id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 15829 color radial: ArrayMemoryError chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.22631 ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC) Description (Describe the actions that caused this problem to occur here) Log: Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle You can double click a model's Name or ID in the model panel to edit those fields 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 D:\\\e1004\\\e1004-painting\\\split\\\1-DNA.mrc Opened 1-DNA.mrc as #1, grid size 512,512,512, pixel 2.2, shown at level 4.73, step 2, values float32 > open D:\\\e1004\\\e1004-painting\\\split\\\2-capsid.mrc Opened 2-capsid.mrc as #2, grid size 800,800,800, pixel 1.1, shown at step 1, values float32 > open D:\\\e1004\\\e1004-painting\\\split\\\adaptor-resample.mrc Opened adaptor-resample.mrc as #3, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 > open D:\\\e1004\\\e1004-painting\\\split\\\core-resample.mrc Opened core-resample.mrc as #4, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 > open D:\\\e1004\\\e1004-painting\\\split\\\nozzle-resample.mrc Opened nozzle-resample.mrc as #5, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 > open D:\\\e1004\\\e1004-painting\\\split\\\portal-resample.mrc Opened portal-resample.mrc as #6, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 > open D:\\\e1004\\\e1004-painting\\\split\\\symmismatch_ort-6.mrc Opened symmismatch_ort-6.mrc as #7, grid size 512,512,512, pixel 2.2, shown at level 6.61, step 2, values float32 > volume #1 step 1 > lighting simple [Repeated 2 time(s)] > volume #1 level 5.145 > select add #1 2 models selected > select subtract #1 Nothing selected > hide #!1 models > show #!1 models > select add #1 2 models selected > select subtract #1 Nothing selected > ui mousemode right ""translate selected models"" [Repeated 1 time(s)] > select #1 2 models selected Drag select of 1 1-DNA.mrc > select clear > ui mousemode right translate [Repeated 1 time(s)] > ui tool show ""Fit in Map"" > ui mousemode right ""move markers"" [Repeated 1 time(s)] > ui mousemode right ""translate selected models"" [Repeated 1 time(s)] > view #1 clip false > volume #4 level 0.0001,0 level 9.001e-05,0.8 level 0,1 > ui tool show ""Volume Viewer"" > ui mousemode right ""move planes"" > volume #7 region 0,0,0,511,511,511 > ui mousemode right ""move planes"" > select #1 2 models selected > select add #4 4 models selected > select subtract #4 2 models selected > select clear > select add #5 2 models selected > select subtract #5 Nothing selected > select add #6 2 models selected > select subtract #6 Nothing selected > select add #1 2 models selected > ui mousemode right translate > ui mousemode right ""translate selected models"" > view matrix models #1,1,0,0,-8.0029,0,1,0,-2.4233,0,0,1,-2.1102 > ui mousemode right ""rotate selected models"" [Repeated 1 time(s)] > select clear > select subtract #1 Nothing selected > select add #1 2 models selected > ui mousemode right ""translate selected models"" > view matrix models #1,1,0,0,-562.03,0,1,0,-484.58,0,0,1,-605.71 > view matrix models #1,1,0,0,-570.29,0,1,0,-416.65,0,0,1,-652.4 > view matrix models #1,1,0,0,-353.31,0,1,0,-459.23,0,0,1,-679.01 > view matrix models #1,1,0,0,-365.15,0,1,0,-601.71,0,0,1,-547.58 > view matrix models #1,1,0,0,-366.71,0,1,0,-595.5,0,0,1,-570.2 > view matrix models #1,1,0,0,-416.94,0,1,0,-585.64,0,0,1,-564.04 > view matrix models #1,1,0,0,-525.42,0,1,0,-564.35,0,0,1,-550.73 > view matrix models #1,1,0,0,-527.99,0,1,0,-572.4,0,0,1,-558.78 > ui tool show ""Fit in Map"" > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.7242, correlation about mean = 0.0838, overlap = 2.143e+07 steps = 120, shift = 15.3, angle = 3.75 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99942452 -0.03218073 -0.01072559 -511.10914604 0.03153000 0.99792513 -0.05613638 -548.19493782 0.01250985 0.05576589 0.99836550 -586.65819047 Axis 0.85521157 -0.17757650 0.48690837 Axis point 0.00000000 4710.07774815 -11917.86223585 Rotation angle (degrees) 3.75118326 Shift along axis -625.40869727 > ui mousemode right clip > select add #1 3 models selected > select add #7 6 models selected > select clear > ui mousemode right ""clip rotate"" > select add #1 2 models selected > ui mousemode right ""translate selected models"" > view matrix models > #1,0.99942,-0.032181,-0.010726,-537.31,0.03153,0.99793,-0.056136,-531.94,0.01251,0.055766,0.99837,-585.54 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.7225, correlation about mean = 0.09318, overlap = 2.14e+07 steps = 132, shift = 12.4, angle = 3.84 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99852271 -0.02704277 0.04712847 -565.39713549 0.02814793 0.99934037 -0.02294608 -539.35586843 -0.04647685 0.02423875 0.99862525 -535.83490424 Axis 0.39829594 0.79013982 0.46587490 Axis point -2624.87681695 0.00000000 4300.10163779 Rotation angle (degrees) 3.39581091 Shift along axis -900.99395853 > select subtract #1 Nothing selected > select add #1 2 models selected > view matrix models > #1,0.99852,-0.027043,0.047128,-569.79,0.028148,0.99934,-0.022946,-563.45,-0.046477,0.024239,0.99863,-541.42 > view matrix models > #1,0.99852,-0.027043,0.047128,-587.29,0.028148,0.99934,-0.022946,-557.39,-0.046477,0.024239,0.99863,-553.76 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.9492, correlation about mean = 0.5316, overlap = 3.681e+07 steps = 112, shift = 16.3, angle = 3.39 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99999998 0.00005743 0.00018712 -563.35207183 -0.00005743 1.00000000 -0.00001883 -563.14742170 -0.00018712 0.00001882 0.99999998 -563.10656225 Axis 0.09575831 0.95159641 -0.29205242 Axis point -3673564.36008043 0.00000000 2792635.04800143 Rotation angle (degrees) 0.01126635 Shift along axis -425.37807404 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.9492, correlation about mean = 0.5317, overlap = 3.68e+07 steps = 36, shift = 0.0089, angle = 0.000998 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99999998 0.00005876 0.00020406 -563.36719616 -0.00005876 1.00000000 -0.00001500 -563.14147451 -0.00020406 0.00001499 0.99999998 -563.09346618 Axis 0.07042835 0.95856303 -0.27603761 Axis point -3333325.40551828 0.00000000 2614068.44015316 Rotation angle (degrees) 0.01219722 Shift along axis -424.04864663 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.9493, correlation about mean = 0.5317, overlap = 3.679e+07 steps = 28, shift = 0.0255, angle = 0.00162 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99999997 0.00005843 0.00022376 -563.38132423 -0.00005843 1.00000000 0.00000529 -563.15553394 -0.00022376 -0.00000530 0.99999997 -563.04574764 Axis -0.02288627 0.96730072 -0.25259756 Axis point -2956453.58935019 0.00000000 2557319.31902114 Rotation angle (degrees) 0.01325374 Shift along axis -389.62308052 > select subtract #1 Nothing selected > ui mousemode right clip > volume #7 level 3 > ui mousemode right ""clip rotate"" [Repeated 1 time(s)] > select add #2 2 models selected > volume #2 level 0.0003141,0 level 0.804,0.8 level 3.836,1 > volume #2 region 0,0,0,799,799,799 step 4 [Repeated 1 time(s)] > volume #2 step 1 > ui mousemode right ""translate selected models"" > view matrix models #2,1,0,0,22.108,0,1,0,32.28,0,0,1,-213.55 > ui mousemode right ""rotate selected models"" > select add #2 3 models selected > select subtract #2 Nothing selected > select add #2 3 models selected > view matrix models > #2,0.99999,0.00074153,-0.0049463,23.964,-0.0007919,0.99995,-0.010189,37.134,0.0049384,0.010193,0.99994,-220.18 > view matrix models > #2,0.99982,0.0025391,-0.018746,29.318,-0.0032597,0.99925,-0.03851,50.987,0.018634,0.038565,0.99908,-238.31 > ui mousemode right ""translate selected models"" > view matrix models > #2,0.99982,0.0025391,-0.018746,2.6708,-0.0032597,0.99925,-0.03851,-15.756,0.018634,0.038565,0.99908,-162.25 > view matrix models > #2,0.99982,0.0025391,-0.018746,-3.2959,-0.0032597,0.99925,-0.03851,-7.498,0.018634,0.038565,0.99908,-294.79 > ui mousemode right ""rotate selected models"" > view matrix models > #2,0.93541,-0.079752,-0.34446,204.57,-0.18037,0.73031,-0.65888,461.73,0.30411,0.67845,0.66875,-556.61 > view matrix models > #2,0.99823,-0.012677,0.058153,-29.735,0.0055378,0.9926,0.12132,-78.766,-0.059261,-0.12078,0.99091,-186.81 > view matrix models > #2,0.78398,-0.409,-0.46701,469.99,-0.33762,0.3504,-0.87363,792.57,0.52096,0.84258,0.13662,-490.1 > view matrix models > #2,0.80845,-0.37554,-0.45319,438.42,-0.28613,0.4221,-0.86021,732.46,0.51433,0.82511,0.2338,-522.25 > view matrix models > #2,0.92194,0.063583,-0.38207,163.98,-0.38637,0.22018,-0.89567,881.02,0.027177,0.97338,0.22756,-370.41 > ui tool show ""Show Volume Menu"" > volume sel showOutlineBox true > close #2 > open