS1_class13_RR_20_withoutRchain.pdb (#2) with pdb8hqy.ent (#1),
    12751 sequence alignment score = 702.586 
    12752 RMSD between 120 atom pairs is 2.935 angstroms 
    12753  
    12754 
    12755 > ui tool show Matchmaker
    12756 
    12757 > select #1/X,Y,S#2/X,Y,S
    12758 
    12759 5627 atoms, 6277 bonds, 301 residues, 2 models selected 
    12760 
    12761 > ui tool show Matchmaker
    12762 
    12763 > matchmaker #1 & sel to #2 & sel alg Smith-Waterman ssFraction 0.2022
    12764 > cutoffDistance none
    12765 
    12766 Computing secondary structure 
    12767 Parameters 
    12768 --- 
    12769 Chain pairing | bb 
    12770 Alignment algorithm | Smith-Waterman 
    12771 Similarity matrix | BLOSUM-62 
    12772 SS fraction | 0.2022 
    12773 Gap open (HH/SS/other) | 18/18/6 
    12774 Gap extend | 1 
    12775 SS matrix |  |  | H | S | O 
    12776 ---|---|---|--- 
    12777 H | 6 | -9 | -6 
    12778 S |  | 6 | -6 
    12779 O |  |  | 4 
    12780 No iteration 
    12781  
    12782 Matchmaker NCP_SS1_class13_RR_20_withoutRchain.pdb (#2) with pdb8hqy.ent (#1),
    12783 sequence alignment score = 93.5406 
    12784 RMSD between 18 atom pairs is 1.078 angstroms 
    12785  
    12786 
    12787 > ui tool show Matchmaker
    12788 
    12789 > close session
    12790 
    12791 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12792 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HR1vsOurs/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    12793 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    12794 
    12795 opened ChimeraX session 
    12796 
    12797 > close session
    12798 
    12799 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12800 > Nuc/NatComm/原稿/Figures/Materials/SSX1RD-NCPs/SSX1RD-NCP-
    12801 > class1p3/NCP_SS1_class13_RR_20.pdb
    12802 
    12803 Chain information for NCP_SS1_class13_RR_20.pdb #1 
    12804 --- 
    12805 Chain | Description 
    12806 A | No description available 
    12807 B F | No description available 
    12808 C | No description available 
    12809 D | No description available 
    12810 E | No description available 
    12811 G | No description available 
    12812 H | No description available 
    12813 R | No description available 
    12814 S | No description available 
    12815 X | No description available 
    12816 Y | No description available 
    12817  
    12818 51 atoms have alternate locations. Control/examine alternate locations with
    12819 Altloc Explorer [start tool...] or the altlocs command. 
    12820 
    12821 > hide atoms
    12822 
    12823 > show cartoons
    12824 
    12825 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12826 > Nuc/NatComm/原稿/Figures/Materials/NSMB2024/SSX1-NCP_H2AK119Ub/1to1/8HQY/pdb8hqy.ent
    12827 
    12828 pdb8hqy.ent title: 
    12829 Cryo-em structure of SSX1 bound to the H2AK119UB nucleosome At A resolution of
    12830 3.05 angstrom [more info...] 
    12831  
    12832 Chain information for pdb8hqy.ent #2 
    12833 --- 
    12834 Chain | Description | UniProt 
    12835 A E | histone H3 |   
    12836 B | histone H4 (fragment) |   
    12837 C | histone H2A type 1-B/E | H2A1B_HUMAN 13-118 
    12838 D H | histone H2B type 1-K | H2B1K_HUMAN 34-124 
    12839 F | histone H4 |   
    12840 G | histone H2A type 1-B/E | H2A1B_HUMAN 13-118 
    12841 I | DNA (137-mer) |   
    12842 J | DNA (136-mer) |   
    12843 S | protein SSX2 | SSX2_HUMAN 162-184 
    12844 U | polyubiquitin-B (fragment) | J3QS39_HUMAN 1-74 
    12845  
    12846 
    12847 > hide atoms
    12848 
    12849 > show cartoons
    12850 
    12851 > select #1/X,Y,S#2/X,Y,S
    12852 
    12853 5627 atoms, 6277 bonds, 301 residues, 2 models selected 
    12854 
    12855 > ui tool show Matchmaker
    12856 
    12857 > matchmaker #2 & sel to #1 & sel alg Smith-Waterman ssFraction 0.2022
    12858 > cutoffDistance none
    12859 
    12860 Computing secondary structure 
    12861 Parameters 
    12862 --- 
    12863 Chain pairing | bb 
    12864 Alignment algorithm | Smith-Waterman 
    12865 Similarity matrix | BLOSUM-62 
    12866 SS fraction | 0.2022 
    12867 Gap open (HH/SS/other) | 18/18/6 
    12868 Gap extend | 1 
    12869 SS matrix |  |  | H | S | O 
    12870 ---|---|---|--- 
    12871 H | 6 | -9 | -6 
    12872 S |  | 6 | -6 
    12873 O |  |  | 4 
    12874 No iteration 
    12875  
    12876 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    12877 alignment score = 93.5406 
    12878 RMSD between 18 atom pairs is 1.078 angstroms 
    12879  
    12880 
    12881 > select #1/X,Y,S#2/X,Y,S
    12882 
    12883 5627 atoms, 6277 bonds, 301 residues, 2 models selected 
    12884 
    12885 > select ~sel & ##selected
    12886 
    12887 18223 atoms, 19065 bonds, 1870 residues, 2 models selected 
    12888 
    12889 > hide sel cartoons
    12890 
    12891 > hide #2 models
    12892 
    12893 > show #2 models
    12894 
    12895 > hide #1 models
    12896 
    12897 > show #1 models
    12898 
    12899 > select #1/X,Y
    12900 
    12901 5289 atoms, 5932 bonds, 258 residues, 1 model selected 
    12902 
    12903 > show sel cartoons
    12904 
    12905 > select #2/X,Y
    12906 
    12907 Nothing selected 
    12908 
    12909 > show cartoons
    12910 
    12911 > select #2/A-H
    12912 
    12913 5953 atoms, 6031 bonds, 751 residues, 1 model selected 
    12914 
    12915 > hide sel cartoons
    12916 
    12917 > select #1/A-H
    12918 
    12919 6003 atoms, 6081 bonds, 761 residues, 1 model selected 
    12920 
    12921 > hide sel cartoons
    12922 
    12923 > select #1/R
    12924 
    12925 98 atoms, 100 bonds, 12 residues, 1 model selected 
    12926 
    12927 > hide sel cartoons
    12928 
    12929 > ui tool show "Side View"
    12930 
    12931 > select #12/U
    12932 
    12933 Nothing selected 
    12934 
    12935 > select #2/U
    12936 
    12937 593 atoms, 599 bonds, 74 residues, 1 model selected 
    12938 
    12939 > hide sel cartoons
    12940 
    12941 > cd /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12942 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp
    12943 
    12944 Current working directory is:
    12945 /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12946 Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp 
    12947 
    12948 > cd /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12949 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp
    12950 
    12951 Current working directory is:
    12952 /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12953 Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp 
    12954 
    12955 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    12956 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    12957 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    12958 
    12959 > select #2/X,Y
    12960 
    12961 Nothing selected 
    12962 
    12963 > select #2/I,J
    12964 
    12965 5576 atoms, 6254 bonds, 272 residues, 1 model selected 
    12966 
    12967 > select #1/X,Y,S#2/I,J,S
    12968 
    12969 11203 atoms, 12531 bonds, 573 residues, 2 models selected 
    12970 
    12971 > ui tool show Matchmaker
    12972 
    12973 > matchmaker #2 & sel to #1 & sel alg Smith-Waterman ssFraction 0.2022
    12974 > cutoffDistance none
    12975 
    12976 Computing secondary structure 
    12977 Parameters 
    12978 --- 
    12979 Chain pairing | bb 
    12980 Alignment algorithm | Smith-Waterman 
    12981 Similarity matrix | BLOSUM-62 
    12982 SS fraction | 0.2022 
    12983 Gap open (HH/SS/other) | 18/18/6 
    12984 Gap extend | 1 
    12985 SS matrix |  |  | H | S | O 
    12986 ---|---|---|--- 
    12987 H | 6 | -9 | -6 
    12988 S |  | 6 | -6 
    12989 O |  |  | 4 
    12990 No iteration 
    12991  
    12992 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    12993 alignment score = 702.586 
    12994 RMSD between 120 atom pairs is 2.935 angstroms 
    12995  
    12996 
    12997 > hide sel cartoons
    12998 
    12999 > show sel cartoons
    13000 
    13001 > matchmaker #1 & sel to #2 & sel alg Smith-Waterman ssFraction 0.2022
    13002 > cutoffDistance none
    13003 
    13004 Computing secondary structure 
    13005 Parameters 
    13006 --- 
    13007 Chain pairing | bb 
    13008 Alignment algorithm | Smith-Waterman 
    13009 Similarity matrix | BLOSUM-62 
    13010 SS fraction | 0.2022 
    13011 Gap open (HH/SS/other) | 18/18/6 
    13012 Gap extend | 1 
    13013 SS matrix |  |  | H | S | O 
    13014 ---|---|---|--- 
    13015 H | 6 | -9 | -6 
    13016 S |  | 6 | -6 
    13017 O |  |  | 4 
    13018 No iteration 
    13019  
    13020 Matchmaker pdb8hqy.ent (#2) with NCP_SS1_class13_RR_20.pdb (#1), sequence
    13021 alignment score = 702.586 
    13022 RMSD between 120 atom pairs is 2.935 angstroms 
    13023  
    13024 
    13025 > matchmaker #2 & sel to #1/S & sel pairing bs alg Smith-Waterman ssFraction
    13026 > 0.2022 cutoffDistance none
    13027 
    13028 Computing secondary structure 
    13029 Parameters 
    13030 --- 
    13031 Chain pairing | bs 
    13032 Alignment algorithm | Smith-Waterman 
    13033 Similarity matrix | BLOSUM-62 
    13034 SS fraction | 0.2022 
    13035 Gap open (HH/SS/other) | 18/18/6 
    13036 Gap extend | 1 
    13037 SS matrix |  |  | H | S | O 
    13038 ---|---|---|--- 
    13039 H | 6 | -9 | -6 
    13040 S |  | 6 | -6 
    13041 O |  |  | 4 
    13042 No iteration 
    13043  
    13044 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13045 alignment score = 93.5406 
    13046 RMSD between 18 atom pairs is 1.078 angstroms 
    13047  
    13048 
    13049 > matchmaker #2 & sel to #1/S & sel pairing bs alg Smith-Waterman ssFraction
    13050 > 0.2022 cutoffDistance none
    13051 
    13052 Computing secondary structure 
    13053 Parameters 
    13054 --- 
    13055 Chain pairing | bs 
    13056 Alignment algorithm | Smith-Waterman 
    13057 Similarity matrix | BLOSUM-62 
    13058 SS fraction | 0.2022 
    13059 Gap open (HH/SS/other) | 18/18/6 
    13060 Gap extend | 1 
    13061 SS matrix |  |  | H | S | O 
    13062 ---|---|---|--- 
    13063 H | 6 | -9 | -6 
    13064 S |  | 6 | -6 
    13065 O |  |  | 4 
    13066 No iteration 
    13067  
    13068 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13069 alignment score = 93.5406 
    13070 RMSD between 18 atom pairs is 1.078 angstroms 
    13071  
    13072 
    13073 > matchmaker #2 & sel to #1 & sel alg Smith-Waterman ssFraction 0.2022
    13074 > cutoffDistance none
    13075 
    13076 Computing secondary structure 
    13077 Parameters 
    13078 --- 
    13079 Chain pairing | bb 
    13080 Alignment algorithm | Smith-Waterman 
    13081 Similarity matrix | BLOSUM-62 
    13082 SS fraction | 0.2022 
    13083 Gap open (HH/SS/other) | 18/18/6 
    13084 Gap extend | 1 
    13085 SS matrix |  |  | H | S | O 
    13086 ---|---|---|--- 
    13087 H | 6 | -9 | -6 
    13088 S |  | 6 | -6 
    13089 O |  |  | 4 
    13090 No iteration 
    13091  
    13092 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13093 alignment score = 702.586 
    13094 RMSD between 120 atom pairs is 2.935 angstroms 
    13095  
    13096 No reference and/or match structure/chain chosen 
    13097 
    13098 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13099 > Waterman ssFraction 0.2022 cutoffDistance none
    13100 
    13101 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13102 NCP_SS1_class13_RR_20.pdb #1/X 
    13103 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13104 NCP_SS1_class13_RR_20.pdb #1/Y 
    13105 Computing secondary structure 
    13106 Parameters 
    13107 --- 
    13108 Chain pairing | ss 
    13109 Alignment algorithm | Smith-Waterman 
    13110 Similarity matrix | Nucleic 
    13111 SS fraction | 0.2022 
    13112 Gap open (HH/SS/other) | 18/18/6 
    13113 Gap extend | 1 
    13114 SS matrix |  |  | H | S | O 
    13115 ---|---|---|--- 
    13116 H | 6 | -9 | -6 
    13117 S |  | 6 | -6 
    13118 O |  |  | 4 
    13119 No iteration 
    13120  
    13121 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13122 alignment score = 93.5406 
    13123 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13124 alignment score = 480 
    13125 RMSD between 258 atom pairs is 16.127 angstroms 
    13126  
    13127 
    13128 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13129 > Waterman ssFraction 0.2022 cutoffDistance none
    13130 
    13131 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13132 NCP_SS1_class13_RR_20.pdb #1/X 
    13133 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13134 NCP_SS1_class13_RR_20.pdb #1/Y 
    13135 Computing secondary structure 
    13136 Parameters 
    13137 --- 
    13138 Chain pairing | ss 
    13139 Alignment algorithm | Smith-Waterman 
    13140 Similarity matrix | Nucleic 
    13141 SS fraction | 0.2022 
    13142 Gap open (HH/SS/other) | 18/18/6 
    13143 Gap extend | 1 
    13144 SS matrix |  |  | H | S | O 
    13145 ---|---|---|--- 
    13146 H | 6 | -9 | -6 
    13147 S |  | 6 | -6 
