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#18317 closed defect (duplicate)

Crash in garbage collection

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

Description

The following bug report has been submitted:
Platform:        Linux-4.18.0-552.el8.x86_64-x86_64-with-glibc2.28
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Current thread 0x00007fa116af5740 (most recent call first):
  Garbage-collecting
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/weakref.py", line 576 in __init__
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/atomic/molarray.py", line 1613 in remove_deleted_pointers
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/atomic/molarray.py", line 134 in __init__
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/molarray.py", line 556 in __init__
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/molobject.py", line 97 in _adaptive_distance_restraints
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/molobject.py", line 2888 in _get_restraints
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/molobject.py", line 2907 in add_restraint
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/restraints/restraint_utils.py", line 659 in apply_restraints
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/restraints/restraint_utils.py", line 680 in restrain_atom_distances_to_template
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/restraints/cmd.py", line 46 in restrain_distances
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 2908 in run
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/commands/run.py", line 49 in run
  File "/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-packages/chimerax/isolde/ui/restraints_tab/reference_model.py", line 405 in apply_restraints
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/ui/gui.py", line 275 in event_loop
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/__main__.py", line 918 in init
  File "/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1069 in 
  File "", line 88 in _run_code
  File "", line 198 in _run_module_as_main

Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtWebChannel, PyQt6.QtNetwork, PyQt6.QtWebEngineCore, PyQt6.QtPrintSupport, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, openmm._openmm, openmm.app.internal.compiled, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.pdb_lib._load_libs, PIL._imagingmath, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw, chimerax.atom_search.ast, chimerax.chem_group._chem_group, scipy._lib._ccallback_c, scipy.special._ufuncs_cxx, scipy.special._ufuncs, scipy.special._specfun, scipy.special._comb, scipy.linalg._fblas, scipy.linalg._flapack, scipy.linalg.cython_lapack, scipy.linalg._cythonized_array_utils, scipy.linalg._solve_toeplitz, scipy.linalg._decomp_lu_cython, scipy.linalg._matfuncs_sqrtm_triu, scipy.linalg.cython_blas, scipy.linalg._matfuncs_expm, scipy.linalg._decomp_update, scipy.sparse._sparsetools, _csparsetools, scipy.sparse._csparsetools, scipy.sparse.linalg._isolve._iterative, scipy.sparse.linalg._dsolve._superlu, scipy.sparse.linalg._eigen.arpack._arpack, scipy.sparse.csgraph._tools, scipy.sparse.csgraph._shortest_path, scipy.sparse.csgraph._traversal, scipy.sparse.csgraph._min_spanning_tree, scipy.sparse.csgraph._flow, scipy.sparse.csgraph._matching, scipy.sparse.csgraph._reordering, scipy.linalg._flinalg, scipy.special._ellip_harm_2, scipy.interpolate._fitpack, scipy.interpolate.dfitpack, scipy.optimize._minpack2, scipy.optimize._group_columns, scipy._lib.messagestream, scipy.optimize._trlib._trlib, numpy.linalg.lapack_lite, scipy.optimize._lbfgsb, _moduleTNC, scipy.optimize._moduleTNC, scipy.optimize._cobyla, scipy.optimize._slsqp, scipy.optimize._minpack, scipy.optimize._lsq.givens_elimination, scipy.optimize._zeros, scipy.optimize.__nnls, scipy.optimize._highs.cython.src._highs_wrapper, scipy.optimize._highs._highs_wrapper, scipy.optimize._highs.cython.src._highs_constants, scipy.optimize._highs._highs_constants, scipy.linalg._interpolative, scipy.optimize._bglu_dense, scipy.optimize._lsap, scipy.spatial._ckdtree, scipy.spatial._qhull, scipy.spatial._voronoi, scipy.spatial._distance_wrap, scipy.spatial._hausdorff, scipy.spatial.transform._rotation, scipy.optimize._direct, scipy.interpolate._bspl, scipy.interpolate._ppoly, scipy.interpolate.interpnd, scipy.interpolate._rbfinterp_pythran, scipy.interpolate._rgi_cython, chimerax.mmcif.mmcif_write (total: 125)
===== Log before crash start =====
Startup Messages  
---  
warnings | Replacing fetcher for 'ngff' and format OME-Zarr from OME-Zarr
bundle with that from OME-Zarr bundle  
Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with
that from NMRSTAR bundle  
  
UCSF ChimeraX version: 1.7.1 (2024-01-23)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 8wjn fromDatabase pdb format mmcif

8wjn title:  
Cryo-EM structure of 6-subunit Smc5/6 head region [more info...]  
  
Chain information for 8wjn #1  
---  
Chain | Description | UniProt  
A | Structural maintenance of chromosomes protein 5 | SMC5_YEAST 1-1093  
B | Structural maintenance of chromosomes protein 6 | SMC6_YEAST 1-1114  
F | Non-structural maintenance of chromosomes element 1 | NSE1_YEAST 1-336  
G | Non-structural maintenance of chromosome element 3 | NSE3_YEAST 1-303  
H | Non-structural maintenance of chromosomes element 4 | A0A6L0Z6W9_YEASX
1-402  
  

> hide atoms

> show cartoons

> open
> /home/ms/jawong/Downloads/AF3_Scsmc6_cbp/fold_2025_07_28_17_30_scsmc6cbp_smc5nse134/fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif

Chain information for fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif
#2  
---  
Chain | Description  
A | .  
B | .  
C | .  
D | .  
E | .  
  

> hide atoms

> show cartoons

> select add #2

26514 atoms, 26877 bonds, 3292 residues, 1 model selected  

> mmaker #2/A to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 8wjn, chain B (#1) with
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif, chain A (#2), sequence
alignment score = 4509  
RMSD between 129 pruned atom pairs is 1.182 angstroms; (across all 481 pairs:
12.277)  
  

> select #2/E

2386 atoms, 2417 bonds, 303 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select #2/D

2694 atoms, 2741 bonds, 336 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select #2/C

3241 atoms, 3293 bonds, 402 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> hide #!1 models

> show #!1 models

> select #2/A

9340 atoms, 9449 bonds, 1158 residues, 1 model selected  

> select #2/B

8853 atoms, 8977 bonds, 1093 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> hide #!1 models

> show #!1 models

> hide #!1 models

> select #2/A:317

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select #2/A:317-871

4522 atoms, 4564 bonds, 555 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> show #!1 models

> mmaker #2/A to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 8wjn, chain B (#1) with
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif, chain A (#2), sequence
alignment score = 4522.2  
RMSD between 128 pruned atom pairs is 1.172 angstroms; (across all 469 pairs:
10.370)  
  

> select #1/B

7658 atoms, 7706 bonds, 2 pseudobonds, 481 residues, 2 models selected  

> select clear

> select #1/B

7658 atoms, 7706 bonds, 2 pseudobonds, 481 residues, 2 models selected  

> open
> /sbdata/EM/projects/jawong/2023-07-06_jawong_SMCHexWB_72bp_100nMCC/Refine3D/job339/feature_enhanced_prediction.mrc

Opened feature_enhanced_prediction.mrc as #3, grid size 168,168,168, pixel
1.75, shown at level 0.054, step 1, values float32  

> volume #3 level 0.1388

> select add #3

7658 atoms, 7706 bonds, 2 pseudobonds, 481 residues, 4 models selected  

> select clear

> ui mousemode right "translate selected models"

> select add #3

2 models selected  

> view matrix models #3,1,0,0,75.01,0,1,0,211.6,0,0,1,132.47

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.58509,-0.76857,-0.25879,292.36,0.34089,-0.056474,0.93841,193.54,-0.73585,-0.63727,0.22896,448.92

> view matrix models
> #3,0.0069603,-0.62674,-0.7792,429.41,0.065782,-0.77724,0.62575,390.1,-0.99781,-0.055613,0.035818,424.81

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.0069603,-0.62674,-0.7792,527.76,0.065782,-0.77724,0.62575,409.81,-0.99781,-0.055613,0.035818,461.81

> view matrix models
> #3,0.0069603,-0.62674,-0.7792,551.74,0.065782,-0.77724,0.62575,365.51,-0.99781,-0.055613,0.035818,462.44

> view matrix models
> #3,0.0069603,-0.62674,-0.7792,552.75,0.065782,-0.77724,0.62575,363.46,-0.99781,-0.055613,0.035818,461.88

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.28206,-0.88684,-0.366,494.3,0.065376,-0.36283,0.92956,256.84,-0.95717,-0.28612,-0.044363,502.75

> vop flip #3

Opened feature_enhanced_prediction.mrc z flip as #4, grid size 168,168,168,
pixel 1.75, shown at step 1, values float32  

> select clear

> select add #4

2 models selected  

> ui mousemode right "translate selected models"

> ui mousemode right "rotate selected models"

> view matrix models
> #4,-0.20437,0.78579,-0.58376,340.95,0.3632,-0.49291,-0.79065,496.2,-0.90902,-0.37361,-0.18466,530.63

> ui mousemode right "translate selected models"

> view matrix models
> #4,-0.20437,0.78579,-0.58376,338.48,0.3632,-0.49291,-0.79065,480.88,-0.90902,-0.37361,-0.18466,533.18

> ui mousemode right "rotate selected models"

> view matrix models
> #4,-0.28733,0.7029,-0.65067,373.99,0.15184,-0.6373,-0.75551,529.48,-0.94572,-0.31588,0.076387,489.7

> view matrix models
> #4,-0.40317,0.85828,-0.3175,316.14,0.055151,-0.32353,-0.94461,524.25,-0.91346,-0.39835,0.083104,496.64

> view matrix models
> #4,-0.25264,0.89593,-0.36536,295.13,0.048084,-0.36552,-0.92956,529.51,-0.96636,-0.25242,0.049266,487.1

> hide #!4 models

> show #!3 models

> select clear

> select add #3

2 models selected  

> view matrix models
> #3,0.27774,-0.88143,-0.38202,496.34,0.071168,-0.37769,0.92319,259.17,-0.95802,-0.2836,-0.042171,502.18

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.27774,-0.88143,-0.38202,496.18,0.071168,-0.37769,0.92319,258.76,-0.95802,-0.2836,-0.042171,503.74

> ui tool show "Fit in Map"

> fitmap #1 inMap #3

Fit molecule 8wjn (#1) to map feature_enhanced_prediction.mrc (#3) using 29655
atoms  
average map value = 0.09002, steps = 108  
shifted from previous position = 12.5  
rotated from previous position = 16.4 degrees  
atoms outside contour = 24407, contour level = 0.13879  
  
Position of 8wjn (#1) relative to feature_enhanced_prediction.mrc (#3)
coordinates:  
Matrix rotation and translation  
0.13037527 0.27136194 -0.95360627 303.25731276  
-0.82252970 -0.50741895 -0.25684785 683.44862309  
-0.55357665 0.81785612 0.15704837 4.24216501  
Axis 0.67812951 -0.25241545 -0.69023677  
Axis point 400.09906621 240.13222139 0.00000000  
Rotation angle (degrees) 127.58933467  
Shift along axis 30.20663973  
  

> fitmap #2 inMap #3

Fit molecule fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif (#2) to
map feature_enhanced_prediction.mrc (#3) using 4818 atoms  
average map value = 0.06077, steps = 92  
shifted from previous position = 9.24  
rotated from previous position = 6.47 degrees  
atoms outside contour = 4416, contour level = 0.13879  
  
Position of fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif (#2)
relative to feature_enhanced_prediction.mrc (#3) coordinates:  
Matrix rotation and translation  
0.41669618 -0.45656571 -0.78607377 163.09263757  
0.06714597 -0.84690325 0.52749050 139.63071068  
-0.90656254 -0.27258497 -0.32224481 162.99922460  
Axis -0.83012524 0.12501416 0.54338159  
Axis point -0.00000000 109.78056986 112.70890448  
Rotation angle (degrees) 151.19040115  
Shift along axis -29.36072040  
  

> mmaker #2/A to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 8wjn, chain B (#1) with
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif, chain A (#2), sequence
alignment score = 4522.2  
RMSD between 128 pruned atom pairs is 1.172 angstroms; (across all 469 pairs:
10.370)  
  

> select clear

> set bgColor white

> lighting simple

> volume #3 level 0.108

> close #4

> hide #!3 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> show #!3 models

> hide #!3 models

> show #!3 models

> hide #!3 models

> select clear

Drag select of 1 residues  

> select #2/A:1103

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #2/A:1103-1158

463 atoms, 473 bonds, 56 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select #2/A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> show #!3 models

> select #2/A:1-72

577 atoms, 582 bonds, 72 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> mmaker #2/A to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 8wjn, chain B (#1) with
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif, chain A (#2), sequence
alignment score = 4519.8  
RMSD between 128 pruned atom pairs is 1.172 angstroms; (across all 467 pairs:
10.390)  
  

> hide #!3 models

> show #!3 models

> hide #!3 models

> show #!3 models

> hide #!3 models

> select #1/B

7658 atoms, 7706 bonds, 2 pseudobonds, 481 residues, 2 models selected  

> delete atoms (#!1 & sel)

> delete bonds (#!1 & sel)

> combine #1 #2

Remapping chain ID 'A' in
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2 to 'B'  

> hide #!1 models

> hide #!4 models

> show #!4 models

> hide #!4 models

> show #!4 models

> hide #!2 models

> hide #!4 models

> show #!4 models

> show #!3 models

> addh

Summary of feedback from adding hydrogens to multiple structures  
---  
warnings | Not adding hydrogens to 8wjn #1/F THR 141 CB because it is missing
heavy-atom bond partners  
Not adding hydrogens to 8wjn #1/H SER 245 CB because it is missing heavy-atom
bond partners  
Not adding hydrogens to combination #4/F THR 141 CB because it is missing
heavy-atom bond partners  
Not adding hydrogens to combination #4/H SER 245 CB because it is missing
heavy-atom bond partners  
notes | Termini for 8wjn (#1) chain A determined from SEQRES records  
Termini for 8wjn (#1) chain F determined from SEQRES records  
Termini for 8wjn (#1) chain G determined from SEQRES records  
Termini for 8wjn (#1) chain H determined from SEQRES records  
Chain-initial residues that are actual N termini:  
Chain-initial residues that are not actual N termini: 8wjn #1/A PRO 32, 8wjn
#1/A GLN 268, 8wjn #1/A VAL 821, 8wjn #1/F PRO 11, 8wjn #1/F ASP 117, 8wjn
#1/G ASP 11, 8wjn #1/G GLU 114, 8wjn #1/H SER 39, 8wjn #1/H THR 199, 8wjn #1/H
CYS 292  
Chain-final residues that are actual C termini: 8wjn #1/F ILE 336, 8wjn #1/G
ILE 303, 8wjn #1/H ASP 402  
Chain-final residues that are not actual C termini: 8wjn #1/A GLY 261, 8wjn
#1/A ASN 283, 8wjn #1/A CYS 1065, 8wjn #1/F GLU 103, 8wjn #1/G MET 97, 8wjn
#1/H ASP 159, 8wjn #1/H ILE 246  
Missing OXT added to C-terminal residue 8wjn #1/F ILE 336  
942 hydrogen bonds  
8wjn #1/A CYS 1065 is not terminus, removing H atom from 'C'  
Termini for fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif (#2) chain
A determined from SEQRES records  
Chain-initial residues that are actual N termini:  
Chain-initial residues that are not actual N termini:
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A PHE 73,
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ILE 872  
Chain-final residues that are actual C termini:  
Chain-final residues that are not actual C termini:
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A VAL 316,
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ARG 1102  
452 hydrogen bonds  
Adding 'H' to fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A PHE
73  
Adding 'H' to fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ILE
872  
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ARG 1102 is not
terminus, removing H atom from 'C'  
Termini for combination (#4) chain A determined from SEQRES records  
Termini for combination (#4) chain F determined from SEQRES records  
Termini for combination (#4) chain G determined from SEQRES records  
Termini for combination (#4) chain H determined from SEQRES records  
Termini for combination (#4) chain B determined from SEQRES records  
Chain-initial residues that are actual N termini:  
Chain-initial residues that are not actual N termini: combination #4/A PRO 32,
combination #4/A GLN 268, combination #4/A VAL 821, combination #4/F PRO 11,
combination #4/F ASP 117, combination #4/G ASP 11, combination #4/G GLU 114,
combination #4/H SER 39, combination #4/H THR 199, combination #4/H CYS 292,
combination #4/B PHE 73, combination #4/B ILE 872  
Chain-final residues that are actual C termini: combination #4/F ILE 336,
combination #4/G ILE 303, combination #4/H ASP 402  
Chain-final residues that are not actual C termini: combination #4/A GLY 261,
combination #4/A ASN 283, combination #4/A CYS 1065, combination #4/F GLU 103,
combination #4/G MET 97, combination #4/H ASP 159, combination #4/H ILE 246,
combination #4/B VAL 316, combination #4/B ARG 1102  
Missing OXT added to C-terminal residue combination #4/F ILE 336  
1403 hydrogen bonds  
Adding 'H' to combination #4/B PHE 73  
Adding 'H' to combination #4/B ILE 872  
combination #4/A CYS 1065 is not terminus, removing H atom from 'C'  
combination #4/B ARG 1102 is not terminus, removing H atom from 'C'  
7702 hydrogens added  
  