    13148 O |  |  | 4 
    13149 No iteration 
    13150  
    13151 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13152 alignment score = 93.5406 
    13153 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13154 alignment score = 480 
    13155 RMSD between 258 atom pairs is 16.127 angstroms 
    13156  
    13157 
    13158 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13159 > Waterman ssFraction 0.2022 cutoffDistance none
    13160 
    13161 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13162 NCP_SS1_class13_RR_20.pdb #1/X 
    13163 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13164 NCP_SS1_class13_RR_20.pdb #1/Y 
    13165 Computing secondary structure 
    13166 Parameters 
    13167 --- 
    13168 Chain pairing | ss 
    13169 Alignment algorithm | Smith-Waterman 
    13170 Similarity matrix | Nucleic 
    13171 SS fraction | 0.2022 
    13172 Gap open (HH/SS/other) | 18/18/6 
    13173 Gap extend | 1 
    13174 SS matrix |  |  | H | S | O 
    13175 ---|---|---|--- 
    13176 H | 6 | -9 | -6 
    13177 S |  | 6 | -6 
    13178 O |  |  | 4 
    13179 No iteration 
    13180  
    13181 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13182 alignment score = 93.5406 
    13183 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13184 alignment score = 480 
    13185 RMSD between 258 atom pairs is 16.127 angstroms 
    13186  
    13187 
    13188 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13189 > Waterman ssFraction 0.2022 cutoffDistance none
    13190 
    13191 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13192 NCP_SS1_class13_RR_20.pdb #1/X 
    13193 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13194 NCP_SS1_class13_RR_20.pdb #1/Y 
    13195 Computing secondary structure 
    13196 Parameters 
    13197 --- 
    13198 Chain pairing | ss 
    13199 Alignment algorithm | Smith-Waterman 
    13200 Similarity matrix | Nucleic 
    13201 SS fraction | 0.2022 
    13202 Gap open (HH/SS/other) | 18/18/6 
    13203 Gap extend | 1 
    13204 SS matrix |  |  | H | S | O 
    13205 ---|---|---|--- 
    13206 H | 6 | -9 | -6 
    13207 S |  | 6 | -6 
    13208 O |  |  | 4 
    13209 No iteration 
    13210  
    13211 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13212 alignment score = 93.5406 
    13213 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13214 alignment score = 480 
    13215 RMSD between 258 atom pairs is 16.127 angstroms 
    13216  
    13217 
    13218 > matchmaker #2/S#2/I#2/J & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13219 > Waterman ssFraction 0.2022 cutoffDistance none
    13220 
    13221 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13222 NCP_SS1_class13_RR_20.pdb #1/X 
    13223 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13224 NCP_SS1_class13_RR_20.pdb #1/Y 
    13225 Computing secondary structure 
    13226 Parameters 
    13227 --- 
    13228 Chain pairing | ss 
    13229 Alignment algorithm | Smith-Waterman 
    13230 Similarity matrix | Nucleic 
    13231 SS fraction | 0.2022 
    13232 Gap open (HH/SS/other) | 18/18/6 
    13233 Gap extend | 1 
    13234 SS matrix |  |  | H | S | O 
    13235 ---|---|---|--- 
    13236 H | 6 | -9 | -6 
    13237 S |  | 6 | -6 
    13238 O |  |  | 4 
    13239 No iteration 
    13240  
    13241 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13242 alignment score = 93.5406 
    13243 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13244 alignment score = 480 
    13245 RMSD between 258 atom pairs is 16.127 angstroms 
    13246  
    13247 
    13248 > matchmaker #2/S#2/I#2/J & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13249 > Waterman ssFraction 0.2022 cutoffDistance none
    13250 
    13251 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13252 NCP_SS1_class13_RR_20.pdb #1/X 
    13253 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13254 NCP_SS1_class13_RR_20.pdb #1/Y 
    13255 Computing secondary structure 
    13256 Parameters 
    13257 --- 
    13258 Chain pairing | ss 
    13259 Alignment algorithm | Smith-Waterman 
    13260 Similarity matrix | Nucleic 
    13261 SS fraction | 0.2022 
    13262 Gap open (HH/SS/other) | 18/18/6 
    13263 Gap extend | 1 
    13264 SS matrix |  |  | H | S | O 
    13265 ---|---|---|--- 
    13266 H | 6 | -9 | -6 
    13267 S |  | 6 | -6 
    13268 O |  |  | 4 
    13269 No iteration 
    13270  
    13271 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13272 alignment score = 93.5406 
    13273 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13274 alignment score = 480 
    13275 RMSD between 258 atom pairs is 16.127 angstroms 
    13276  
    13277 
    13278 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13279 > Waterman ssFraction 0.2022 cutoffDistance none
    13280 
    13281 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13282 NCP_SS1_class13_RR_20.pdb #1/X 
    13283 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13284 NCP_SS1_class13_RR_20.pdb #1/Y 
    13285 Computing secondary structure 
    13286 Parameters 
    13287 --- 
    13288 Chain pairing | ss 
    13289 Alignment algorithm | Smith-Waterman 
    13290 Similarity matrix | Nucleic 
    13291 SS fraction | 0.2022 
    13292 Gap open (HH/SS/other) | 18/18/6 
    13293 Gap extend | 1 
    13294 SS matrix |  |  | H | S | O 
    13295 ---|---|---|--- 
    13296 H | 6 | -9 | -6 
    13297 S |  | 6 | -6 
    13298 O |  |  | 4 
    13299 No iteration 
    13300  
    13301 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13302 alignment score = 93.5406 
    13303 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13304 alignment score = 480 
    13305 RMSD between 258 atom pairs is 16.127 angstroms 
    13306  
    13307 
    13308 > matchmaker #2/S & sel to #1/S & sel pairing ss alg Smith-Waterman ssFraction
    13309 > 0.2022 cutoffDistance none
    13310 
    13311 Computing secondary structure 
    13312 Parameters 
    13313 --- 
    13314 Chain pairing | ss 
    13315 Alignment algorithm | Smith-Waterman 
    13316 Similarity matrix | BLOSUM-62 
    13317 SS fraction | 0.2022 
    13318 Gap open (HH/SS/other) | 18/18/6 
    13319 Gap extend | 1 
    13320 SS matrix |  |  | H | S | O 
    13321 ---|---|---|--- 
    13322 H | 6 | -9 | -6 
    13323 S |  | 6 | -6 
    13324 O |  |  | 4 
    13325 No iteration 
    13326  
    13327 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13328 alignment score = 93.5406 
    13329 RMSD between 18 atom pairs is 1.078 angstroms 
    13330  
    13331 
    13332 > matchmaker #2/S & sel to #1/S & sel pairing ss alg Smith-Waterman ssFraction
    13333 > 0.2022 cutoffDistance none
    13334 
    13335 Computing secondary structure 
    13336 Parameters 
    13337 --- 
    13338 Chain pairing | ss 
    13339 Alignment algorithm | Smith-Waterman 
    13340 Similarity matrix | BLOSUM-62 
    13341 SS fraction | 0.2022 
    13342 Gap open (HH/SS/other) | 18/18/6 
    13343 Gap extend | 1 
    13344 SS matrix |  |  | H | S | O 
    13345 ---|---|---|--- 
    13346 H | 6 | -9 | -6 
    13347 S |  | 6 | -6 
    13348 O |  |  | 4 
    13349 No iteration 
    13350  
    13351 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13352 alignment score = 93.5406 
    13353 RMSD between 18 atom pairs is 1.078 angstroms 
    13354  
    13355 
    13356 > matchmaker #2/S#2/J & sel to #1/S#1/X & sel pairing ss alg Smith-Waterman
    13357 > ssFraction 0.2022 cutoffDistance none
    13358 
    13359 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13360 NCP_SS1_class13_RR_20.pdb #1/X 
    13361 Computing secondary structure 
    13362 Parameters 
    13363 --- 
    13364 Chain pairing | ss 
    13365 Alignment algorithm | Smith-Waterman 
    13366 Similarity matrix | Nucleic 
    13367 SS fraction | 0.2022 
    13368 Gap open (HH/SS/other) | 18/18/6 
    13369 Gap extend | 1 
    13370 SS matrix |  |  | H | S | O 
    13371 ---|---|---|--- 
    13372 H | 6 | -9 | -6 
    13373 S |  | 6 | -6 
    13374 O |  |  | 4 
    13375 No iteration 
    13376  
    13377 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13378 alignment score = 93.5406 
    13379 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13380 alignment score = 137.185 
    13381 RMSD between 138 atom pairs is 12.229 angstroms 
    13382  
    13383 
    13384 > matchmaker #2/S#2/J & sel to #1/S#1/X & sel pairing ss alg Smith-Waterman
    13385 > ssFraction 0.2022 cutoffDistance none
    13386 
    13387 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13388 NCP_SS1_class13_RR_20.pdb #1/X 
    13389 Computing secondary structure 
    13390 Parameters 
    13391 --- 
    13392 Chain pairing | ss 
    13393 Alignment algorithm | Smith-Waterman 
    13394 Similarity matrix | Nucleic 
    13395 SS fraction | 0.2022 
    13396 Gap open (HH/SS/other) | 18/18/6 
    13397 Gap extend | 1 
    13398 SS matrix |  |  | H | S | O 
    13399 ---|---|---|--- 
    13400 H | 6 | -9 | -6 
    13401 S |  | 6 | -6 
    13402 O |  |  | 4 
    13403 No iteration 
    13404  
    13405 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13406 alignment score = 93.5406 
    13407 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13408 alignment score = 137.185 
    13409 RMSD between 138 atom pairs is 12.229 angstroms 
    13410  
    13411 
    13412 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13413 > Waterman ssFraction 0.2022 cutoffDistance none
    13414 
    13415 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13416 NCP_SS1_class13_RR_20.pdb #1/X 
    13417 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13418 NCP_SS1_class13_RR_20.pdb #1/Y 
    13419 Computing secondary structure 
    13420 Parameters 
    13421 --- 
    13422 Chain pairing | ss 
    13423 Alignment algorithm | Smith-Waterman 
    13424 Similarity matrix | Nucleic 
    13425 SS fraction | 0.2022 
    13426 Gap open (HH/SS/other) | 18/18/6 
    13427 Gap extend | 1 
    13428 SS matrix |  |  | H | S | O 
    13429 ---|---|---|--- 
    13430 H | 6 | -9 | -6 
    13431 S |  | 6 | -6 
    13432 O |  |  | 4 
    13433 No iteration 
    13434  
    13435 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13436 alignment score = 93.5406 
    13437 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13438 alignment score = 480 
    13439 RMSD between 258 atom pairs is 16.127 angstroms 
    13440  
    13441 
    13442 > matchmaker #2/S#2/J#2/I & sel to #1/S#1/X#1/Y & sel pairing ss alg Smith-
    13443 > Waterman ssFraction 0.2022 cutoffDistance none
    13444 
    13445 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13446 NCP_SS1_class13_RR_20.pdb #1/X 
    13447 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13448 NCP_SS1_class13_RR_20.pdb #1/Y 
    13449 Computing secondary structure 
    13450 Parameters 
    13451 --- 
    13452 Chain pairing | ss 
    13453 Alignment algorithm | Smith-Waterman 
    13454 Similarity matrix | Nucleic 
    13455 SS fraction | 0.2022 
    13456 Gap open (HH/SS/other) | 18/18/6 
    13457 Gap extend | 1 
    13458 SS matrix |  |  | H | S | O 
    13459 ---|---|---|--- 
    13460 H | 6 | -9 | -6 
    13461 S |  | 6 | -6 
    13462 O |  |  | 4 
    13463 No iteration 
    13464  
    13465 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13466 alignment score = 93.5406 
    13467 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13468 alignment score = 480 
    13469 RMSD between 258 atom pairs is 16.127 angstroms 
    13470  
    13471 
    13472 > matchmaker #2/S & sel to #1/S & sel pairing ss alg Smith-Waterman ssFraction
    13473 > 0.2022 cutoffDistance none
    13474 
    13475 Computing secondary structure 
    13476 Parameters 
    13477 --- 
    13478 Chain pairing | ss 
    13479 Alignment algorithm | Smith-Waterman 
    13480 Similarity matrix | BLOSUM-62 
    13481 SS fraction | 0.2022 
    13482 Gap open (HH/SS/other) | 18/18/6 
    13483 Gap extend | 1 
    13484 SS matrix |  |  | H | S | O 
    13485 ---|---|---|--- 
    13486 H | 6 | -9 | -6 
    13487 S |  | 6 | -6 
    13488 O |  |  | 4 
    13489 No iteration 
    13490  
    13491 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13492 alignment score = 93.5406 
    13493 RMSD between 18 atom pairs is 1.078 angstroms 
    13494  
    13495 
    13496 > show sel cartoons
    13497 
    13498 > select #1/A-H#2/A-H
    13499 
    13500 11956 atoms, 12112 bonds, 1512 residues, 2 models selected 
    13501 
    13502 > show sel cartoons
    13503 
    13504 > select C
    13505 
    13506 13336 atoms, 9709 bonds, 2168 residues, 2 models selected 
    13507 
    13508 > select ~sel & ##selected
    13509 
    13510 10514 atoms, 15633 bonds, 2171 residues, 2 models selected 
    13511 
    13512 > hide sel cartoons
    13513 
    13514 > select #1/C
    13515 
    13516 831 atoms, 841 bonds, 108 residues, 1 model selected 
    13517 
    13518 > show sel cartoons
    13519 
    13520 > select clear
    13521 
    13522 > select #1/C
    13523 
    13524 831 atoms, 841 bonds, 108 residues, 1 model selected 
    13525 
    13526 > color sel red
    13527 
    13528 > select clear
    13529 
    13530 > show cartoons
    13531 
    13532 > select #2/C
    13533 
    13534 825 atoms, 835 bonds, 107 residues, 1 model selected 
    13535 
    13536 > color sel orange red
    13537 
    13538 > matchmaker #2/I#2/S#2/J#2/D#2/C#2/B#2/A#2/H#2/G#2/F#2/E & sel to
    13539 > #1/Y#1/S#1/X#1/H#1/G#1/F#1/E#1/D#1/C#1/B#1/A & sel pairing ss alg Smith-
    13540 > Waterman ssFraction 0.2022 cutoffDistance none
    13541 
    13542 No 'to' chains specified 
    13543 
    13544 > select clear
    13545 
    13546 > matchmaker #2/I#2/S#2/J#2/D#2/C#2/B#2/A#2/H#2/G#2/F#2/E & sel to
    13547 > #1/Y#1/S#1/X#1/H#1/G#1/F#1/E#1/D#1/C#1/B#1/A & sel pairing ss alg Smith-
    13548 > Waterman ssFraction 0.2022 cutoffDistance none
    13549 
    13550 No 'to' chains specified 
    13551 
    13552 > matchmaker #2/I#2/S#2/J#2/D#2/C#2/B#2/A#2/H#2/G#2/F#2/E to
    13553 > #1/Y#1/S#1/X#1/H#1/G#1/F#1/E#1/D#1/C#1/B#1/A pairing ss alg Smith-Waterman
    13554 > ssFraction 0.2022 cutoffDistance none
    13555 
    13556 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13557 NCP_SS1_class13_RR_20.pdb #1/Y 
    13558 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13559 NCP_SS1_class13_RR_20.pdb #1/X 
    13560 Computing secondary structure 
    13561 Parameters 
    13562 --- 
    13563 Chain pairing | ss 
    13564 Alignment algorithm | Smith-Waterman 
    13565 Similarity matrix | Nucleic 
    13566 SS fraction | 0.2022 
    13567 Gap open (HH/SS/other) | 18/18/6 
    13568 Gap extend | 1 
    13569 SS matrix |  |  | H | S | O 
    13570 ---|---|---|--- 
    13571 H | 6 | -9 | -6 
    13572 S |  | 6 | -6 
    13573 O |  |  | 4 
    13574 No iteration 
    13575  
    13576 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13577 alignment score = 137.185 
    13578 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13579 alignment score = 93.5406 
    13580 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13581 alignment score = 137.185 
    13582 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13583 alignment score = 456.47 
    13584 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13585 alignment score = 505.453 
    13586 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13587 alignment score = 412.382 
    13588 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13589 alignment score = 467.978 
    13590 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13591 alignment score = 458.492 
    13592 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13593 alignment score = 515.508 
    13594 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13595 alignment score = 398.743 
    13596 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13597 alignment score = 463.29 
    13598 RMSD between 1006 atom pairs is 7.265 angstroms 
    13599  
    13600 
    13601 > matchmaker #2/J#2/S#2/I#2/D#2/C#2/B#2/A#2/H#2/G#2/F#2/E to
    13602 > #1/Y#1/S#1/X#1/H#1/G#1/F#1/E#1/D#1/C#1/B#1/A pairing ss alg Smith-Waterman
    13603 > ssFraction 0.2022 cutoffDistance none
    13604 
    13605 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13606 NCP_SS1_class13_RR_20.pdb #1/Y 
    13607 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13608 NCP_SS1_class13_RR_20.pdb #1/X 
    13609 Computing secondary structure 
    13610 Parameters 
    13611 --- 
    13612 Chain pairing | ss 
    13613 Alignment algorithm | Smith-Waterman 
    13614 Similarity matrix | Nucleic 
    13615 SS fraction | 0.2022 
    13616 Gap open (HH/SS/other) | 18/18/6 
    13617 Gap extend | 1 
    13618 SS matrix |  |  | H | S | O 
    13619 ---|---|---|--- 
    13620 H | 6 | -9 | -6 
    13621 S |  | 6 | -6 
    13622 O |  |  | 4 
    13623 No iteration 
    13624  
    13625 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13626 alignment score = 480 
    13627 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13628 alignment score = 93.5406 
    13629 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13630 alignment score = 480 
    13631 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13632 alignment score = 456.47 
    13633 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13634 alignment score = 505.453 
    13635 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13636 alignment score = 412.382 
    13637 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13638 alignment score = 467.978 
    13639 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13640 alignment score = 458.492 
    13641 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13642 alignment score = 515.508 
    13643 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13644 alignment score = 398.743 
    13645 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13646 alignment score = 463.29 
    13647 RMSD between 1006 atom pairs is 32.862 angstroms 
    13648  
    13649 
    13650 > ui tool show "Show Sequence Viewer"
    13651 
    13652 > sequence chain #2/I
    13653 
    13654 Alignment identifier is 2/I 
    13655 
    13656 > sequence chain #2/J
    13657 
    13658 Alignment identifier is 2/J 
    13659 
    13660 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    13661 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/SequenceComp/8HR1_chainI.fasta
    13662 > format fasta alignment 2/I
    13663 
    13664 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    13665 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/SequenceComp/8HR1_chainJ.fasta
    13666 > format fasta alignment 2/J
    13667 
    13668 > matchmaker #2/J#2/S#2/I#2/D#2/C#2/B#2/A#2/H#2/G#2/F#2/E to
    13669 > #1/Y#1/S#1/X#1/H#1/G#1/F#1/E#1/D#1/C#1/B#1/A pairing ss alg Smith-Waterman
    13670 > ssFraction 0.2022 cutoffDistance none
    13671 
    13672 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/J to
    13673 NCP_SS1_class13_RR_20.pdb #1/Y 
    13674 Using Nucleic matrix instead of BLOSUM-62 to match pdb8hqy.ent #2/I to
    13675 NCP_SS1_class13_RR_20.pdb #1/X 
    13676 Computing secondary structure 
    13677 Parameters 
    13678 --- 
    13679 Chain pairing | ss 
    13680 Alignment algorithm | Smith-Waterman 
    13681 Similarity matrix | Nucleic 
    13682 SS fraction | 0.2022 
    13683 Gap open (HH/SS/other) | 18/18/6 
    13684 Gap extend | 1 
    13685 SS matrix |  |  | H | S | O 
    13686 ---|---|---|--- 
    13687 H | 6 | -9 | -6 
    13688 S |  | 6 | -6 
    13689 O |  |  | 4 
    13690 No iteration 
    13691  
    13692 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13693 alignment score = 480 
    13694 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13695 alignment score = 93.5406 
    13696 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13697 alignment score = 480 
    13698 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13699 alignment score = 456.47 
    13700 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13701 alignment score = 505.453 
    13702 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13703 alignment score = 412.382 
    13704 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13705 alignment score = 467.978 
    13706 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13707 alignment score = 458.492 
    13708 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13709 alignment score = 515.508 
    13710 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13711 alignment score = 398.743 
    13712 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13713 alignment score = 463.29 
    13714 RMSD between 1006 atom pairs is 32.862 angstroms 
    13715  
    13716 
    13717 > select #1/A-H#2/A-H
    13718 
    13719 11956 atoms, 12112 bonds, 1512 residues, 2 models selected 
    13720 
    13721 > hide sel cartoons
    13722 
    13723 > select #1/R
    13724 
    13725 98 atoms, 100 bonds, 12 residues, 1 model selected 
    13726 
    13727 > hide sel cartoons
    13728 
    13729 > select #2/U
    13730 
    13731 593 atoms, 599 bonds, 74 residues, 1 model selected 
    13732 
    13733 > hide sel cartoons
    13734 
    13735 > cd /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    13736 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS
    13737 
    13738 Current working directory is:
    13739 /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    13740 Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS 
    13741 
    13742 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    13743 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    13744 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    13745 
    13746 > select #2/I,J
    13747 
    13748 5576 atoms, 6254 bonds, 272 residues, 1 model selected 
    13749 
    13750 > color sel #7a81ffff
    13751 
    13752 > select #1/X,Y
    13753 
    13754 5289 atoms, 5932 bonds, 258 residues, 1 model selected 
    13755 
    13756 > color sel #ff9300ff
    13757 
    13758 > select #1/X,Y,S
    13759 
    13760 5447 atoms, 6092 bonds, 278 residues, 1 model selected 
    13761 
    13762 > color sel #ff9300ff
    13763 
    13764 > select #2/S
    13765 
    13766 180 atoms, 185 bonds, 23 residues, 1 model selected 
    13767 
    13768 > color sel #7a81ffff
    13769 
    13770 > cartoon style width 3 thickness 1
    13771 
    13772 > matchmaker #2/D#2/E#2/F#2/G#2/H#2/A#2/B#2/C to
    13773 > #1/H#1/A#1/B#1/C#1/D#1/E#1/F#1/G pairing ss alg Smith-Waterman ssFraction
    13774 > 0.2022 cutoffDistance none
    13775 
    13776 Computing secondary structure 
    13777 Parameters 
    13778 --- 
    13779 Chain pairing | ss 
    13780 Alignment algorithm | Smith-Waterman 
    13781 Similarity matrix | BLOSUM-62 
    13782 SS fraction | 0.2022 
    13783 Gap open (HH/SS/other) | 18/18/6 
    13784 Gap extend | 1 
    13785 SS matrix |  |  | H | S | O 
    13786 ---|---|---|--- 
    13787 H | 6 | -9 | -6 
    13788 S |  | 6 | -6 
    13789 O |  |  | 4 
    13790 No iteration 
    13791  
    13792 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13793 alignment score = 456.47 
    13794 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13795 alignment score = 463.29 
    13796 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13797 alignment score = 398.743 
    13798 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13799 alignment score = 515.508 
    13800 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13801 alignment score = 458.492 
    13802 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13803 alignment score = 467.978 
    13804 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13805 alignment score = 412.382 
    13806 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13807 alignment score = 505.453 
    13808 RMSD between 748 atom pairs is 0.444 angstroms 
    13809  
    13810 
    13811 > matchmaker #2/D#2/E#2/F#2/G#2/H#2/A#2/B#2/C#2/S to
    13812 > #1/H#1/A#1/B#1/C#1/D#1/E#1/F#1/G#1/S pairing ss alg Smith-Waterman
    13813 > ssFraction 0.2022 cutoffDistance none
    13814 
    13815 Computing secondary structure 
    13816 Parameters 
    13817 --- 
    13818 Chain pairing | ss 
    13819 Alignment algorithm | Smith-Waterman 
    13820 Similarity matrix | BLOSUM-62 
    13821 SS fraction | 0.2022 
    13822 Gap open (HH/SS/other) | 18/18/6 
    13823 Gap extend | 1 
    13824 SS matrix |  |  | H | S | O 
    13825 ---|---|---|--- 
    13826 H | 6 | -9 | -6 
    13827 S |  | 6 | -6 
    13828 O |  |  | 4 
    13829 No iteration 
    13830  
    13831 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13832 alignment score = 456.47 
    13833 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13834 alignment score = 463.29 
    13835 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13836 alignment score = 398.743 
    13837 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13838 alignment score = 515.508 
    13839 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13840 alignment score = 458.492 
    13841 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13842 alignment score = 467.978 
    13843 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13844 alignment score = 412.382 
    13845 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13846 alignment score = 505.453 
    13847 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13848 alignment score = 93.5406 
    13849 RMSD between 766 atom pairs is 0.471 angstroms 
    13850  
    13851 
    13852 > matchmaker #2/D#2/E#2/F#2/G#2/H#2/A#2/B#2/C#2/S to
    13853 > #1/H#1/A#1/B#1/C#1/D#1/E#1/F#1/G#1/S pairing ss alg Smith-Waterman
    13854 > ssFraction 0.2022 cutoffDistance none
    13855 
    13856 Computing secondary structure 
    13857 Parameters 
    13858 --- 
    13859 Chain pairing | ss 
    13860 Alignment algorithm | Smith-Waterman 
    13861 Similarity matrix | BLOSUM-62 
    13862 SS fraction | 0.2022 
    13863 Gap open (HH/SS/other) | 18/18/6 
    13864 Gap extend | 1 
    13865 SS matrix |  |  | H | S | O 
    13866 ---|---|---|--- 
    13867 H | 6 | -9 | -6 
    13868 S |  | 6 | -6 
    13869 O |  |  | 4 
    13870 No iteration 
    13871  
    13872 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13873 alignment score = 456.47 