> isolde start

> set selectionWidth 4

Done loading forcefield  

> isolde set simFidelityMode Highest/Slowest

ISOLDE: setting sim fidelity mode to Highest/Slowest  
nonbonded_cutoff_distance = 1.700000  
use_gbsa = True  
gbsa_cutoff = 2.000000  
ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  
ISOLDE: Corrected atom nomenclature of 177 residues in model #4 to IUPAC-IUB
standards.  

> clipper associate #3 toModel #4

Opened feature_enhanced_prediction.mrc as #4.1.1.1, grid size 168,168,168,
pixel 1.75, shown at step 1, values float32  
/home/ms/jawong/.local/share/ChimeraX/1.7/lib/python3.11/site-
packages/chimerax/isolde/molobject.py:2052: RuntimeWarning: divide by zero
encountered in scalar divide  
self.global_k = scaling_constant/ref_g  

> volume #4.1.1.1 level 0.04444

> volume #4.1.1.1 level 0.04912

> volume #4.1.1.1 level -0.07953

> volume #4.1.1.1 level 0.4842

> volume #4.1.1.1 style mesh

> volume #4.1.1.1 level 0.1146

3 models selected  

> volume #4.1.1.1 level -0.3602

> close #4

> show #!2 models

> show #!1 models

> combine #1 #2

Remapping chain ID 'A' in
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2 to 'B'  

> hide #!1 models

> hide #!2 models

> hide #!3 models

> show #!3 models

> addh

Summary of feedback from adding hydrogens to multiple structures  
---  
warnings | Not adding hydrogens to 8wjn #1/F THR 141 CB because it is missing
heavy-atom bond partners  
Not adding hydrogens to 8wjn #1/H SER 245 CB because it is missing heavy-atom
bond partners  
Not adding hydrogens to combination #3/F THR 141 CB because it is missing
heavy-atom bond partners  
Not adding hydrogens to combination #3/H SER 245 CB because it is missing
heavy-atom bond partners  
notes | Termini for 8wjn (#1) chain A determined from SEQRES records  
Termini for 8wjn (#1) chain F determined from SEQRES records  
Termini for 8wjn (#1) chain G determined from SEQRES records  
Termini for 8wjn (#1) chain H determined from SEQRES records  
Chain-initial residues that are actual N termini:  
Chain-initial residues that are not actual N termini: 8wjn #1/A PRO 32, 8wjn
#1/A GLN 268, 8wjn #1/A VAL 821, 8wjn #1/F PRO 11, 8wjn #1/F ASP 117, 8wjn
#1/G ASP 11, 8wjn #1/G GLU 114, 8wjn #1/H SER 39, 8wjn #1/H THR 199, 8wjn #1/H
CYS 292  
Chain-final residues that are actual C termini: 8wjn #1/F ILE 336, 8wjn #1/G
ILE 303, 8wjn #1/H ASP 402  
Chain-final residues that are not actual C termini: 8wjn #1/A GLY 261, 8wjn
#1/A ASN 283, 8wjn #1/A CYS 1065, 8wjn #1/F GLU 103, 8wjn #1/G MET 97, 8wjn
#1/H ASP 159, 8wjn #1/H ILE 246  
942 hydrogen bonds  
8wjn #1/A CYS 1065 is not terminus, removing H atom from 'C'  
Termini for fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif (#2) chain
A determined from SEQRES records  
Chain-initial residues that are actual N termini:  
Chain-initial residues that are not actual N termini:
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A PHE 73,
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ILE 872  
Chain-final residues that are actual C termini:  
Chain-final residues that are not actual C termini:
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A VAL 316,
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ARG 1102  
437 hydrogen bonds  
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2/A ARG 1102 is not
terminus, removing H atom from 'C'  
Termini for combination (#3) chain A determined from SEQRES records  
Termini for combination (#3) chain F determined from SEQRES records  
Termini for combination (#3) chain G determined from SEQRES records  
Termini for combination (#3) chain H determined from SEQRES records  
Termini for combination (#3) chain B determined from SEQRES records  
Chain-initial residues that are actual N termini:  
Chain-initial residues that are not actual N termini: combination #3/A PRO 32,
combination #3/A GLN 268, combination #3/A VAL 821, combination #3/F PRO 11,
combination #3/F ASP 117, combination #3/G ASP 11, combination #3/G GLU 114,
combination #3/H SER 39, combination #3/H THR 199, combination #3/H CYS 292,
combination #3/B PHE 73, combination #3/B ILE 872  
Chain-final residues that are actual C termini: combination #3/F ILE 336,
combination #3/G ILE 303, combination #3/H ASP 402  
Chain-final residues that are not actual C termini: combination #3/A GLY 261,
combination #3/A ASN 283, combination #3/A CYS 1065, combination #3/F GLU 103,
combination #3/G MET 97, combination #3/H ASP 159, combination #3/H ILE 246,
combination #3/B VAL 316, combination #3/B ARG 1102  
1384 hydrogen bonds  
combination #3/A CYS 1065 is not terminus, removing H atom from 'C'  
combination #3/B ARG 1102 is not terminus, removing H atom from 'C'  
0 hydrogens added  
  

> open
> /sbdata/EM/projects/jawong/2023-07-06_jawong_SMCHexWB_72bp_100nMCC/Refine3D/job339/feature_enhanced_prediction.mrc

Opened feature_enhanced_prediction.mrc as #4, grid size 168,168,168, pixel
1.75, shown at level 0.054, step 1, values float32  

> volume #4 level 0.06394

> select add #4

3 models selected  

> view matrix models #4,1,0,0,-1.7989,0,1,0,218.93,0,0,1,137.07

> view matrix models #4,1,0,0,162.41,0,1,0,162.68,0,0,1,148.38

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.20907,-0.809,-0.54936,478.77,0.06931,-0.54811,0.83353,276.66,-0.97544,-0.21235,-0.058522,469.8

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.20907,-0.809,-0.54936,480.72,0.06931,-0.54811,0.83353,279.26,-0.97544,-0.21235,-0.058522,503.09

> volume #4 level 0.1088

> view matrix models
> #4,0.20907,-0.809,-0.54936,520.56,0.06931,-0.54811,0.83353,284.16,-0.97544,-0.21235,-0.058522,496.79

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.37661,-0.87752,-0.29687,471.01,0.04882,-0.30122,0.95231,232.41,-0.92509,-0.37314,-0.0706,515.88

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.37661,-0.87752,-0.29687,467.96,0.04882,-0.30122,0.95231,249.21,-0.92509,-0.37314,-0.0706,517.18

> select clear

> ui tool show "Fit in Map"

> fitmap #3 inMap #4

Fit molecule combination (#3) to map feature_enhanced_prediction.mrc (#4)
using 29627 atoms  
average map value = 0.08711, steps = 76  
shifted from previous position = 2.81  
rotated from previous position = 7.49 degrees  
atoms outside contour = 19873, contour level = 0.10878  
  
Position of combination (#3) relative to feature_enhanced_prediction.mrc (#4)
coordinates:  
Matrix rotation and translation  
0.13594033 0.26821106 -0.95372064 302.48263101  
-0.81813768 -0.51250641 -0.26074490 685.04567605  
-0.55872261 0.81572054 0.14976329 8.85394414  
Axis 0.68150453 -0.25007114 -0.68776159  
Axis point 401.97299257 240.23990551 0.00000000  
Rotation angle (degrees) 127.83585485  
Shift along axis 28.74372364  
  

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  
ISOLDE: Corrected atom nomenclature of 177 residues in model #3 to IUPAC-IUB
standards.  