    13874 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13875 alignment score = 463.29 
    13876 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13877 alignment score = 398.743 
    13878 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13879 alignment score = 515.508 
    13880 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13881 alignment score = 458.492 
    13882 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13883 alignment score = 467.978 
    13884 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13885 alignment score = 412.382 
    13886 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13887 alignment score = 505.453 
    13888 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13889 alignment score = 93.5406 
    13890 RMSD between 766 atom pairs is 0.471 angstroms 
    13891  
    13892 
    13893 > matchmaker #2/D#2/E#2/F#2/G#2/H#2/A#2/B#2/C#2/S to
    13894 > #1/H#1/A#1/B#1/C#1/D#1/E#1/F#1/G#1/S pairing ss alg Smith-Waterman
    13895 > ssFraction 0.2022 cutoffDistance none
    13896 
    13897 Computing secondary structure 
    13898 Parameters 
    13899 --- 
    13900 Chain pairing | ss 
    13901 Alignment algorithm | Smith-Waterman 
    13902 Similarity matrix | BLOSUM-62 
    13903 SS fraction | 0.2022 
    13904 Gap open (HH/SS/other) | 18/18/6 
    13905 Gap extend | 1 
    13906 SS matrix |  |  | H | S | O 
    13907 ---|---|---|--- 
    13908 H | 6 | -9 | -6 
    13909 S |  | 6 | -6 
    13910 O |  |  | 4 
    13911 No iteration 
    13912  
    13913 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13914 alignment score = 456.47 
    13915 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13916 alignment score = 463.29 
    13917 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13918 alignment score = 398.743 
    13919 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13920 alignment score = 515.508 
    13921 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13922 alignment score = 458.492 
    13923 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13924 alignment score = 467.978 
    13925 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13926 alignment score = 412.382 
    13927 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13928 alignment score = 505.453 
    13929 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with pdb8hqy.ent (#2), sequence
    13930 alignment score = 93.5406 
    13931 RMSD between 766 atom pairs is 0.471 angstroms 
    13932  
    13933 
    13934 > select clear
    13935 
    13936 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    13937 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    13938 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    13939 
    13940 > select #2/I:18
    13941 
    13942 19 atoms, 20 bonds, 1 residue, 1 model selected 
    13943 
    13944 > select #2/I:18-137
    13945 
    13946 2445 atoms, 2739 bonds, 120 residues, 1 model selected 
    13947 
    13948 > color sel #7a81ffff
    13949 
    13950 > color sel #7a81fffa
    13951 
    13952 > color sel #7a81fff7
    13953 
    13954 > color sel #7a81ffdc
    13955 
    13956 > color sel #7a81ffdb
    13957 
    13958 > color sel #7a81ffd4
    13959 
    13960 > color sel #7a81ffd3
    13961 
    13962 > color sel #7a81ffcc
    13963 
    13964 > color sel #7a81ffc9
    13965 
    13966 > color sel #7a81ffc6
    13967 
    13968 > color sel #7a81ffc4
    13969 
    13970 > color sel #7a81ffbe
    13971 
    13972 > color sel #7a81ffbc
    13973 
    13974 > color sel #7a81ffba
    13975 
    13976 > color sel #7a81ffb6
    13977 
    13978 > color sel #7a81ffb5
    13979 
    13980 > color sel #7a81ffb4
    13981 
    13982 > color sel #7a81ffab
    13983 
    13984 > color sel #7a81ffa7
    13985 
    13986 > color sel #7a81ffa5
    13987 
    13988 > color sel #7a81ffa2
    13989 
    13990 > color sel #7a81ffa1
    13991 
    13992 > color sel #7a81ffa0
    13993 
    13994 > color sel #7a81ff9f
    13995 
    13996 > color sel #7a81ff9c
    13997 
    13998 > color sel #7a81ff80
    13999 
    14000 > color sel #7a81ff78
    14001 
    14002 > color sel #7a81ff76
    14003 
    14004 > color sel #7a81ff6e
    14005 
    14006 > color sel #7a81ff67
    14007 
    14008 > color sel #7a81ff48
    14009 
    14010 > color sel #7a81ff43
    14011 
    14012 > color sel #7a81ff3e
    14013 
    14014 > color sel #7a81ff3a
    14015 
    14016 > color sel #7a81ff36
    14017 
    14018 > color sel #7a81ff31
    14019 
    14020 > color sel #7a81ff2e
    14021 
    14022 > color sel #7a81ff2b
    14023 
    14024 > color sel #7a81ff29
    14025 
    14026 > color sel #7a81ff22
    14027 
    14028 > color sel #7a81ff1e
    14029 
    14030 > color sel #7a81ff13
    14031 
    14032 > color sel #7a81ff12
    14033 
    14034 > color sel #7a81ff10
    14035 
    14036 > color sel #7a81ff0f
    14037 
    14038 > color sel #7a81ff0e
    14039 
    14040 > color sel #7a81ff0d
    14041 
    14042 > color sel #7a81ff0c
    14043 
    14044 > color sel #7a81ff0b
    14045 
    14046 > color sel #7a81ff0d
    14047 
    14048 > color sel #7a81ff0e
    14049 
    14050 > color sel #7a81ff0f
    14051 
    14052 > color sel #7a81ff0d
    14053 
    14054 > select #2/I:17-18
    14055 
    14056 38 atoms, 41 bonds, 2 residues, 1 model selected 
    14057 
    14058 > select #2/I:13-18
    14059 
    14060 124 atoms, 138 bonds, 6 residues, 1 model selected 
    14061 
    14062 > select #2/I:2
    14063 
    14064 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14065 
    14066 > select #2/I:2-17
    14067 
    14068 330 atoms, 370 bonds, 16 residues, 1 model selected 
    14069 
    14070 > color sel #7a81ffff
    14071 
    14072 > ui tool show "Show Sequence Viewer"
    14073 
    14074 > sequence chain #1/X
    14075 
    14076 Alignment identifier is 1/X 
    14077 
    14078 > sequence chain #1/Y
    14079 
    14080 Alignment identifier is 1/Y 
    14081 
    14082 > select #1/X:16
    14083 
    14084 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14085 
    14086 > select #1/X:16-135
    14087 
    14088 2445 atoms, 2739 bonds, 120 residues, 1 model selected 
    14089 
    14090 > color sel #ff9300ff
    14091 
    14092 > color sel #ff9300fd
    14093 
    14094 > color sel #ff9300da
    14095 
    14096 > color sel #ff9300a7
    14097 
    14098 > color sel #ff93009f
    14099 
    14100 > color sel #ff93009c
    14101 
    14102 > color sel #ff930099
    14103 
    14104 > color sel #ff93008f
    14105 
    14106 > color sel #ff930082
    14107 
    14108 > color sel #ff930072
    14109 
    14110 > color sel #ff930067
    14111 
    14112 > color sel #ff930063
    14113 
    14114 > color sel #ff930062
    14115 
    14116 > color sel #ff930061
    14117 
    14118 > color sel #ff93005d
    14119 
    14120 > color sel #ff93005a
    14121 
    14122 > color sel #ff930053
    14123 
    14124 > color sel #ff930052
    14125 
    14126 > color sel #ff930050
    14127 
    14128 > color sel #ff93004e
    14129 
    14130 > color sel #ff93004b
    14131 
    14132 > color sel #ff930048
    14133 
    14134 > color sel #ff930046
    14135 
    14136 > color sel #ff930043
    14137 
    14138 > color sel #ff930042
    14139 
    14140 > color sel #ff930041
    14141 
    14142 > color sel #ff930040
    14143 
    14144 > color sel #ff93003f
    14145 
    14146 > color sel #ff93003d
    14147 
    14148 > color sel #ff93003c
    14149 
    14150 > color sel #ff93003b
    14151 
    14152 > color sel #ff930039
    14153 
    14154 > color sel #ff930038
    14155 
    14156 > color sel #ff930037
    14157 
    14158 > color sel #ff930036
    14159 
    14160 > color sel #ff930034
    14161 
    14162 > color sel #ff930030
    14163 
    14164 > color sel #ff93002f
    14165 
    14166 > color sel #ff93002d
    14167 
    14168 > color sel #ff93002c
    14169 
    14170 > color sel #ff93002b
    14171 
    14172 > color sel #ff93002a
    14173 
    14174 > color sel #ff930028
    14175 
    14176 > color sel #ff930027
    14177 
    14178 > color sel #ff930026
    14179 
    14180 > color sel #ff930025
    14181 
    14182 > color sel #ff930024
    14183 
    14184 > color sel #ff930023
    14185 
    14186 > color sel #ff930022
    14187 
    14188 > color sel #ff930021
    14189 
    14190 > color sel #ff930020
    14191 
    14192 > color sel #ff93001f
    14193 
    14194 > color sel #ff93001e
    14195 
    14196 > color sel #ff93001d
    14197 
    14198 > color sel #ff93001c
    14199 
    14200 > color sel #ff93001b
    14201 
    14202 > color sel #ff93001a
    14203 
    14204 > color sel #ff930019
    14205 
    14206 > color sel #ff930018
    14207 
    14208 > color sel #ff930017
    14209 
    14210 > color sel #ff930016
    14211 
    14212 > color sel #ff930015
    14213 
    14214 > color sel #ff930014
    14215 
    14216 > color sel #ff930013
    14217 
    14218 > color sel #ff930012
    14219 
    14220 > color sel #ff930011
    14221 
    14222 > color sel #ff930010
    14223 
    14224 > color sel #ff93000f
    14225 
    14226 > color sel #ff93000e
    14227 
    14228 > color sel #ff93000d
    14229 
    14230 > select #1/X:136
    14231 
    14232 20 atoms, 21 bonds, 1 residue, 1 model selected 
    14233 
    14234 > select #1/X:136-144
    14235 
    14236 183 atoms, 204 bonds, 9 residues, 1 model selected 
    14237 
    14238 > color sel #ff9300ff
    14239 
    14240 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    14241 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    14242 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    14243 
    14244 > close session
    14245 
    14246 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    14247 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HR1vsOurs/SSX1comp/CXS/Comp_8HR1_vs_SSX1RD-
    14248 > NCP-class4_ShowDNAandSSX_Schain_RIBBON.cxs
    14249 
    14250 opened ChimeraX session 
    14251 
    14252 > ui tool show "Show Sequence Viewer"
    14253 
    14254 > sequence chain #3/Y
    14255 
    14256 Alignment identifier is 3/Y 
    14257 
    14258 > sequence chain #3/X
    14259 
    14260 Alignment identifier is 3/X 
    14261 
    14262 > select #3/Y:142
    14263 
    14264 20 atoms, 21 bonds, 1 residue, 1 model selected 
    14265 
    14266 > select #3/Y:120-142
    14267 
    14268 471 atoms, 527 bonds, 23 residues, 1 model selected 
    14269 
    14270 > select #3/Y:4-142
    14271 
    14272 2867 atoms, 3219 bonds, 139 residues, 1 model selected 
    14273 
    14274 > select #2/J:-69--68
    14275 
    14276 43 atoms, 48 bonds, 2 residues, 1 model selected 
    14277 
    14278 > select #2/J:-69-69
    14279 
    14280 2832 atoms, 3173 bonds, 139 residues, 1 model selected 
    14281 
    14282 > select #3/X:141
    14283 
    14284 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14285 
    14286 > select #3/X:3-141
    14287 
    14288 2832 atoms, 3173 bonds, 139 residues, 1 model selected 
    14289 
    14290 > ui tool show "Show Sequence Viewer"
    14291 
    14292 > sequence chain #1/X
    14293 
    14294 Alignment identifier is 1/X 
    14295 
    14296 > sequence chain #1/Y
    14297 
    14298 Alignment identifier is 1/Y 
    14299 
    14300 > select #2/J:-56
    14301 
    14302 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14303 
    14304 > select #2/J:-56-69
    14305 
    14306 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    14307 
    14308 > select #1/X:16
    14309 
    14310 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14311 
    14312 > select #1/X:16-141
    14313 
    14314 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    14315 
    14316 > select #2/I:56-57
    14317 
    14318 44 atoms, 49 bonds, 2 residues, 1 model selected 
    14319 
    14320 > select #2/I:50-57
    14321 
    14322 165 atoms, 184 bonds, 8 residues, 1 model selected 
    14323 
    14324 > select #2/I:56
    14325 
    14326 22 atoms, 24 bonds, 1 residue, 1 model selected 
    14327 
    14328 > select #2/I:-69-56
    14329 
    14330 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    14331 
    14332 > select #1/Y:4-5
    14333 
    14334 43 atoms, 48 bonds, 2 residues, 1 model selected 
    14335 
    14336 > select #1/Y:4-129
    14337 
    14338 2601 atoms, 2921 bonds, 126 residues, 1 model selected 
    14339 
    14340 > ui tool show "Show Sequence Viewer"
    14341 
    14342 > sequence chain #4/X
    14343 
    14344 Alignment identifier is 4/X 
    14345 
    14346 > sequence chain #4/Y
    14347 
    14348 Alignment identifier is 4/Y 
    14349 
    14350 > select #2/I:59
    14351 
    14352 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14353 
    14354 > select #2/I:-69-59
    14355 
    14356 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    14357 
    14358 > select #4/Y:4
    14359 
    14360 22 atoms, 24 bonds, 1 residue, 1 model selected 
    14361 
    14362 > select #4/Y:4-131
    14363 
    14364 2642 atoms, 2967 bonds, 128 residues, 1 model selected 