> clipper associate #4 toModel #3

Opened feature_enhanced_prediction.mrc as #3.1.1.1, grid size 168,168,168,
pixel 1.75, shown at step 1, values float32  

> volume #3.1.1.1 level 0.0006085

> volume #3.1.1.1 level 0.005172

> select clear

> volume #3.1.1.1 level -0.03225

> volume #3.1.1.1 style mesh

> volume #3.1.1.1 level 0.09406

> hide #!3.1 models

> show #!3.1 models

> volume #3.1.1.1 level 0.05429

> close #3

> combine #1 #2

Remapping chain ID 'A' in
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2 to 'B'  

> open
> /sbdata/EM/projects/jawong/2023-07-06_jawong_SMCHexWB_72bp_100nMCC/Refine3D/job339/feature_enhanced_prediction.mrc

Opened feature_enhanced_prediction.mrc as #4, grid size 168,168,168, pixel
1.75, shown at level 0.054, step 1, values float32  

> volume #4 level 0.02771

> select add #3

29627 atoms, 29845 bonds, 7 pseudobonds, 1836 residues, 2 models selected  

> view matrix models
> #3,0.97269,0.21019,-0.098458,-93.238,-0.19112,0.966,0.17413,111.71,0.13171,-0.15056,0.97979,-60.715

> view matrix models
> #3,0.97269,0.21019,-0.098458,-178.4,-0.19112,0.966,0.17413,-168.34,0.13171,-0.15056,0.97979,-122.52

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.069039,0.3196,-0.94503,351.01,0.58447,0.75474,0.29794,-397.66,0.80847,-0.57291,-0.13469,133.84

> volume #4 level 0.06757

> view matrix models
> #3,0.030168,0.16838,-0.98526,428.58,-0.87279,0.48486,0.056139,265.37,0.48717,0.85823,0.16159,-339.81

> view matrix models
> #3,-0.071664,0.42925,-0.90034,347.5,-0.95145,-0.30033,-0.067455,600.09,-0.29936,0.85179,0.42993,-152.05

> ui mousemode right "translate selected models"

> view matrix models
> #3,-0.071664,0.42925,-0.90034,302.94,-0.95145,-0.30033,-0.067455,606.52,-0.29936,0.85179,0.42993,-166.11

> view matrix models
> #3,-0.071664,0.42925,-0.90034,298.33,-0.95145,-0.30033,-0.067455,604.31,-0.29936,0.85179,0.42993,-163.21

> volume #4 level 0.1002

> ui mousemode right "rotate selected models"

> view matrix models
> #3,-0.15179,0.10179,-0.98316,463.61,0.43828,0.89848,0.02536,-309.59,0.88593,-0.42705,-0.181,60.322

> view matrix models
> #3,0.0078634,0.20171,-0.97941,373.74,-0.70777,-0.69078,-0.14794,680.31,-0.7064,0.69436,0.13733,119.17

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.0078634,0.20171,-0.97941,376.34,-0.70777,-0.69078,-0.14794,683.68,-0.7064,0.69436,0.13733,113.54

> fitmap #3 inMap #4

Fit molecule combination (#3) to map feature_enhanced_prediction.mrc (#4)
using 29627 atoms  
average map value = 0.08711, steps = 92  
shifted from previous position = 12  
rotated from previous position = 13.8 degrees  
atoms outside contour = 18283, contour level = 0.10017  
  
Position of combination (#3) relative to feature_enhanced_prediction.mrc (#4)
coordinates:  
Matrix rotation and translation  
0.13592973 0.26826798 -0.95370614 302.45859430  
-0.81816204 -0.51245952 -0.26076065 685.04182147  
-0.55868952 0.81573129 0.14982820 8.82396220  
Axis 0.68148738 -0.25007047 -0.68777882  
Axis point 401.95836569 240.24628633 0.00000000  
Rotation angle (degrees) 127.83218346  
Shift along axis 28.74405175  
  
ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  
ISOLDE: Corrected atom nomenclature of 177 residues in model #3 to IUPAC-IUB
standards.  

> clipper associate #4 toModel #3

Opened feature_enhanced_prediction.mrc as #3.1.1.1, grid size 168,168,168,
pixel 1.75, shown at step 1, values float32  

> volume #3.1.1.1 style surface

> volume #3.1.1.1 level 3.056e-05

> volume #3.1.1.1 level 5.168e-06

> volume #3.1.1.1 level 0.0001024

> volume #3.1.1.1 level 4.29e-05

> volume #3.1.1.1 level -4.127e-05

> volume #3.1.1.1 level 3.564e-05

> volume #3.1.1.1 level 4.943e-05

> close #3

> combine #1 #2

Remapping chain ID 'A' in
fold_2025_07_28_17_30_scsmc6cbp_smc5nse134_model_0.cif #2 to 'B'  

> open
> /sbdata/EM/projects/jawong/2023-07-06_jawong_SMCHexWB_72bp_100nMCC/Refine3D/job339/feature_enhanced_prediction.mrc

Opened feature_enhanced_prediction.mrc as #4, grid size 168,168,168, pixel
1.75, shown at level 0.054, step 1, values float32  

> volume #4 level 0.1061

> hide #!3 models

> show #!3 models

> ui mousemode right "rotate selected models"

> ui mousemode right "translate selected models"

> select add #3

29627 atoms, 29845 bonds, 7 pseudobonds, 1836 residues, 2 models selected  

> view matrix models
> #3,0.97269,0.21019,-0.098458,-269.33,-0.19112,0.966,0.17413,-33.33,0.13171,-0.15056,0.97979,-62.024

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.0793,0.15014,-0.98548,327.27,-0.92154,0.38799,-0.015045,472.11,0.3801,0.90935,0.16913,-262.75

> view matrix models
> #3,0.27582,0.23198,-0.9328,216.07,-0.83453,-0.42374,-0.35214,824.98,-0.47695,0.87558,0.076715,68.962

> fitmap #3 inMap #4

Fit molecule combination (#3) to map feature_enhanced_prediction.mrc (#4)
using 29627 atoms  
average map value = 0, steps = 24  
shifted from previous position = 0  
rotated from previous position = 0 degrees  
atoms outside contour = 29627, contour level = 0.10606  
  
Position of combination (#3) relative to feature_enhanced_prediction.mrc (#4)
coordinates:  
Matrix rotation and translation  
0.27582087 0.23197605 -0.93279684 216.07059760  
-0.83453020 -0.42373871 -0.35214322 824.97857168  
-0.47695093 0.87557559 0.07671504 68.96225600  
Axis 0.72691598 -0.26990030 -0.63146416  
Axis point 0.00000000 452.58646998 429.24494345  
Rotation angle (degrees) 122.38470621  
Shift along axis -109.14399089  
  

> ui mousemode right "rotate selected models"

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.27582,0.23198,-0.9328,201.5,-0.83453,-0.42374,-0.35214,822.65,-0.47695,0.87558,0.076715,62.11