    14365 
    14366 > select #4/Y:132
    14367 
    14368 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14369 
    14370 > select #4/Y:4-132
    14371 
    14372 2663 atoms, 2991 bonds, 129 residues, 1 model selected 
    14373 
    14374 > select #4/X:16
    14375 
    14376 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14377 
    14378 > select #4/X:16-141
    14379 
    14380 2565 atoms, 2873 bonds, 126 residues, 1 model selected 
    14381 
    14382 > ui tool show "Show Sequence Viewer"
    14383 
    14384 > sequence chain #5/X
    14385 
    14386 Alignment identifier is 5/X 
    14387 
    14388 > sequence chain #5/Y
    14389 
    14390 Alignment identifier is 5/Y 
    14391 
    14392 > select #2/I:-61
    14393 
    14394 20 atoms, 21 bonds, 1 residue, 1 model selected 
    14395 
    14396 > select #2/I:-61-50
    14397 
    14398 2313 atoms, 2598 bonds, 112 residues, 1 model selected 
    14399 
    14400 > select #2/J:-50
    14401 
    14402 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14403 
    14404 > select #2/J:-50-65
    14405 
    14406 2361 atoms, 2644 bonds, 116 residues, 1 model selected 
    14407 
    14408 > select #2/J:62
    14409 
    14410 20 atoms, 21 bonds, 1 residue, 1 model selected 
    14411 
    14412 > select #2/J:-50-62
    14413 
    14414 2299 atoms, 2574 bonds, 113 residues, 1 model selected 
    14415 
    14416 > select #2/J:61-62
    14417 
    14418 41 atoms, 45 bonds, 2 residues, 1 model selected 
    14419 
    14420 > select #2/J:-50-62
    14421 
    14422 2299 atoms, 2574 bonds, 113 residues, 1 model selected 
    14423 
    14424 > select #2/J:61
    14425 
    14426 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14427 
    14428 > select #2/J:-50-61
    14429 
    14430 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    14431 
    14432 > select #5/X:22
    14433 
    14434 19 atoms, 20 bonds, 1 residue, 1 model selected 
    14435 
    14436 > select #5/X
    14437 
    14438 2279 atoms, 2552 bonds, 112 residues, 1 model selected 
    14439 
    14440 > close session
    14441 
    14442 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    14443 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    14444 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    14445 
    14446 opened ChimeraX session 
    14447 
    14448 > select #2/I:137
    14449 
    14450 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14451 
    14452 > select #2/I:18-137
    14453 
    14454 2445 atoms, 2739 bonds, 120 residues, 1 model selected 
    14455 
    14456 > select #1/X:136
    14457 
    14458 20 atoms, 21 bonds, 1 residue, 1 model selected 
    14459 
    14460 > select #1/X:136-144
    14461 
    14462 183 atoms, 204 bonds, 9 residues, 1 model selected 
    14463 
    14464 > color sel #ff9300ff
    14465 
    14466 > select #1/X:135
    14467 
    14468 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14469 
    14470 > select #1/X:16-135
    14471 
    14472 2445 atoms, 2739 bonds, 120 residues, 1 model selected 
    14473 
    14474 > color sel #ff9300ff
    14475 
    14476 > color sel #ff9300fd
    14477 
    14478 > color sel #ff9300f5
    14479 
    14480 > color sel #ff9300ea
    14481 
    14482 > color sel #ff9300d1
    14483 
    14484 > color sel #ff9300a9
    14485 
    14486 > color sel #ff93009f
    14487 
    14488 > color sel #ff930099
    14489 
    14490 > color sel #ff930097
    14491 
    14492 > color sel #ff93008d
    14493 
    14494 > color sel #ff930080
    14495 
    14496 > color sel #ff93006e
    14497 
    14498 > color sel #ff930064
    14499 
    14500 > color sel #ff930050
    14501 
    14502 > color sel #ff93004d
    14503 
    14504 > color sel #ff93004b
    14505 
    14506 > color sel #ff930048
    14507 
    14508 > color sel #ff930044
    14509 
    14510 > color sel #ff930043
    14511 
    14512 > color sel #ff930042
    14513 
    14514 > color sel #ff930039
    14515 
    14516 > color sel #ff93002f
    14517 
    14518 > color sel #ff930028
    14519 
    14520 > color sel #ff930029
    14521 
    14522 > color sel #ff93002a
    14523 
    14524 > color sel #ff93002b
    14525 
    14526 > color sel #ff93002c
    14527 
    14528 > color sel #ff93002d
    14529 
    14530 > color sel #ff93002c
    14531 
    14532 > color sel #ff93002b
    14533 
    14534 > color sel #ff930028
    14535 
    14536 > color sel #ff930027
    14537 
    14538 > color sel #ff930025
    14539 
    14540 > color sel #ff930024
    14541 
    14542 > color sel #ff930023
    14543 
    14544 > color sel #ff930021
    14545 
    14546 > color sel #ff930020
    14547 
    14548 > color sel #ff93001f
    14549 
    14550 > color sel #ff93001e
    14551 
    14552 > color sel #ff93001c
    14553 
    14554 > color sel #ff93001b
    14555 
    14556 > color sel #ff930014
    14557 
    14558 > color sel #ff930011
    14559 
    14560 > color sel #ff930010
    14561 
    14562 > color sel #ff93000f
    14563 
    14564 > color sel #ff93000e
    14565 
    14566 > color sel #ff93000d
    14567 
    14568 > color sel #ff93000c
    14569 
    14570 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    14571 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    14572 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    14573 
    14574 > select #2/J:84
    14575 
    14576 22 atoms, 24 bonds, 1 residue, 1 model selected 
    14577 
    14578 > select #2/J:78-84
    14579 
    14580 146 atoms, 163 bonds, 7 residues, 1 model selected 
    14581 
    14582 > select #1/Y:66-67
    14583 
    14584 44 atoms, 49 bonds, 2 residues, 1 model selected 
    14585 
    14586 > select #1/Y:66-76
    14587 
    14588 231 atoms, 260 bonds, 11 residues, 1 model selected 
    14589 
    14590 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    14591 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/SequenceComp/SSX1RD-
    14592 > NCP-class1p3_chainY.fasta format fasta alignment 1/Y
    14593 
    14594 > select #1/Y:129
    14595 
    14596 22 atoms, 24 bonds, 1 residue, 1 model selected 
    14597 
    14598 > select #1/Y:10-129
    14599 
    14600 2475 atoms, 2779 bonds, 120 residues, 1 model selected 
    14601 
    14602 > color sel #ff9300ff
    14603 
    14604 > color sel #ff9300f5
    14605 
    14606 > color sel #ff9300de
    14607 
    14608 > color sel #ff930083
    14609 
    14610 > color sel #ff930079
    14611 
    14612 > color sel #ff930076
    14613 
    14614 > color sel #ff930073
    14615 
    14616 > color sel #ff930072
    14617 
    14618 > color sel #ff930071
    14619 
    14620 > color sel #ff93006e
    14621 
    14622 > color sel #ff93006b
    14623 
    14624 > color sel #ff930069
    14625 
    14626 > color sel #ff930065
    14627 
    14628 > color sel #ff930062
    14629 
    14630 > color sel #ff93005f
    14631 
    14632 > color sel #ff93005b
    14633 
    14634 > color sel #ff93005a
    14635 
    14636 > color sel #ff930058
    14637 
    14638 > color sel #ff930055
    14639 
    14640 > color sel #ff930052
    14641 
    14642 > color sel #ff93004c
    14643 
    14644 > color sel #ff930049
    14645 
    14646 > color sel #ff930044
    14647 
    14648 > color sel #ff93003f
    14649 
    14650 > color sel #ff93003e
    14651 
    14652 > color sel #ff93003d
    14653 
    14654 > color sel #ff93003c
    14655 
    14656 > color sel #ff93003b
    14657 
    14658 > color sel #ff93003a
    14659 
    14660 > color sel #ff930039
    14661 
    14662 > color sel #ff930038
    14663 
    14664 > color sel #ff930037
    14665 
    14666 > color sel #ff930036
    14667 
    14668 > color sel #ff930033
    14669 
    14670 > color sel #ff930032
    14671 
    14672 > color sel #ff93002f
    14673 
    14674 > color sel #ff93002d
    14675 
    14676 > color sel #ff93002b
    14677 
    14678 > color sel #ff930028
    14679 
    14680 > color sel #ff930027
    14681 
    14682 > color sel #ff930026
    14683 
    14684 > color sel #ff930024
    14685 
    14686 > color sel #ff930023
    14687 
    14688 > color sel #ff930021
    14689 
    14690 > color sel #ff930020
    14691 
    14692 > color sel #ff93001f
    14693 
    14694 > color sel #ff93001e
    14695 
    14696 > color sel #ff93001d
    14697 
    14698 > color sel #ff93001c
    14699 
    14700 > color sel #ff93001b
    14701 
    14702 > color sel #ff93001a
    14703 
    14704 > color sel #ff930019
    14705 
    14706 > color sel #ff930018
    14707 
    14708 > color sel #ff930017
    14709 
    14710 > color sel #ff930014
    14711 
    14712 > color sel #ff930013
    14713 
    14714 > color sel #ff930012
    14715 
    14716 > color sel #ff930010
    14717 
    14718 > color sel #ff93000f
    14719 
    14720 > color sel #ff93000e
    14721 
    14722 > color sel #ff93000d
    14723 
    14724 > color sel #ff93000c
    14725 
    14726 > color sel #ff93000b
    14727 
    14728 > color sel #ff93000a
    14729 
    14730 > color sel #ff930009
    14731 
    14732 > color sel #ff930008
    14733 
    14734 > color sel #ff930007
    14735 
    14736 > color sel #ff930006
    14737 
    14738 > color sel #ff930007
    14739 
    14740 > color sel #ff930008
    14741 
    14742 > color sel #ff930009
    14743 
    14744 > color sel #ff93000a
    14745 
    14746 > color sel #ff93000c
    14747 
    14748 > color sel #ff93000d
    14749 
    14750 > color sel #ff93000e
    14751 
    14752 > color sel #ff93000f
    14753 
    14754 > color sel #ff93000e
    14755 
    14756 > color sel #ff93000d
    14757 
    14758 > select #1/Y:9
    14759 
    14760 21 atoms, 23 bonds, 1 residue, 1 model selected 
    14761 
    14762 > select #1/Y:1-9
    14763 
    14764 186 atoms, 208 bonds, 9 residues, 1 model selected 
    14765 
    14766 > color sel #ff9300ff
    14767 
    14768 > select #2/J:130-131
    14769 
    14770 44 atoms, 49 bonds, 2 residues, 1 model selected 
    14771 
    14772 > select #2/J:11-131
    14773 
    14774 2497 atoms, 2804 bonds, 121 residues, 1 model selected 
    14775 
    14776 > select #2/J:130
    14777 
    14778 22 atoms, 24 bonds, 1 residue, 1 model selected 
    14779 
    14780 > select #2/J:11-130
    14781 
    14782 2475 atoms, 2779 bonds, 120 residues, 1 model selected 
    14783 
    14784 > color sel #73fa79ff
    14785 
    14786 > color sel #73fa79fb
    14787 
    14788 > color sel #73fa79e5
    14789 
    14790 > color sel #73fa79cb
    14791 
    14792 > color sel #73fa79b6
    14793 
    14794 > color sel #73fa79a5
    14795 
    14796 > color sel #73fa7993
    14797 
    14798 > color sel #73fa7977
    14799 
    14800 > color sel #73fa7966
    14801 
    14802 > color sel #73fa7954
    14803 
    14804 > color sel #73fa794c
    14805 
    14806 > color sel #73fa7947
    14807 
    14808 > color sel #73fa7944
    14809 
    14810 > color sel #73fa7943
    14811 
    14812 > color sel #73fa7942
    14813 
    14814 > color sel #73fa7940
    14815 
    14816 > color sel #73fa793e
    14817 
    14818 > color sel #73fa793c
    14819 
    14820 > color sel #73fa7939
    14821 
    14822 > color sel #73fa7938
    14823 
    14824 > color sel #73fa7937
    14825 
    14826 > color sel #73fa7935
    14827 
    14828 > color sel #73fa7934
    14829 
    14830 > color sel #73fa7933
    14831 
    14832 > color sel #73fa7932
    14833 
    14834 > color sel #73fa792e
    14835 
    14836 > color sel #73fa792d
    14837 
    14838 > color sel #73fa792c
    14839 
    14840 > color sel #73fa792b
    14841 
    14842 > color sel #73fa792a
    14843 
    14844 > color sel #73fa7929
    14845 
    14846 > color sel #73fa7927
    14847 
    14848 > color sel #73fa7925
    14849 
    14850 > color sel #73fa7924
    14851 
    14852 > color sel #73fa7923
    14853 
    14854 > color sel #73fa7922
    14855 
    14856 > color sel #73fa7921
    14857 
    14858 > color sel #73fa791f
    14859 
    14860 > color sel #73fa791e
    14861 
    14862 > color sel #73fa791d
    14863 
    14864 > color sel #73fa791c
    14865 
    14866 > color sel #73fa791b
    14867 
    14868 > color sel #73fa791a
    14869 
    14870 > color sel #73fa7919
    14871 
    14872 > color sel #73fa7918
    14873 
    14874 > color sel #73fa7917
    14875 
    14876 > color sel #73fa7916
    14877 
    14878 > color sel #73fa7915
    14879 
    14880 > color sel #73fa7914
    14881 
    14882 > color sel #73fa7913
    14883 
    14884 > color sel #73fa7912
    14885 
    14886 > color sel #73fa7910
    14887 
    14888 > color sel #73fa790f
    14889 
    14890 > color sel #73fa790e
    14891 
    14892 > color sel #73fa790d
    14893 
    14894 > color sel #ff9300ff
    14895 
    14896 > color sel #ff9300fe
    14897 
    14898 > color sel #ff9300fd
    14899 
    14900 > color sel #ff9300f9
    14901 
    14902 > color sel #ff9300ed
    14903 
    14904 > color sel #ff9300da
    14905 
    14906 > color sel #ff9300c7
    14907 
    14908 > color sel #ff9300b0
    14909 
    14910 > color sel #ff93009d
    14911 
    14912 > color sel #ff93008f
    14913 