> fitmap #3 inMap #4

Fit molecule combination (#3) to map feature_enhanced_prediction.mrc (#4)
using 29627 atoms  
average map value = 0, steps = 24  
shifted from previous position = 0  
rotated from previous position = 0 degrees  
atoms outside contour = 29627, contour level = 0.10606  
  
Position of combination (#3) relative to feature_enhanced_prediction.mrc (#4)
coordinates:  
Matrix rotation and translation  
0.27582087 0.23197605 -0.93279684 201.49967777  
-0.83453020 -0.42373871 -0.35214322 822.65251046  
-0.47695093 0.87557559 0.07671504 62.11015118  
Axis 0.72691598 -0.26990030 -0.63146416  
Axis point 0.00000000 452.65675696 418.03471562  
Rotation angle (degrees) 122.38470621  
Shift along axis -114.78116204  
  

> view matrix models
> #3,0.27582,0.23198,-0.9328,271.08,-0.83453,-0.42374,-0.35214,714.49,-0.47695,0.87558,0.076715,-45.808

> view matrix models
> #3,0.27582,0.23198,-0.9328,259.23,-0.83453,-0.42374,-0.35214,697.03,-0.47695,0.87558,0.076715,-14.187

> fitmap #3 inMap #4

Fit molecule combination (#3) to map feature_enhanced_prediction.mrc (#4)
using 29627 atoms  
average map value = 0.08711, steps = 84  
shifted from previous position = 11.4  
rotated from previous position = 9.37 degrees  
atoms outside contour = 19369, contour level = 0.10606  
  
Position of combination (#3) relative to feature_enhanced_prediction.mrc (#4)
coordinates:  
Matrix rotation and translation  
0.13595739 0.26829844 -0.95369362 302.43190641  
-0.81818016 -0.51241368 -0.26079385 685.04349595  
-0.55865624 0.81575006 0.14985004 8.79382717  
Axis 0.68148835 -0.25007189 -0.68777735  
Axis point 401.95020011 240.25454163 0.00000000  
Rotation angle (degrees) 127.82872573  
Shift along axis 28.74550237  
  

> select #3/B

7625 atoms, 7673 bonds, 1 pseudobond, 475 residues, 2 models selected  

> setattr #3/B c description "Structural maintenance of chromosomes protein 6"
> create true

Assigning description attribute to 1 item  

> save /home/ms/jawong/Desktop/ApoHexDNAheadinital.cif models #3

> close #3

> open /home/ms/jawong/Desktop/ApoHexDNAheadinital.cif

Chain information for ApoHexDNAheadinital.cif #3  
---  
Chain | Description  
A | Structural maintenance of chromosomes protein 5  
B | Structural maintenance of chromosomes protein 6  
F | Non-structural maintenance of chromosomes element 1  
G | Non-structural maintenance of chromosome element 3  
H | Non-structural maintenance of chromosomes element 4  
  

> close #2

> close #1

> hide atoms

> show cartoons

ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  
ISOLDE: Corrected atom nomenclature of 177 residues in model #3 to IUPAC-IUB
standards.  
Chain information for ApoHexDNAheadinital.cif  
---  
Chain | Description  
1.2/A | Structural maintenance of chromosomes protein 5  
1.2/B | Structural maintenance of chromosomes protein 6  
1.2/F | Non-structural maintenance of chromosomes element 1  
1.2/G | Non-structural maintenance of chromosome element 3  
1.2/H | Non-structural maintenance of chromosomes element 4  
  

> clipper associate #4 toModel #1

Opened feature_enhanced_prediction.mrc as #1.1.1.1, grid size 168,168,168,
pixel 1.75, shown at step 1, values float32  