    14914 > color sel #ff93008b
    14915 
    14916 > color sel #ff930086
    14917 
    14918 > color sel #ff930084
    14919 
    14920 > color sel #ff930082
    14921 
    14922 > color sel #ff930080
    14923 
    14924 > color sel #ff930079
    14925 
    14926 > color sel #ff930073
    14927 
    14928 > color sel #ff93006d
    14929 
    14930 > color sel #ff930065
    14931 
    14932 > color sel #ff93005d
    14933 
    14934 > color sel #ff930051
    14935 
    14936 > color sel #ff930049
    14937 
    14938 > color sel #ff930040
    14939 
    14940 > color sel #ff930037
    14941 
    14942 > color sel #ff930035
    14943 
    14944 > color sel #ff930030
    14945 
    14946 > color sel #ff93002e
    14947 
    14948 > color sel #ff93002c
    14949 
    14950 > color sel #ff93002a
    14951 
    14952 > color sel #ff930028
    14953 
    14954 > color sel #ff930027
    14955 
    14956 > color sel #ff930024
    14957 
    14958 > color sel #ff930022
    14959 
    14960 > color sel #ff930021
    14961 
    14962 > color sel #ff930020
    14963 
    14964 > color sel #ff93001f
    14965 
    14966 > color sel #ff93001d
    14967 
    14968 > color sel #ff93001c
    14969 
    14970 > color sel #ff93001b
    14971 
    14972 > color sel #ff93001a
    14973 
    14974 > color sel #ff930019
    14975 
    14976 > color sel #ff930018
    14977 
    14978 > color sel #ff930017
    14979 
    14980 > color sel #ff930016
    14981 
    14982 > color sel #ff930015
    14983 
    14984 > color sel #ff930014
    14985 
    14986 > color sel #ff930013
    14987 
    14988 > color sel #ff930012
    14989 
    14990 > color sel #ff930011
    14991 
    14992 > color sel #ff930010
    14993 
    14994 > color sel #ff93000f
    14995 
    14996 > color sel #ff93000e
    14997 
    14998 > color sel #7a81ffff
    14999 
    15000 > color sel #7a81fffe
    15001 
    15002 > color sel #7a81fff5
    15003 
    15004 > color sel #7a81ffe1
    15005 
    15006 > color sel #7a81ffc1
    15007 
    15008 > color sel #7a81ffb6
    15009 
    15010 > color sel #7a81ffad
    15011 
    15012 > color sel #7a81ffa3
    15013 
    15014 > color sel #7a81ff9a
    15015 
    15016 > color sel #7a81ff91
    15017 
    15018 > color sel #7a81ff8a
    15019 
    15020 > color sel #7a81ff84
    15021 
    15022 > color sel #7a81ff80
    15023 
    15024 > color sel #7a81ff77
    15025 
    15026 > color sel #7a81ff70
    15027 
    15028 > color sel #7a81ff65
    15029 
    15030 > color sel #7a81ff62
    15031 
    15032 > color sel #7a81ff53
    15033 
    15034 > color sel #7a81ff49
    15035 
    15036 > color sel #7a81ff40
    15037 
    15038 > color sel #7a81ff37
    15039 
    15040 > color sel #7a81ff35
    15041 
    15042 > color sel #7a81ff33
    15043 
    15044 > color sel #7a81ff32
    15045 
    15046 > color sel #7a81ff31
    15047 
    15048 > color sel #7a81ff2f
    15049 
    15050 > color sel #7a81ff2b
    15051 
    15052 > color sel #7a81ff21
    15053 
    15054 > color sel #7a81ff1b
    15055 
    15056 > color sel #7a81ff17
    15057 
    15058 > color sel #7a81ff15
    15059 
    15060 > color sel #7a81ff14
    15061 
    15062 > color sel #7a81ff13
    15063 
    15064 > color sel #7a81ff12
    15065 
    15066 > color sel #7a81ff11
    15067 
    15068 > color sel #7a81ff10
    15069 
    15070 > color sel #7a81ff0f
    15071 
    15072 > color sel #7a81ff0e
    15073 
    15074 > color sel #7a81ff0d
    15075 
    15076 > color sel #7a81ff0c
    15077 
    15078 > select #2/J:131
    15079 
    15080 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15081 
    15082 > select #2/J:131-146
    15083 
    15084 326 atoms, 364 bonds, 16 residues, 1 model selected 
    15085 
    15086 > color sel #7a81ffff
    15087 
    15088 > select #1/Y:9
    15089 
    15090 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15091 
    15092 > select #1/Y:1-9
    15093 
    15094 186 atoms, 208 bonds, 9 residues, 1 model selected 
    15095 
    15096 > color sel #ff9300ff
    15097 
    15098 > select #1/Y:129
    15099 
    15100 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15101 
    15102 > select #1/Y:129
    15103 
    15104 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15105 
    15106 > select #2/I:131
    15107 
    15108 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15109 
    15110 > select #2/I:131
    15111 
    15112 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15113 
    15114 > select #2/I:131-137
    15115 
    15116 146 atoms, 164 bonds, 7 residues, 1 model selected 
    15117 
    15118 > color sel #7a81ffff
    15119 
    15120 > select #2/J:17
    15121 
    15122 20 atoms, 21 bonds, 1 residue, 1 model selected 
    15123 
    15124 > select add #2/J:11
    15125 
    15126 40 atoms, 42 bonds, 2 residues, 1 model selected 
    15127 
    15128 > select add #2/J:12
    15129 
    15130 61 atoms, 65 bonds, 3 residues, 1 model selected 
    15131 
    15132 > select add #2/J:13
    15133 
    15134 81 atoms, 86 bonds, 4 residues, 1 model selected 
    15135 
    15136 > select add #2/J:14
    15137 
    15138 102 atoms, 109 bonds, 5 residues, 1 model selected 
    15139 
    15140 > select add #2/J:16
    15141 
    15142 121 atoms, 129 bonds, 6 residues, 1 model selected 
    15143 
    15144 > select add #2/J:15
    15145 
    15146 141 atoms, 150 bonds, 7 residues, 1 model selected 
    15147 
    15148 > color sel #7a81ffff
    15149 
    15150 > select clear
    15151 
    15152 > select #2/J:131
    15153 
    15154 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15155 
    15156 > select #2/J:131-146
    15157 
    15158 326 atoms, 364 bonds, 16 residues, 1 model selected 
    15159 
    15160 > select #1/X:136
    15161 
    15162 20 atoms, 21 bonds, 1 residue, 1 model selected 
    15163 
    15164 > select #1/X:136-144
    15165 
    15166 183 atoms, 204 bonds, 9 residues, 1 model selected 
    15167 
    15168 > select #2/I:131
    15169 
    15170 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15171 
    15172 > select #2/I:131-137
    15173 
    15174 146 atoms, 164 bonds, 7 residues, 1 model selected 
    15175 
    15176 > select #2/I:18
    15177 
    15178 19 atoms, 20 bonds, 1 residue, 1 model selected 
    15179 
    15180 > select #2/I:18-137
    15181 
    15182 2445 atoms, 2739 bonds, 120 residues, 1 model selected 
    15183 
    15184 > select #2/I:4
    15185 
    15186 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15187 
    15188 > select #2/I:4-96
    15189 
    15190 1893 atoms, 2120 bonds, 93 residues, 1 model selected 
    15191 
    15192 > color sel #7a81ffff
    15193 
    15194 > color sel #7a81fffe
    15195 
    15196 > color sel #7a81fffb
    15197 
    15198 > color sel #7a81fff5
    15199 
    15200 > color sel #7a81fff3
    15201 
    15202 > color sel #7a81fff0
    15203 
    15204 > color sel #7a81ffef
    15205 
    15206 > color sel #7a81ffee
    15207 
    15208 > color sel #7a81ffec
    15209 
    15210 > color sel #7a81ffeb
    15211 
    15212 > color sel #7a81ffe7
    15213 
    15214 > color sel #7a81ffe4
    15215 
    15216 > color sel #7a81ffdf
    15217 
    15218 > color sel #7a81ffd3
    15219 
    15220 > color sel #7a81ffc7
    15221 
    15222 > color sel #7a81ffb9
    15223 
    15224 > color sel #7a81ffaf
    15225 
    15226 > color sel #7a81ffa8
    15227 
    15228 > color sel #7a81ffa4
    15229 
    15230 > color sel #7a81ffa1
    15231 
    15232 > color sel #7a81ff9f
    15233 
    15234 > color sel #7a81ff9c
    15235 
    15236 > color sel #7a81ff99
    15237 
    15238 > color sel #7a81ff95
    15239 
    15240 > color sel #7a81ff93
    15241 
    15242 > color sel #7a81ff8b
    15243 
    15244 > color sel #7a81ff84
    15245 
    15246 > color sel #7a81ff80
    15247 
    15248 > color sel #7a81ff77
    15249 
    15250 > color sel #7a81ff72
    15251 
    15252 > color sel #7a81ff6d
    15253 
    15254 > color sel #7a81ff6a
    15255 
    15256 > color sel #7a81ff68
    15257 
    15258 > color sel #7a81ff66
    15259 
    15260 > color sel #7a81ff64
    15261 
    15262 > color sel #7a81ff63
    15263 
    15264 > color sel #7a81ff62
    15265 
    15266 > color sel #7a81ff61
    15267 
    15268 > color sel #7a81ff5f
    15269 
    15270 > color sel #7a81ff5d
    15271 
    15272 > color sel #7a81ff5c
    15273 
    15274 > color sel #7a81ff5b
    15275 
    15276 > color sel #7a81ff5a
    15277 
    15278 > color sel #7a81ff57
    15279 
    15280 > color sel #7a81ff55
    15281 
    15282 > color sel #7a81ff54
    15283 
    15284 > color sel #7a81ff53
    15285 
    15286 > color sel #7a81ff52
    15287 
    15288 > color sel #7a81ff51
    15289 
    15290 > color sel #7a81ff50
    15291 
    15292 > color sel #7a81ff4f
    15293 
    15294 > color sel #7a81ff4e
    15295 
    15296 > color sel #7a81ff4d
    15297 
    15298 > color sel #7a81ff4c
    15299 
    15300 > color sel #7a81ff4b
    15301 
    15302 > color sel #7a81ff4a
    15303 
    15304 > color sel #7a81ff46
    15305 
    15306 > color sel #7a81ff44
    15307 
    15308 > color sel #7a81ff40
    15309 
    15310 > color sel #7a81ff3d
    15311 
    15312 > color sel #7a81ff38
    15313 
    15314 > color sel #7a81ff35
    15315 
    15316 > color sel #7a81ff31
    15317 
    15318 > color sel #7a81ff2f
    15319 
    15320 > color sel #7a81ff2e
    15321 
    15322 > color sel #7a81ff2d
    15323 
    15324 > color sel #7a81ff2c
    15325 
    15326 > color sel #7a81ff2b
    15327 
    15328 > color sel #7a81ff2a
    15329 
    15330 > color sel #7a81ff29
    15331 
    15332 > color sel #7a81ff28
    15333 
    15334 > color sel #7a81ff27
    15335 
    15336 > color sel #7a81ff26
    15337 
    15338 > color sel #7a81ff25
    15339 
    15340 > color sel #7a81ff23
    15341 
    15342 > color sel #7a81ff22
    15343 
    15344 > color sel #7a81ff21
    15345 
    15346 > color sel #7a81ff20
    15347 
    15348 > color sel #7a81ff1d
    15349 
    15350 > color sel #7a81ff1a
    15351 
    15352 > color sel #7a81ff18
    15353 
    15354 > color sel #7a81ff17
    15355 
    15356 > color sel #7a81ff16
    15357 
    15358 > color sel #7a81ff15
    15359 
    15360 > color sel #7a81ff14
    15361 
    15362 > color sel #7a81ff13
    15363 
    15364 > color sel #7a81ff12
    15365 
    15366 > color sel #7a81ff11
    15367 
    15368 > color sel #7a81ff10
    15369 
    15370 > color sel #7a81ff0f
    15371 
    15372 > color sel #7a81ff0e
    15373 
    15374 > color sel #7a81ff0d
    15375 
    15376 > select #2/I:96-97
    15377 
    15378 40 atoms, 44 bonds, 2 residues, 1 model selected 
    15379 
    15380 > select #2/I:97-137
    15381 
    15382 841 atoms, 943 bonds, 41 residues, 1 model selected 
    15383 
    15384 > color sel #7a81ffff
    15385 
    15386 > undo
    15387 
    15388 > select #2/I:2
    15389 
    15390 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15391 
    15392 > select #2/I:2-5
    15393 
    15394 84 atoms, 94 bonds, 4 residues, 1 model selected 
    15395 
    15396 > select #2/I:131
    15397 
    15398 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15399 
    15400 > select #2/I:2-131
    15401 
    15402 2650 atoms, 2969 bonds, 130 residues, 1 model selected 
    15403 
    15404 > color sel #7a81ffff
    15405 
    15406 > color sel #7a81fffe
    15407 
    15408 > color sel #7a81fff1
    15409 
    15410 > color sel #7a81ffe0
    15411 
    15412 > color sel #7a81ffd3
    15413 
    15414 > color sel #7a81ffbd
    15415 
    15416 > color sel #7a81ff95
    15417 
    15418 > color sel #7a81ff78
    15419 
    15420 > color sel #7a81ff55
    15421 
    15422 > color sel #7a81ff40
    15423 
    15424 > color sel #7a81ff39
    15425 
    15426 > color sel #7a81ff36
    15427 
    15428 > color sel #7a81ff35
    15429 
    15430 > color sel #7a81ff34
    15431 
    15432 > color sel #7a81ff32
    15433 
    15434 > color sel #7a81ff30
    15435 
    15436 > color sel #7a81ff2d
    15437 
    15438 > color sel #7a81ff2b
    15439 
    15440 > color sel #7a81ff2a
    15441 
    15442 > color sel #7a81ff29
    15443 
    15444 > color sel #7a81ff27
    15445 
    15446 > color sel #7a81ff25
    15447 
    15448 > color sel #7a81ff22
    15449 
    15450 > color sel #7a81ff21
    15451 
    15452 > color sel #7a81ff1f
    15453 
    15454 > color sel #7a81ff1d
    15455 
    15456 > color sel #7a81ff1c
    15457 
    15458 > color sel #7a81ff19
    15459 
    15460 > color sel #7a81ff18
    15461 
    15462 > color sel #7a81ff17
    15463 
    15464 > color sel #7a81ff16
    15465 
    15466 > color sel #7a81ff15
    15467 
    15468 > color sel #7a81ff13
    15469 
    15470 > color sel #7a81ff11
    15471 
    15472 > color sel #7a81ff10
    15473 
    15474 > color sel #7a81ff0f
    15475 
    15476 > color sel #7a81ff0d
    15477 
    15478 > select #1/Y:129
    15479 
    15480 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15481 
    15482 > select #1/Y:129
    15483 
    15484 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15485 