> volume #1.1.1.1 level 8.464e-06

> volume #1.1.1.1 level 0.04348

> volume #1.1.1.1 style surface

> volume #1.1.1.1 level 0.1082

> select clear

s1:
MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLINDYQVSESVVKTLVAQLNIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQSWMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD  
s2:
MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLINDYQVSESVVKTLVAQLNIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQSWMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD  
s1:
.......................................................................MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYI...DARDETIKITRIITRSKRRSDYLINDYQVSESVVKTLVAQL............NIQLDNLCQFLSQERVEEFARL....KSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQSWMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD  
s2:
MEVHEEQVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLLGYKIIRINHGIG...RNAVTLKAKQNFESFEDNTAIRAHNNDYA..VLQSIVLPESNRFFVYVNLASTEETKLATRF...NQNEIEFMKWAIEQFMISGETIVEGP.ALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGE...NSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s1:
.........................................MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSS.FQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFI........KNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLIND..YQVSESVVKTLVAQL..NIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQSWMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD  
s2:
MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSIITRNKLQSVIHEAAREE......NIAKPSFSKMFMDINAILYNVYGFELQGLPSKN.....NMNAGGNGSNSNT........NKSMPEPLGH..RAQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGEYIG..DDIASGTSNTLESKLSTD...RDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDG..SKIAILNITIEDLIKSLEKR.EYIVRLEEKSDTDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTK.SLHDDIIK..SIGDSYSI............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s1:
MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLINDYQVSESVVKTLVAQLNIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQS..WMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKL..ESEIAMVNHD.ESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD............................................................................................................................  
s2:
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MSSTVISRKRRNSTVTEPDSSG...ETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGD..IGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIAE..NRNDLTLAADEQSAADQQEESDGDI............DRTP...DDNHTDKATSSFKATSMRHSYLQQFSH.....YNEFSQFNWFRIGALY......NTISKNAP....ITDHLMGPLSIEKKPRVLTQRR....RNNDQVGEKITAEKITQHSLNSTQQETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFSRSIENLFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTWRKLIKKYNITSPFLD  
s1:
......................................MTSLIDLGRYVERTHHGEDTEPRSKR.VKIAKPD..LSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLI..NDYQVS..ESVVKTLVAQLNIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKK...KNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIG...ILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDL..GFEGYLSDFITG...DKRVMKMLCQTSKIHT.IPVSRRELT.............PAQIKKLITPRPNGKILFKRIIHGNR..LVDIKQSAYGSKQVFPTDVSI......KQTNF.....YQGSIMSNEQKIRIE.NEIINLKNEY.NDR.KSTLDALSNQKSGYRHELSELASKNDDIN.REAHQLNEIRK...KYTMRKSTI.ETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKS......QYEDKKKF....VK..EMRDTPEFQSWMREIRSYDQ.DTKEKL.NKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEK..MRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD..................................  
s2:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNT.LDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFG..NEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKG.TLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDAC............................KNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEK.EKSNQAEAQSNIDQGR..KKVDALNKTIAHLEEE...LTKEMGGDKDQMRQELEQLEK.ANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISR.SIQNKKVE..LQNIAKGNDTFLMNF....DRNMDRLLRTIEQRKNE.FETPAIG.......PLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLK....IEQIAQEAQPIK...EQYDSTKLALVEAQDELQQLKEDI...NSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGL..SQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTK....SLEIYILTTNDEKARNVDT..LSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRD....PERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s1:
MEVHEEQVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLLGYKIIRINHGIG...RNAVTLKAKQNFESFEDNTAIRAHNNDYA..VLQSIVLPESNRFFVYVNLASTEETKLATRF...NQNEIEFMKWAIEQFMISGETIVEGP.ALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGE...NSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s2:
.......................................................................MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYI...DARDETIKITRIITRSKRRSDYLINDYQVSESVVKTLVAQL............NIQLDNLCQFLSQERVEEFARL....KSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQSWMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD  
s1:
MEVHEEQVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLLGYKIIRINHGIGRNAVTLKAKQNFESFEDNTAIRAHNNDYAVLQSIVLPESNRFFVYVNLASTEETKLATRFNQNEIEFMKWAIEQFMISGETIVEGPALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s2:
MEVHEEQVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLLGYKIIRINHGIGRNAVTLKAKQNFESFEDNTAIRAHNNDYAVLQSIVLPESNRFFVYVNLASTEETKLATRFNQNEIEFMKWAIEQFMISGETIVEGPALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s1:
.........MEVHEE.QVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLLGYKIIRINHGIGRNAVTLKAKQNFESFEDNTAIRAHNNDYAVLQSIVLPESNRFFVYVNLASTEETKLATRFNQNEIEFMKWAIEQFMISGETIVEGPALETS............IIVKEVNRILVAAT..GDSNLAKWR..KF.STFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s2:
MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGES..QNS.IITRNKLQSVIHEAAREENIAK......PSFSKMFMDINAILYNVY......GFELQGLPSKNNMNA..GGNGSNSNTN.....KSMPEPLGHRAQKFILLNNVPHSK...NFDDFKILQSAHTYEELIVTGEYIGDDIASGTSNTLESKLSTDRDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDG.SKIAILNIT.IEDLIKSLEKREYIVRLEEKS.DTDGEVISYRIGRRTQAE.LG.LESLEKLVQEIMGLEKEQTKSLHDDIIK.SIGDSYSI.............................  
s1:
..........................................................................................................................MEVHEEQVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTE.......WSIQQWVDKLNDYINAINVKLNLL.............GYKIIRINHGIGRNAVTLKAKQNFESFEDNTAI...RAHNNDYAVLQSIVLPESNRFFVYVNLASTEET.........KLATRFN.QNEIEFMKWAIEQFMISGETIVEGPALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s2:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIA.ENRNDLTLAADEQSAADQQEESDGDIDRTPDDNHTDKATSSFKATSMRHSYLQQFSHYNEFSQFNWFRIGALYNTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQ.VGEKITAEKITQH..SLNSTQQETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFS..RSIEN.LFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTW..RKLIKKYNITSPFLD................................................................................  
s1:
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MEVHEEQV.SAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLL.............GY.....KIIRINHGIGRNAVTLKAK.QNFESFEDNTAIRAHNNDYAVLQ.......SIVLPESNRFFVYVNLASTEETKLATRFNQNEIEFMKWAIEQFMISGETIVEGPALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELK...WFYRTQE....GKFGIDLRCIAELEEYLTSM...YNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s2:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTLDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKGTLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFC.......SKERIE.NVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTAS.ENLYFQ........................................................  
s1:
MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSIITRNKLQSVIHEAAREE......NIAKPSFSKMFMDINAILYNVYGFELQGLPSKN.....NMNAGGNGSNSNT........NKSMPEPLGH..RAQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGEYIG..DDIASGTSNTLESKLSTD...RDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDG..SKIAILNITIEDLIKSLEKR.EYIVRLEEKSDTDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTK.SLHDDIIK..SIGDSYSI............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s2:
.........................................MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSS.FQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFI........KNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLIND..YQVSESVVKTLVAQL..NIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQSWMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD  
s1:
MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGES..QNS.IITRNKLQSVIHEAAREENIAK......PSFSKMFMDINAILYNVY......GFELQGLPSKNNMNA..GGNGSNSNTN.....KSMPEPLGHRAQKFILLNNVPHSK...NFDDFKILQSAHTYEELIVTGEYIGDDIASGTSNTLESKLSTDRDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDG.SKIAILNIT.IEDLIKSLEKREYIVRLEEKS.DTDGEVISYRIGRRTQAE.LG.LESLEKLVQEIMGLEKEQTKSLHDDIIK.SIGDSYSI.............................  
s2:
.........MEVHEE.QVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLLGYKIIRINHGIGRNAVTLKAKQNFESFEDNTAIRAHNNDYAVLQSIVLPESNRFFVYVNLASTEETKLATRFNQNEIEFMKWAIEQFMISGETIVEGPALETS............IIVKEVNRILVAAT..GDSNLAKWR..KF.STFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s1:
MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSIITRNKLQSVIHEAAREENIAKPSFSKMFMDINAILYNVYGFELQGLPSKNNMNAGGNGSNSNTNKSMPEPLGHRAQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGEYIGDDIASGTSNTLESKLSTDRDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDGSKIAILNITIEDLIKSLEKREYIVRLEEKSDTDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTKSLHDDIIKSIGDSYSI  
s2:
MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSIITRNKLQSVIHEAAREENIAKPSFSKMFMDINAILYNVYGFELQGLPSKNNMNAGGNGSNSNTNKSMPEPLGHRAQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGEYIGDDIASGTSNTLESKLSTDRDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDGSKIAILNITIEDLIKSLEKREYIVRLEEKSDTDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTKSLHDDIIKSIGDSYSI  
s1:
....................................MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSIITRNKLQSVIHEAAREENIAKPSFSKMFMDINAILYNVYGFELQGLPSKNNMNAGGNGSNSNTNKSMPEPLGHRAQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGEYIGDDIASGTSNTLESKLSTDRDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDGSKIAILNITIEDLIKSLEKREYIVRLEEKSDTDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTKSLHDDIIKSIGDSYSI................................................................................................  
s2:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRT...GDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVN......LENIVNSLKR...YMLKEHFKLNNIAENRN..DLTL..AADEQSAADQQEESDGDIDRTPDDNHTDKATSS.....FKATSMRHSYLQQFSHYNEFSQ..FNWFRIGALYNTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQVGEKI.......TAEKITQHSLNSTQQE...TTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFSRSIENLFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTWRKLIKKYNITSPFLD  
s1:
................................................................MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSII.TRNKLQSVIHEAAREENIAKPSFSKMFMDINAILYNVYGFELQGLPSKNNMNAGGNGSNSNTNKSMPEPLGHR.AQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGE..YIGDDIASG..TSNTLESKLSTDR.DLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDGSKIAILNITIEDLIKSLEKREYIVRLEEKSD.TDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTKSLHDDIIKSIGDSYSI.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s2:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTLDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHE..HFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGC.YSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTAST.....SQDKYSHFMKGTL......LQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s1:
...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MSSTVISRKRRNSTVTEPDSSG...ETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGD..IGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIAE..NRNDLTLAADEQSAADQQEESDGDI............DRTP...DDNHTDKATSSFKATSMRHSYLQQFSH.....YNEFSQFNWFRIGALY......NTISKNAP....ITDHLMGPLSIEKKPRVLTQRR....RNNDQVGEKITAEKITQHSLNSTQQETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFSRSIENLFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTWRKLIKKYNITSPFLD  
s2:
MTSLIDLGRYVERTHHGEDTEPRSKRVKIAKPDLSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLINDYQVSESVVKTLVAQLNIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIGILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDLGFEGYLSDFITGDKRVMKMLCQTSKIHTIPVSRRELTPAQIKKLITPRPNGKILFKRIIHGNRLVDIKQSAYGSKQVFPTDVSIKQTNFYQGSIMSNEQKIRIENEIINLKNEYNDRKSTLDALSNQKSGYRHELSELASKNDDINREAHQLNEIRKKYTMRKSTIETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKSQYEDKKKFVKEMRDTPEFQS..WMREIRSYDQDTKEKLNKVAEKYEEEGNFNLSFVQDVLDKL..ESEIAMVNHD.ESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEKMRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD............................................................................................................................  
s1:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIA.ENRNDLTLAADEQSAADQQEESDGDIDRTPDDNHTDKATSSFKATSMRHSYLQQFSHYNEFSQFNWFRIGALYNTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQ.VGEKITAEKITQH..SLNSTQQETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFS..RSIEN.LFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTW..RKLIKKYNITSPFLD................................................................................  
s2:
..........................................................................................................................MEVHEEQVSAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTE.......WSIQQWVDKLNDYINAINVKLNLL.............GYKIIRINHGIGRNAVTLKAKQNFESFEDNTAI...RAHNNDYAVLQSIVLPESNRFFVYVNLASTEET.........KLATRFN.QNEIEFMKWAIEQFMISGETIVEGPALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELKWFYRTQEGKFGIDLRCIAELEEYLTSMYNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s1:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRT...GDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVN......LENIVNSLKR...YMLKEHFKLNNIAENRN..DLTL..AADEQSAADQQEESDGDIDRTPDDNHTDKATSS.....FKATSMRHSYLQQFSHYNEFSQ..FNWFRIGALYNTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQVGEKI.......TAEKITQHSLNSTQQE...TTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFSRSIENLFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTWRKLIKKYNITSPFLD  
s2:
....................................MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSIITRNKLQSVIHEAAREENIAKPSFSKMFMDINAILYNVYGFELQGLPSKNNMNAGGNGSNSNTNKSMPEPLGHRAQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGEYIGDDIASGTSNTLESKLSTDRDLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDGSKIAILNITIEDLIKSLEKREYIVRLEEKSDTDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTKSLHDDIIKSIGDSYSI................................................................................................  
s1:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIAENRNDLTLAADEQSAADQQEESDGDIDRTPDDNHTDKATSSFKATSMRHSYLQQFSHYNEFSQFNWFRIGALYNTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQVGEKITAEKITQHSLNSTQQETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFSRSIENLFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTWRKLIKKYNITSPFLD  
s2:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIAENRNDLTLAADEQSAADQQEESDGDIDRTPDDNHTDKATSSFKATSMRHSYLQQFSHYNEFSQFNWFRIGALYNTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQVGEKITAEKITQHSLNSTQQETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNSFSRSIENLFYTSFLIKEGKLLMEHDEEGLPTIKIKQSISHTDSRSKEIERQRRRAAHQNHIIFQMDMPTWRKLIKKYNITSPFLD  
s1:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIAENRNDLTLAADEQSAADQQEESDGDIDRTPDDNHTDKATSSFKATSMRHSYLQQFSHYNEFSQFNWFRIGALY..NTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQVGEKITAEKITQHSLNST....QQ.....ETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNS....FSRSIEN..LFYTSFLIKEGKLLMEHDEEGLPTIK..IKQSISHT..DSRSKEIERQRRRAAH.QNHIIFQMDMPTWRKLIKKYNITSPFLD........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s2:
..........................................................................................................MISTTISGKRPIEQVD.DELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTL....DEDSGF....RSSSDVATADQDNFLEESPSGY....IKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIG...LGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKGTLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s1:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNT.LDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFG..NEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKG.TLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDAC............................KNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEK.EKSNQAEAQSNIDQGR..KKVDALNKTIAHLEEE...LTKEMGGDKDQMRQELEQLEK.ANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISR.SIQNKKVE..LQNIAKGNDTFLMNF....DRNMDRLLRTIEQRKNE.FETPAIG.......PLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLK....IEQIAQEAQPIK...EQYDSTKLALVEAQDELQQLKEDI...NSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGL..SQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTK....SLEIYILTTNDEKARNVDT..LSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRD....PERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s2:
......................................MTSLIDLGRYVERTHHGEDTEPRSKR.VKIAKPD..LSSFQPGSIIKIRLQDFVTYTLTEFNLSPSLNMIIGPNGSGKSTFVCAVCLGLAGKPEYIGRSKKVEDFIKNGQDVSKIEITLKNSPNVTDIEYIDARDETIKITRIITRSKRRSDYLI..NDYQVS..ESVVKTLVAQLNIQLDNLCQFLSQERVEEFARLKSVKLLVETIRSIDASLLDVLDELRELQGNEQSLQKDLDFKKAKIVHLRQESDKLRKSVESLRDFQNKKGEIELHSQLLPYVKVKDHKEKLNIYKEEYERAKANLRAILKDKKPFANTKKTLENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKK...KNQNEYYRGRTKKLQATIISTKEDFLRSQEILAQTHLPEKSVFEDIDIKRKEIINKEGEIRDLISEIDAKANAINHEMRSIQRQAESKTKSLTTTDKIG...ILNQDQDLKEVRDAVLMVREHPEMKDKILEPPIMTVSAINAQFAAYLAQCVDYNTSKALTVVDSDSYKLFANPILDKFKVNLRELSSADTTPPVPAETVRDL..GFEGYLSDFITG...DKRVMKMLCQTSKIHT.IPVSRRELT.............PAQIKKLITPRPNGKILFKRIIHGNR..LVDIKQSAYGSKQVFPTDVSI......KQTNF.....YQGSIMSNEQKIRIE.NEIINLKNEY.NDR.KSTLDALSNQKSGYRHELSELASKNDDIN.REAHQLNEIRK...KYTMRKSTI.ETLREKLDQLKREARKDVSQKIKDIDDQIQQLLLKQRHLLSKMASSMKSLKNCQKELISTQILQFEAQNMDVSMNDVIGFFNEREADLKS......QYEDKKKF....VK..EMRDTPEFQSWMREIRSYDQ.DTKEKL.NKVAEKYEEEGNFNLSFVQDVLDKLESEIAMVNHDESAVTILDQVTAELRELEHTVPQQSKDLETIKAKLKEDHAVLEPKLDDIVSKISARFARLFNNVGSAGAVRLEKPKDYAEWKIEIMVKFRDNAPLKKLDSHTQSGGERAVSTVLYMIALQEFTSAPFRVVDEINQGMDSRNERIVHKAMVENACAENTSQYFLITPKLLTGLHYHEK..MRIHCVMAGSWIPNPSEDPKMIHFGETSNYSFD..................................  
s1:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTLDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKGTLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFC.......SKERIE.NVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTAS.ENLYFQ........................................................  
s2:
..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MEVHEEQV.SAPVTGDATAKYLLQYILSARGICHENALILALMRLETDASTLNTEWSIQQWVDKLNDYINAINVKLNLL.............GY.....KIIRINHGIGRNAVTLKAK.QNFESFEDNTAIRAHNNDYAVLQ.......SIVLPESNRFFVYVNLASTEETKLATRFNQNEIEFMKWAIEQFMISGETIVEGPALETSIIVKEVNRILVAATGDSNLAKWRKFSTFTVGSTNLFQFQELTATDIEDLLLRLCELK...WFYRTQE....GKFGIDLRCIAELEEYLTSM...YNLNTCQNCHKLAIQGVRCGNESCREENEETGENSLSQIWHVDCFKHYITHVSKNCDRCGSSLITEGVYVI  
s1:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTLDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHE..HFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGC.YSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTAST.....SQDKYSHFMKGTL......LQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s2:
................................................................MSSIDNDSDVDLTEDLAVAKIVKENPVARKMVRYILSRGESQNSII.TRNKLQSVIHEAAREENIAKPSFSKMFMDINAILYNVYGFELQGLPSKNNMNAGGNGSNSNTNKSMPEPLGHR.AQKFILLNNVPHSKNFDDFKILQSAHTYEELIVTGE..YIGDDIASG..TSNTLESKLSTDR.DLVYKGVLSVILCIVFFSKNNILHQELIKFLETFGIPSDGSKIAILNITIEDLIKSLEKREYIVRLEEKSD.TDGEVISYRIGRRTQAELGLESLEKLVQEIMGLEKEQTKSLHDDIIKSIGDSYSI.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s1:
..........................................................................................................MISTTISGKRPIEQVD.DELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTL....DEDSGF....RSSSDVATADQDNFLEESPSGY....IKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIG...LGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKGTLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s2:
MSSTVISRKRRNSTVTEPDSSGETRKQKKSRSDEKSSSSKDGDPQLEFKVLQGYRDLESEMHKGRAQVTRTGDIGVAMDNLNAVDSLFNKVIGIKNNGLFAHDARAMVSISELAQISVRNLKFDDSRSMVNLENIVNSLKRYMLKEHFKLNNIAENRNDLTLAADEQSAADQQEESDGDIDRTPDDNHTDKATSSFKATSMRHSYLQQFSHYNEFSQFNWFRIGALY..NTISKNAPITDHLMGPLSIEKKPRVLTQRRRNNDQVGEKITAEKITQHSLNST....QQ.....ETTPEQVKKCFKKLSKKLGPEGSINLFKFIIDPNS....FSRSIEN..LFYTSFLIKEGKLLMEHDEEGLPTIK..IKQSISHT..DSRSKEIERQRRRAAH.QNHIIFQMDMPTWRKLIKKYNITSPFLD........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................  
s1:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTLDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKGTLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  
s2:
MISTTISGKRPIEQVDDELLSLTAQQENEEQQQQRKRRRHQFAPMTQFNSNTLDEDSGFRSSSDVATADQDNFLEESPSGYIKKVILRNFMCHEHFELELGSRLNFIVGNNGSGKSAILTAITIGLGAKASETNRGSSLKDLIREGCYSAKIILHLDNSKYGAYQQGIFGNEIIVERIIKRDGPASFSLRSENGKEISNKKKDIQTVVDYFSVPVSNPMCFLSQDAARSFLTASTSQDKYSHFMKGTLLQEITENLLYASAIHDSAQENMALHLENLKSLKAEYEDAKKLLRELNQTSDLNERKMLLQAKSLWIDVAHNTDACKNLENEISGIQQKVDEVTEKIRNRQEKIERYTSDGTTIEAQIDAKVIYVNEKDSEHQNARELLRDVKSRFEKEKSNQAEAQSNIDQGRKKVDALNKTIAHLEEELTKEMGGDKDQMRQELEQLEKANEKLREVNNSLVVSLQDVKNEERDIQHERESELRTISRSIQNKKVELQNIAKGNDTFLMNFDRNMDRLLRTIEQRKNEFETPAIGPLGSLVTIRKGFEKWTRSIQRAISSSLNAFVVSNPKDNRLFRDIMRSCGIRSNIPIVTYCLSQFDYSKGRAHGNYPTIVDALEFSKPEIECLFVDLSRIERIVLIEDKNEARNFLQRNPVNVNMALSLRDRRSGFQLSGGYRLDTVTYQDKIRLKVNSSSDNGTQYLKDLIEQETKELQNIRDRYEEKLSEVRSRLKEIDGRLKSTKNEMRKTNFRMTELKMNVGKVVDTGILNSKINERKNQEQAIASYEAAKEELGLKIEQIAQEAQPIKEQYDSTKLALVEAQDELQQLKEDINSRQSKIQKYKDDTIYYEDKKKVYLENIKKIEVNVAALKEGIQRQIQNACAFCSKERIENVDLPDTQEEIKRELDKVSRMIQKAEKSLGLSQEEVIALFEKCRNKYKEGQKKYMEIDEALNRLHNSLKARDQNYKNAEKGTCFDADMDFRASLKVRKFSGNLSFIKDTKSLEIYILTTNDEKARNVDTLSGGEKSFSQMALLLATWKPMRSRIIALDEFDVFMDQVNRKIGTTLIVKKLKDIARTQTIIITPQDIGKIADIDSSGVSIHRMRDPERQNNSNFYNSMEKRRWKKNFIAVSAANRFKKISSSGALDYDIPTTASENLYFQ  