    15486 > select #1/Y
    15487 
    15488 2661 atoms, 2988 bonds, 129 residues, 1 model selected 
    15489 
    15490 > color sel #ff9300ff
    15491 
    15492 > color sel #ff9300f3
    15493 
    15494 > color sel #ff9300f2
    15495 
    15496 > color sel #ff9300f0
    15497 
    15498 > color sel #ff9300ec
    15499 
    15500 > color sel #ff9300e6
    15501 
    15502 > color sel #ff9300e4
    15503 
    15504 > color sel #ff9300e2
    15505 
    15506 > color sel #ff9300e1
    15507 
    15508 > color sel #ff9300df
    15509 
    15510 > color sel #ff9300dc
    15511 
    15512 > color sel #ff9300d9
    15513 
    15514 > color sel #ff9300d6
    15515 
    15516 > color sel #ff9300cf
    15517 
    15518 > color sel #ff9300ca
    15519 
    15520 > color sel #ff9300c5
    15521 
    15522 > color sel #ff9300c4
    15523 
    15524 > color sel #ff9300c3
    15525 
    15526 > color sel #ff9300c2
    15527 
    15528 > color sel #ff9300c0
    15529 
    15530 > color sel #ff9300be
    15531 
    15532 > color sel #ff9300bd
    15533 
    15534 > color sel #ff9300bb
    15535 
    15536 > color sel #ff9300b9
    15537 
    15538 > color sel #ff9300b7
    15539 
    15540 > color sel #ff9300b5
    15541 
    15542 > color sel #ff9300b4
    15543 
    15544 > color sel #ff9300b3
    15545 
    15546 > color sel #ff9300ac
    15547 
    15548 > color sel #ff93009f
    15549 
    15550 > color sel #ff93009c
    15551 
    15552 > color sel #ff930099
    15553 
    15554 > color sel #ff930096
    15555 
    15556 > color sel #ff930092
    15557 
    15558 > color sel #ff930090
    15559 
    15560 > color sel #ff93008c
    15561 
    15562 > color sel #ff930088
    15563 
    15564 > color sel #ff930080
    15565 
    15566 > color sel #ff93007d
    15567 
    15568 > color sel #ff930079
    15569 
    15570 > color sel #ff930074
    15571 
    15572 > color sel #ff930067
    15573 
    15574 > color sel #ff930061
    15575 
    15576 > color sel #ff93005b
    15577 
    15578 > color sel #ff930053
    15579 
    15580 > color sel #ff93004e
    15581 
    15582 > color sel #ff93004b
    15583 
    15584 > color sel #ff930048
    15585 
    15586 > color sel #ff930045
    15587 
    15588 > color sel #ff930037
    15589 
    15590 > color sel #ff930021
    15591 
    15592 > color sel #ff930013
    15593 
    15594 > color sel #ff93000a
    15595 
    15596 > color sel #ff930009
    15597 
    15598 > color sel #ff930008
    15599 
    15600 > color sel #ff930006
    15601 
    15602 > color sel #ff930000
    15603 
    15604 > color sel #ff930006
    15605 
    15606 > color sel #ff930009
    15607 
    15608 > color sel #ff93000a
    15609 
    15610 > color sel #ff93000b
    15611 
    15612 > color sel #ff93000c
    15613 
    15614 > color sel #ff93000d
    15615 
    15616 > color sel #ff93000e
    15617 
    15618 > select clear
    15619 
    15620 > select #2/I:131
    15621 
    15622 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15623 
    15624 > color sel #7a81ffff
    15625 
    15626 > select clear
    15627 
    15628 > select #1/X:16
    15629 
    15630 19 atoms, 20 bonds, 1 residue, 1 model selected 
    15631 
    15632 > select #1/X:143-144
    15633 
    15634 41 atoms, 45 bonds, 2 residues, 1 model selected 
    15635 
    15636 > select #1/X
    15637 
    15638 2628 atoms, 2944 bonds, 129 residues, 1 model selected 
    15639 
    15640 > color sel #ff9300ff
    15641 
    15642 > color sel #ff9300f2
    15643 
    15644 > color sel #ff9300e2
    15645 
    15646 > color sel #ff9300b5
    15647 
    15648 > color sel #ff930097
    15649 
    15650 > color sel #ff930082
    15651 
    15652 > color sel #ff930068
    15653 
    15654 > color sel #ff930058
    15655 
    15656 > color sel #ff930053
    15657 
    15658 > color sel #ff93004f
    15659 
    15660 > color sel #ff93004e
    15661 
    15662 > color sel #ff93004c
    15663 
    15664 > color sel #ff93004b
    15665 
    15666 > color sel #ff930049
    15667 
    15668 > color sel #ff930044
    15669 
    15670 > color sel #ff930043
    15671 
    15672 > color sel #ff930042
    15673 
    15674 > color sel #ff930041
    15675 
    15676 > color sel #ff930040
    15677 
    15678 > color sel #ff93003f
    15679 
    15680 > color sel #ff93003e
    15681 
    15682 > color sel #ff93003d
    15683 
    15684 > color sel #ff93003c
    15685 
    15686 > color sel #ff93003b
    15687 
    15688 > color sel #ff93003a
    15689 
    15690 > color sel #ff930039
    15691 
    15692 > color sel #ff930038
    15693 
    15694 > color sel #ff930037
    15695 
    15696 > color sel #ff930036
    15697 
    15698 > color sel #ff930035
    15699 
    15700 > color sel #ff930034
    15701 
    15702 > color sel #ff930032
    15703 
    15704 > color sel #ff930031
    15705 
    15706 > color sel #ff930030
    15707 
    15708 > color sel #ff93002f
    15709 
    15710 > color sel #ff93002e
    15711 
    15712 > color sel #ff93002d
    15713 
    15714 > color sel #ff93002c
    15715 
    15716 > color sel #ff93002b
    15717 
    15718 > color sel #ff93002a
    15719 
    15720 > color sel #ff930029
    15721 
    15722 > color sel #ff930028
    15723 
    15724 > color sel #ff930026
    15725 
    15726 > color sel #ff930025
    15727 
    15728 > color sel #ff930024
    15729 
    15730 > color sel #ff930023
    15731 
    15732 > color sel #ff930022
    15733 
    15734 > color sel #ff930021
    15735 
    15736 > color sel #ff930020
    15737 
    15738 > color sel #ff93001f
    15739 
    15740 > color sel #ff93001e
    15741 
    15742 > color sel #ff93001d
    15743 
    15744 > color sel #ff93001c
    15745 
    15746 > color sel #ff930019
    15747 
    15748 > color sel #ff930018
    15749 
    15750 > color sel #ff930017
    15751 
    15752 > color sel #ff930016
    15753 
    15754 > color sel #ff930015
    15755 
    15756 > color sel #ff930014
    15757 
    15758 > color sel #ff930013
    15759 
    15760 > color sel #ff930012
    15761 
    15762 > color sel #ff930011
    15763 
    15764 > color sel #ff930010
    15765 
    15766 > color sel #ff93000f
    15767 
    15768 > color sel #ff93000e
    15769 
    15770 > select clear
    15771 
    15772 > select #2/J:131
    15773 
    15774 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15775 
    15776 > select #2/J:131
    15777 
    15778 22 atoms, 24 bonds, 1 residue, 1 model selected 
    15779 
    15780 > select #2/J:131-146
    15781 
    15782 326 atoms, 364 bonds, 16 residues, 1 model selected 
    15783 
    15784 > color sel #7a81ffff
    15785 
    15786 > color sel #7a81fffa
    15787 
    15788 > color sel #7a81fff2
    15789 
    15790 > color sel #7a81ffe1
    15791 
    15792 > color sel #7a81ffbf
    15793 
    15794 > color sel #7a81ffb3
    15795 
    15796 > color sel #7a81ffa4
    15797 
    15798 > color sel #7a81ff9d
    15799 
    15800 > color sel #7a81ff96
    15801 
    15802 > color sel #7a81ff90
    15803 
    15804 > color sel #7a81ff8a
    15805 
    15806 > color sel #7a81ff82
    15807 
    15808 > color sel #7a81ff7c
    15809 
    15810 > color sel #7a81ff75
    15811 
    15812 > color sel #7a81ff6b
    15813 
    15814 > color sel #7a81ff66
    15815 
    15816 > color sel #7a81ff62
    15817 
    15818 > color sel #7a81ff61
    15819 
    15820 > color sel #7a81ff60
    15821 
    15822 > color sel #7a81ff5f
    15823 
    15824 > color sel #7a81ff5e
    15825 
    15826 > color sel #7a81ff5d
    15827 
    15828 > color sel #7a81ff5c
    15829 
    15830 > color sel #7a81ff59
    15831 
    15832 > color sel #7a81ff57
    15833 
    15834 > color sel #7a81ff56
    15835 
    15836 > color sel #7a81ff55
    15837 
    15838 > color sel #7a81ff54
    15839 
    15840 > color sel #7a81ff52
    15841 
    15842 > color sel #7a81ff4f
    15843 
    15844 > color sel #7a81ff4c
    15845 
    15846 > color sel #7a81ff4a
    15847 
    15848 > color sel #7a81ff48
    15849 
    15850 > color sel #7a81ff47
    15851 
    15852 > color sel #7a81ff44
    15853 
    15854 > color sel #7a81ff3e
    15855 
    15856 > color sel #7a81ff39
    15857 
    15858 > color sel #7a81ff33
    15859 
    15860 > color sel #7a81ff2f
    15861 
    15862 > color sel #7a81ff2d
    15863 
    15864 > color sel #7a81ff2c
    15865 
    15866 > color sel #7a81ff2b
    15867 
    15868 > color sel #7a81ff2a
    15869 
    15870 > color sel #7a81ff29
    15871 
    15872 > color sel #7a81ff28
    15873 
    15874 > color sel #7a81ff27
    15875 
    15876 > color sel #7a81ff26
    15877 
    15878 > color sel #7a81ff25
    15879 
    15880 > color sel #7a81ff24
    15881 
    15882 > color sel #7a81ff23
    15883 
    15884 > color sel #7a81ff22
    15885 
    15886 > color sel #7a81ff21
    15887 
    15888 > color sel #7a81ff20
    15889 
    15890 > color sel #7a81ff1f
    15891 
    15892 > color sel #7a81ff1e
    15893 
    15894 > color sel #7a81ff1d
    15895 
    15896 > color sel #7a81ff1c
    15897 
    15898 > color sel #7a81ff1b
    15899 
    15900 > color sel #7a81ff1a
    15901 
    15902 > color sel #7a81ff19
    15903 
    15904 > color sel #7a81ff18
    15905 
    15906 > color sel #7a81ff17
    15907 
    15908 > color sel #7a81ff16
    15909 
    15910 > color sel #7a81ff15
    15911 
    15912 > color sel #7a81ff14
    15913 
    15914 > color sel #7a81ff13
    15915 
    15916 > color sel #7a81ff12
    15917 
    15918 > color sel #7a81ff11
    15919 
    15920 > color sel #7a81ff10
    15921 
    15922 > color sel #7a81ff0f
    15923 
    15924 > color sel #7a81ff0e
    15925 
    15926 > color sel #7a81ff0d
    15927 
    15928 > color sel #7a81ff0c
    15929 
    15930 > select clear
    15931 
    15932 > select #2/J:11
    15933 
    15934 20 atoms, 21 bonds, 1 residue, 1 model selected 
    15935 
    15936 > select add #2/J:17
    15937 
    15938 40 atoms, 42 bonds, 2 residues, 1 model selected 
    15939 
    15940 > select add #2/J:16
    15941 
    15942 59 atoms, 62 bonds, 3 residues, 1 model selected 
    15943 
    15944 > select add #2/J:14
    15945 
    15946 80 atoms, 85 bonds, 4 residues, 1 model selected 
    15947 
    15948 > select add #2/J:13
    15949 
    15950 100 atoms, 106 bonds, 5 residues, 1 model selected 
    15951 
    15952 > select add #2/J:12
    15953 
    15954 121 atoms, 129 bonds, 6 residues, 1 model selected 
    15955 
    15956 > select add #2/J:15
    15957 
    15958 141 atoms, 150 bonds, 7 residues, 1 model selected 
    15959 
    15960 > select #2/I:137
    15961 
    15962 21 atoms, 23 bonds, 1 residue, 1 model selected 
    15963 
    15964 > select add #2/I:131
    15965 
    15966 42 atoms, 46 bonds, 2 residues, 1 model selected 
    15967 
    15968 > select clear
    15969 
    15970 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    15971 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    15972 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    15973 
    15974 > save /Users/kenjiman/Desktop/image1.png supersample 3
    15975 
    15976 > select #1/S#2/S
    15977 
    15978 338 atoms, 345 bonds, 43 residues, 2 models selected 
    15979 
    15980 > show sel atoms
    15981 
    15982 > style sel stick
    15983 
    15984 Changed 338 atom styles 
    15985 
    15986 > size sel stickRadius 0.5
    15987 
    15988 Changed 345 bond radii 
    15989 
    15990 > color sel byhetero
    15991 
    15992 > select solvent
    15993 
    15994 3 atoms, 3 residues, 1 model selected 
    15995 
    15996 > hide sel atoms
    15997 
    15998 > save /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    15999 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    16000 > NCP-class1p3_ShowDNAandSSX_Schain_STICK.cxs includeMaps true
    16001 
    16002 > save /Users/kenjiman/Desktop/image1.png supersample 3
    16003 
    16004 > lighting soft
    16005 
    16006 > graphics silhouettes false
    16007 
    16008 > graphics silhouettes true
    16009 
    16010 > lighting shadows true intensity 0.5
    16011 
    16012 > lighting shadows false
    16013 
    16014 > lighting soft
    16015 
    16016 > graphics silhouettes false
    16017 
    16018 > graphics silhouettes true
    16019 
    16020 > lighting soft
    16021 
    16022 > lighting full
    16023 
    16024 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    16025 > Nuc/NatComm/原稿/Figures/Materials/SSX1RD-NCPs/SSX1RD-NCP-
    16026 > class4/NCP_SS1_class4_RR_19.pdb
    16027 
    16028 Chain information for NCP_SS1_class4_RR_19.pdb #3 
    16029 --- 
    16030 Chain | Description 
    16031 A E | No description available 
    16032 B F | No description available 
    16033 C G | No description available 
    16034 D | No description available 
    16035 H | No description available 
    16036 R | No description available 
    16037 S | No description available 
    16038 X | No description available 
    16039 Y | No description available 
    16040  
    16041 40 atoms have alternate locations. Control/examine alternate locations with