"Adjust for PAE" is checked in the distance restraint options, but the
reference model has no PAE matrix assigned. This option has been ignored.  

> isolde restrain distances "#1.2/F","#1.2/G","#1.2/H","#1.2/B" templateAtoms
> "#1.2/F","#1.2/G","#1.2/H","#1.2/B" perChain false adjustForConfidence false
> useCoordinateAlignment false kappa 4.40 fallOff 2.50 groupName "Reference
> Distance Restraints"

ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  


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

Log:
Startup Messages  
---  
warnings | Replacing fetcher for 'ngff' and format OME-Zarr from OME-Zarr
bundle with that from OME-Zarr bundle  
Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with
that from NMRSTAR bundle  
  
UCSF ChimeraX version: 1.7.1 (2024-01-23)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 3.3.0 NVIDIA 535.54.03
OpenGL renderer: NVIDIA RTX A6000/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.2
Locale: en_US.UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: xcb

XDG_SESSION_TYPE=x11
DESKTOP_SESSION=gnome
XDG_SESSION_DESKTOP=gnome
XDG_CURRENT_DESKTOP=GNOME
DISPLAY=:1
Manufacturer: Supermicro
Model: M12SWA-TF
OS: CentOS Stream 8 
Architecture: 64bit ELF
Virtual Machine: none
CPU: 128 AMD Ryzen Threadripper PRO 5995WX 64-Cores
Cache Size: 512 KB
Memory:
	              total        used        free      shared  buff/cache   available
	Mem:          503Gi       456Gi       3.1Gi       186Mi        44Gi        42Gi
	Swap:         4.0Gi       4.0Gi          0B

Graphics:
	01:00.0 VGA compatible controller [0300]: NVIDIA Corporation GA102GL [RTX A6000] [10de:2230] (rev a1)	
	Subsystem: NVIDIA Corporation Device [10de:1459]	
	Kernel driver in use: nvidia

Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    asttokens: 2.4.1
    Babel: 2.14.0
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    blosc2: 2.0.0
    build: 0.10.0
    certifi: 2023.11.17
    cftime: 1.6.3
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.13
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.4.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.2
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.49.1
    ChimeraX-AtomicLibrary: 12.1.5
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3.2
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.10.5
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.3.2
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-Clipper: 0.22.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.5
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.7.1
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2
    ChimeraX-DistMonitor: 1.4
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.7.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-Label: 1.1.8
    ChimeraX-LinuxSupport: 1.0.1
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.1.6
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.1.4
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.2
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.6.1
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12.1
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.14
    ChimeraX-ModelPanel: 1.4
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.1
    ChimeraX-NRRD: 1.1
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.1
    ChimeraX-PDB: 2.7.3
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.2
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.11
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.2
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.12.4
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.2
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.33.3
    ChimeraX-uniprot: 2.3
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.3.2
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.3
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.1
    contourpy: 1.2.0
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 0.29.33
    debugpy: 1.8.0
    decorator: 5.1.1
    distro: 1.7.0
    docutils: 0.19
    executing: 2.0.1
    filelock: 3.9.0
    fonttools: 4.47.2
    funcparserlib: 2.0.0a0
    glfw: 2.6.4
    grako: 3.16.5
    h5py: 3.10.0
    html2text: 2020.1.16
    idna: 3.6
    ihm: 0.38
    imagecodecs: 2023.9.18
    imagesize: 1.4.1
    ipykernel: 6.23.2
    ipython: 8.14.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.1.1
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.2.0
    jupyter-core: 5.7.1
    jupyterlab-widgets: 3.0.9
    kiwisolver: 1.4.5
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.4
    matplotlib: 3.7.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.6.0
    netCDF4: 1.6.2
    networkx: 3.1
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.8
    numpy: 1.25.1
    openvr: 1.23.701
    packaging: 23.2
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.9.0
    pickleshare: 0.7.5
    pillow: 10.2.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 4.1.0
    prompt-toolkit: 3.0.43
    psutil: 5.9.5
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.16.1
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.2801
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2023.3.post1
    pyzmq: 25.1.2
    qtconsole: 5.4.3
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.11.1
    setuptools: 67.4.0
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.8
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.6
    sphinxcontrib-htmlhelp: 2.0.5
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.7
    sphinxcontrib-serializinghtml: 1.1.10
    stack-data: 0.6.3
    superqt: 0.5.0
    tables: 3.8.0
    tcia-utils: 1.5.1
    tifffile: 2023.7.18
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.4
    traitlets: 5.9.0
    typing-extensions: 4.9.0
    tzdata: 2023.4
    urllib3: 2.1.0
    wcwidth: 0.2.13
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.9

Change History (2)

comment:1 by Eric Pettersen, 3 months ago

Component:	Unassigned → Core
Owner:	set to Eric Pettersen
Platform:	→ all
Project:	→ ChimeraX
Status:	new → accepted
Summary:	ChimeraX bug report submission → Crash in garbage collection

comment:2 by Eric Pettersen, 3 months ago

Resolution:	→ duplicate
Status:	accepted → closed

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