    16042 Altloc Explorer [start tool...] or the altlocs command. 
    16043 
    16044 > select #3
    16045 
    16046 12144 atoms, 12945 bonds, 1076 residues, 1 model selected 
    16047 
    16048 > hide sel atoms
    16049 
    16050 > show sel cartoons
    16051 
    16052 > ui tool show Matchmaker
    16053 
    16054 > matchmaker #3/A#3/B#3/C#3/D#3/E#3/F#3/G#3/H#3/S#3/X#3/Y to
    16055 > #1/A#1/B#1/C#1/D#1/E#1/F#1/G#1/H#1/S#1/X#1/Y pairing ss alg Smith-Waterman
    16056 > ssFraction 0.2022 cutoffDistance none
    16057 
    16058 Using Nucleic matrix instead of BLOSUM-62 to match NCP_SS1_class4_RR_19.pdb
    16059 #3/X to NCP_SS1_class13_RR_20.pdb #1/X 
    16060 Using Nucleic matrix instead of BLOSUM-62 to match NCP_SS1_class4_RR_19.pdb
    16061 #3/Y to NCP_SS1_class13_RR_20.pdb #1/Y 
    16062 Computing secondary structure 
    16063 Parameters 
    16064 --- 
    16065 Chain pairing | ss 
    16066 Alignment algorithm | Smith-Waterman 
    16067 Similarity matrix | Nucleic 
    16068 SS fraction | 0.2022 
    16069 Gap open (HH/SS/other) | 18/18/6 
    16070 Gap extend | 1 
    16071 SS matrix |  |  | H | S | O 
    16072 ---|---|---|--- 
    16073 H | 6 | -9 | -6 
    16074 S |  | 6 | -6 
    16075 O |  |  | 4 
    16076 No iteration 
    16077  
    16078 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16079 sequence alignment score = 482.077 
    16080 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16081 sequence alignment score = 415.956 
    16082 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16083 sequence alignment score = 529.967 
    16084 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16085 sequence alignment score = 468.088 
    16086 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16087 sequence alignment score = 491.213 
    16088 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16089 sequence alignment score = 422.022 
    16090 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16091 sequence alignment score = 523.552 
    16092 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16093 sequence alignment score = 466.864 
    16094 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16095 sequence alignment score = 60.7538 
    16096 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16097 sequence alignment score = 516 
    16098 RMSD between 1030 atom pairs is 0.317 angstroms 
    16099  
    16100 
    16101 > matchmaker #3/A#3/B#3/C#3/D#3/E#3/F#3/G#3/H#3/S#3/X#3/Y to
    16102 > #1/A#1/B#1/C#1/D#1/E#1/F#1/G#1/H#1/S#1/X#1/Y pairing ss alg Smith-Waterman
    16103 > ssFraction 0.2022 cutoffDistance none
    16104 
    16105 Using Nucleic matrix instead of BLOSUM-62 to match NCP_SS1_class4_RR_19.pdb
    16106 #3/X to NCP_SS1_class13_RR_20.pdb #1/X 
    16107 Using Nucleic matrix instead of BLOSUM-62 to match NCP_SS1_class4_RR_19.pdb
    16108 #3/Y to NCP_SS1_class13_RR_20.pdb #1/Y 
    16109 Computing secondary structure 
    16110 Parameters 
    16111 --- 
    16112 Chain pairing | ss 
    16113 Alignment algorithm | Smith-Waterman 
    16114 Similarity matrix | Nucleic 
    16115 SS fraction | 0.2022 
    16116 Gap open (HH/SS/other) | 18/18/6 
    16117 Gap extend | 1 
    16118 SS matrix |  |  | H | S | O 
    16119 ---|---|---|--- 
    16120 H | 6 | -9 | -6 
    16121 S |  | 6 | -6 
    16122 O |  |  | 4 
    16123 No iteration 
    16124  
    16125 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16126 sequence alignment score = 482.077 
    16127 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16128 sequence alignment score = 415.956 
    16129 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16130 sequence alignment score = 529.967 
    16131 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16132 sequence alignment score = 468.088 
    16133 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16134 sequence alignment score = 491.213 
    16135 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16136 sequence alignment score = 422.022 
    16137 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16138 sequence alignment score = 523.552 
    16139 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16140 sequence alignment score = 466.864 
    16141 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16142 sequence alignment score = 60.7538 
    16143 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16144 sequence alignment score = 516 
    16145 RMSD between 1030 atom pairs is 0.317 angstroms 
    16146  
    16147 
    16148 > select #3/A-H
    16149 
    16150 6044 atoms, 6124 bonds, 764 residues, 1 model selected 
    16151 
    16152 > hide sel cartoons
    16153 
    16154 > select #3/A-H,R
    16155 
    16156 6137 atoms, 6219 bonds, 775 residues, 1 model selected 
    16157 
    16158 > hide sel cartoons
    16159 
    16160 > select #1/Y:129
    16161 
    16162 22 atoms, 24 bonds, 1 residue, 1 model selected 
    16163 
    16164 > select add #2/I:2
    16165 
    16166 43 atoms, 47 bonds, 2 residues, 2 models selected 
    16167 
    16168 > select add #1/Y:1
    16169 
    16170 64 atoms, 70 bonds, 3 residues, 2 models selected 
    16171 
    16172 > select #1/Y:129
    16173 
    16174 22 atoms, 24 bonds, 1 residue, 1 model selected 
    16175 
    16176 > select #1/Y
    16177 
    16178 2661 atoms, 2988 bonds, 129 residues, 1 model selected 
    16179 
    16180 > cartoon style width 3 thickness 157
    16181 
    16182 > cartoon style width 3 thickness 1
    16183 
    16184 > color sel #73fa79ff
    16185 
    16186 > color sel #73fa79f7
    16187 
    16188 > color sel #73fa79f6
    16189 
    16190 > color sel #73fa79f5
    16191 
    16192 > color sel #73fa79f4
    16193 
    16194 > color sel #73fa79f3
    16195 
    16196 > color sel #73fa79f2
    16197 
    16198 > color sel #73fa79f0
    16199 
    16200 > color sel #73fa79ed
    16201 
    16202 > color sel #73fa79e9
    16203 
    16204 > color sel #73fa79e7
    16205 
    16206 > color sel #73fa79e1
    16207 
    16208 > color sel #73fa79df
    16209 
    16210 > color sel #73fa79dc
    16211 
    16212 > color sel #73fa79db
    16213 
    16214 > color sel #73fa79da
    16215 
    16216 > color sel #73fa79d7
    16217 
    16218 > color sel #73fa79d6
    16219 
    16220 > color sel #73fa79d4
    16221 
    16222 > color sel #73fa79d2
    16223 
    16224 > color sel #73fa79d1
    16225 
    16226 > color sel #73fa79cf
    16227 
    16228 > color sel #73fa79cd
    16229 
    16230 > color sel #73fa79c9
    16231 
    16232 > color sel #73fa79c3
    16233 
    16234 > color sel #73fa79ba
    16235 
    16236 > color sel #73fa79b9
    16237 
    16238 > color sel #73fa79b7
    16239 
    16240 > color sel #73fa79ae
    16241 
    16242 > color sel #73fa79a9
    16243 
    16244 > color sel #73fa799c
    16245 
    16246 > color sel #73fa7997
    16247 
    16248 > color sel #73fa798b
    16249 
    16250 > color sel #73fa7980
    16251 
    16252 > color sel #73fa7979
    16253 
    16254 > color sel #73fa7976
    16255 
    16256 > color sel #73fa796f
    16257 
    16258 > color sel #73fa796b
    16259 
    16260 > color sel #73fa7969
    16261 
    16262 > color sel #73fa7966
    16263 
    16264 > color sel #73fa7964
    16265 
    16266 > color sel #73fa795f
    16267 
    16268 > color sel #73fa795d
    16269 
    16270 > color sel #73fa795b
    16271 
    16272 > color sel #73fa795a
    16273 
    16274 > color sel #73fa7958
    16275 
    16276 > color sel #73fa7957
    16277 
    16278 > color sel #73fa7955
    16279 
    16280 > color sel #73fa7953
    16281 
    16282 > color sel #73fa7951
    16283 
    16284 > color sel #73fa7950
    16285 
    16286 > color sel #73fa794e
    16287 
    16288 > color sel #73fa794d
    16289 
    16290 > color sel #73fa794b
    16291 
    16292 > color sel #73fa794a
    16293 
    16294 > color sel #73fa7948
    16295 
    16296 > color sel #73fa7946
    16297 
    16298 > color sel #73fa7945
    16299 
    16300 > color sel #73fa7944
    16301 
    16302 > color sel #73fa7942
    16303 
    16304 > color sel #73fa7941
    16305 
    16306 > color sel #73fa7940
    16307 
    16308 > color sel #73fa793f
    16309 
    16310 > color sel #73fa793e
    16311 
    16312 > color sel #73fa793d
    16313 
    16314 > color sel #73fa793c
    16315 
    16316 > color sel #73fa793b
    16317 
    16318 > color sel #73fa793a
    16319 
    16320 > color sel #73fa7939
    16321 
    16322 > color sel #73fa7938
    16323 
    16324 > color sel #73fa7937
    16325 
    16326 > color sel #73fa7933
    16327 
    16328 > color sel #73fa792a
    16329 
    16330 > color sel #73fa7929
    16331 
    16332 > color sel #73fa7928
    16333 
    16334 > color sel #73fa7927
    16335 
    16336 > color sel #73fa7926
    16337 
    16338 > color sel #73fa7925
    16339 
    16340 > color sel #73fa7924
    16341 
    16342 > color sel #73fa7923
    16343 
    16344 > color sel #73fa7922
    16345 
    16346 > color sel #73fa7921
    16347 
    16348 > color sel #73fa7920
    16349 
    16350 > color sel #73fa791f
    16351 
    16352 > color sel #73fa791e
    16353 
    16354 > color sel #73fa791d
    16355 
    16356 > color sel #73fa791e
    16357 
    16358 > color sel #73fa792a
    16359 
    16360 > color sel #73fa7940
    16361 
    16362 > color sel #73fa7964
    16363 
    16364 > color sel #73fa7986
    16365 
    16366 > color sel #73fa79ab
    16367 
    16368 > color sel #73fa79d7
    16369 
    16370 > color sel #73fa79ff
    16371 
    16372 > color sel #73fa79f7
    16373 
    16374 > color sel #73fa79ee
    16375 
    16376 > color sel #73fa79ea
    16377 
    16378 > color sel #73fa79e9
    16379 
    16380 > color sel #73fa79e8
    16381 
    16382 > color sel #73fa79e5
    16383 
    16384 > color sel #73fa79e2
    16385 
    16386 > color sel #73fa79dc
    16387 
    16388 > color sel #73fa79d4
    16389 
    16390 > color sel #73fa79d2
    16391 
    16392 > color sel #73fa79ce
    16393 
    16394 > color sel #73fa79c8
    16395 
    16396 > color sel #73fa79c5
    16397 
    16398 > color sel #73fa79bf
    16399 
    16400 > color sel #73fa79b3
    16401 
    16402 > color sel #73fa79ab
    16403 
    16404 > color sel #73fa79a4
    16405 
    16406 > color sel #73fa79a2
    16407 
    16408 > color sel #73fa79a1
    16409 
    16410 > color sel #73fa799c
    16411 
    16412 > color sel #73fa7997
    16413 
    16414 > color sel #73fa7991
    16415 
    16416 > color sel #73fa798b
    16417 
    16418 > color sel #73fa7986
    16419 
    16420 > color sel #73fa7982
    16421 
    16422 > color sel #73fa797a
    16423 
    16424 > color sel #73fa7974
    16425 
    16426 > color sel #73fa796e
    16427 
    16428 > color sel #73fa796b
    16429 
    16430 > color sel #73fa7967
    16431 
    16432 > color sel #73fa7963
    16433 
    16434 > color sel #73fa795d
    16435 
    16436 > color sel #73fa7958
    16437 
    16438 > color sel #73fa794c
    16439 
    16440 > color sel #73fa7947
    16441 
    16442 > color sel #73fa7946
    16443 
    16444 > color sel #73fa7944
    16445 
    16446 > color sel #73fa7943
    16447 
    16448 > color sel #73fa7942
    16449 
    16450 > color sel #73fa7940
    16451 
    16452 > color sel #73fa793f
    16453 
    16454 > color sel #73fa793d
    16455 
    16456 > color sel #73fa793c
    16457 
    16458 > color sel #73fa793b
    16459 
    16460 > color sel #73fa7938
    16461 
    16462 > color sel #73fa7937
    16463 
    16464 > color sel #73fa7935
    16465 
    16466 > color sel #73fa7932
    16467 
    16468 > color sel #73fa792f
    16469 
    16470 > color sel #73fa7927
    16471 
    16472 > color sel #73fa791a
    16473 
    16474 > color sel #73fa790d
    16475 
    16476 > color sel #73fa7907
    16477 
    16478 > color sel #73fa7906
    16479 
    16480 > color sel #73fa7905
    16481 
    16482 > color sel #73fa7903
    16483 
    16484 > color sel #73fa7901
    16485 
    16486 > undo
    16487 
    16488 > close session
    16489 
    16490 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    16491 > Nuc/NatComm/原稿/Figures/Materials/CompOur2NSMB2024/8HQYvsOurs/SSX1comp/CXS/Comp_8HQY_vs_SSX1RD-
    16492 > NCP-class1p3_ShowDNAandSSX_Schain_RIBBON.cxs
    16493 
    16494 opened ChimeraX session 
    16495 
    16496 > open /Users/kenjiman/Dropbox/筑波大001/筑波大学/TARA/WORK1/WRITINGPAPER-02/SSX-
    16497 > Nuc/NatComm/原稿/Figures/Materials/SSX1RD-NCPs/SSX1RD-NCP-
    16498 > class4/NCP_SS1_class4_RR_19.pdb
    16499 
    16500 Chain information for NCP_SS1_class4_RR_19.pdb #3 
    16501 --- 
    16502 Chain | Description 
    16503 A E | No description available 
    16504 B F | No description available 
    16505 C G | No description available 
    16506 D | No description available 
    16507 H | No description available 
    16508 R | No description available 
    16509 S | No description available 
    16510 X | No description available 
    16511 Y | No description available 
    16512  
    16513 40 atoms have alternate locations. Control/examine alternate locations with
    16514 Altloc Explorer [start tool...] or the altlocs command. 
    16515 
    16516 > select #3
    16517 
    16518 12144 atoms, 12945 bonds, 1076 residues, 1 model selected 
    16519 
    16520 > hide sel atoms
    16521 
    16522 > show sel cartoons
    16523 
    16524 > ui tool show Matchmaker
    16525 
    16526 > matchmaker #3 to #1 alg Smith-Waterman ssFraction 0.2022 cutoffDistance none
    16527 
    16528 Computing secondary structure 
    16529 Parameters 
    16530 --- 
    16531 Chain pairing | bb 
    16532 Alignment algorithm | Smith-Waterman 
    16533 Similarity matrix | BLOSUM-62 
    16534 SS fraction | 0.2022 
    16535 Gap open (HH/SS/other) | 18/18/6 
    16536 Gap extend | 1 
    16537 SS matrix |  |  | H | S | O 
    16538 ---|---|---|--- 
    16539 H | 6 | -9 | -6 
    16540 S |  | 6 | -6 
    16541 O |  |  | 4 
    16542 No iteration 
    16543  
    16544 Matchmaker NCP_SS1_class13_RR_20.pdb (#1) with NCP_SS1_class4_RR_19.pdb (#3),
    16545 sequence alignment score = 750.553 
    16546 RMSD between 129 atom pairs is 0.388 angstroms 
    16547  
     3017[deleted to fit within ticket limits]
    165483018
    165493019> matchmaker #3 to #1 alg Smith-Waterman ssFraction 0.2022 cutoffDistance none