D:/e1004/e1004-painting/split/2-capsid.mrc Opened 2-capsid.mrc as #2, grid size 800,800,800, pixel 1.1, shown at step 1, values float32 > volume #2 region 0,0,0,799,799,799 step 4 [Repeated 1 time(s)] > volume #2 step 1 > ui mousemode right ""map eraser"" > select add #8 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #8,1,0,0,391.67,0,1,0,478.84,0,0,1,405.09 > ui mousemode right ""translate selected models"" > view matrix models #8,1,0,0,391.09,0,1,0,478.81,0,0,1,405.59 > ui mousemode right ""translate selected models"" > view matrix models #8,1,0,0,330.1,0,1,0,593.92,0,0,1,665.94 > view matrix models #8,1,0,0,307.18,0,1,0,594.13,0,0,1,681.31 > view matrix models #8,1,0,0,240.03,0,1,0,459.84,0,0,1,583.02 > view matrix models #8,1,0,0,234.15,0,1,0,447.68,0,0,1,574.41 > view matrix models #8,1,0,0,201.67,0,1,0,447.98,0,0,1,596.2 > view matrix models #8,1,0,0,196.86,0,1,0,440.02,0,0,1,589.12 Can only have one displayed volume when erasing [Repeated 6 time(s)]Drag select of 2 2-capsid.mrc > select clear > select subtract #8 Nothing selected > select add #8 1 model selected Drag select of eraser sphere, 6 of 1000 triangles, 2 2-capsid.mrc > select subtract #8 2 models selected > select add #8 3 models selected > select subtract #8 2 models selected > view matrix models #2,1,0,0,-1.3084,0,1,0,0.085124,0,0,1,0.79566 > view matrix models #2,1,0,0,-3.9251,0,1,0,0.25537,0,0,1,2.387 > select add #8 3 models selected > view matrix models > #2,1,0,0,-30.746,0,1,0,2.0004,0,0,1,18.698,#8,1,0,0,170.03,0,1,0,441.77,0,0,1,605.43 > select clear > select subtract #8 Nothing selected > select add #8 1 model selected > view matrix models #8,1,0,0,148.45,0,1,0,443.17,0,0,1,618.56 Can only have one displayed volume when erasing [Repeated 3 time(s)] > select clear Can only have one displayed volume when erasing [Repeated 8 time(s)] > ui mousemode right ""map eraser"" Can only have one displayed volume when erasing [Repeated 15 time(s)] > ui mousemode right ""map eraser"" > ui mousemode right ""play map series"" > ui mousemode right ""map eraser"" Can only have one displayed volume when erasing [Repeated 3 time(s)] > select add #8 1 model selected Can only have one displayed volume when erasing [Repeated 2 time(s)] > help help:user > select clear Can only have one displayed volume when erasing [Repeated 6 time(s)] > ui mousemode right ""map eraser"" [Repeated 1 time(s)] > ui mousemode right select [Repeated 1 time(s)] > select add #8 1 model selected > select #8 1 model selected > select clear > select #8 1 model selected Drag select of eraser sphere, 5 of 1000 triangles, 2 2-capsid.mrc > select clear > select subtract #8 Nothing selected > select add #8 1 model selected Drag select of eraser sphere, 6 of 1000 triangles > select subtract #8 Nothing selected > select add #8 1 model selected Drag select of eraser sphere, 7 of 1000 triangles > select subtract #8 Nothing selected > select add #8 1 model selected > select #8 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #8,1,0,0,405.91,0,1,0,440.66,0,0,1,455.53 > view matrix models > #8,-0.82039,-0.5175,-0.2432,406.42,0.094486,0.29679,-0.95026,440.67,0.56394,-0.80256,-0.19459,455.42 > view matrix models > #8,0.21274,0.32161,0.92266,406.1,-0.6052,0.78472,-0.13398,440.84,-0.76712,-0.52989,0.36158,455.76 > view matrix models > #8,-0.76386,-0.47353,-0.4385,406.4,0.21982,0.44793,-0.86663,440.63,0.60679,-0.75837,-0.23807,455.4 > view matrix models > #8,0.3252,0.2681,0.90685,406.07,-0.53258,0.84434,-0.058633,440.81,-0.78141,-0.4639,0.41736,455.76 > view matrix models > #8,-0.9502,-0.26232,-0.16827,406.44,0.067931,0.3526,-0.9333,440.68,0.30416,-0.89825,-0.31722,455.49 > view matrix models > #8,0.64668,-0.48636,-0.58759,406.03,0.62208,0.78207,0.037305,440.51,0.44139,-0.38965,0.8083,455.43 > view matrix models > #8,0.64668,-0.48636,-0.58759,119.73,0.62208,0.78207,0.037305,471.53,0.44139,-0.38965,0.8083,485.96 > view matrix models > #8,0.64668,-0.48636,-0.58759,218.85,0.62208,0.78207,0.037305,462.8,0.44139,-0.38965,0.8083,318.26 > view matrix models > #8,0.64668,-0.48636,-0.58759,207.21,0.62208,0.78207,0.037305,445.97,0.44139,-0.38965,0.8083,338.83 > view matrix models > #8,0.64668,-0.48636,-0.58759,196.25,0.62208,0.78207,0.037305,445.66,0.44139,-0.38965,0.8083,332.37 > view matrix models > #8,0.64668,-0.48636,-0.58759,199.74,0.62208,0.78207,0.037305,450.97,0.44139,-0.38965,0.8083,326.2 > view matrix models > #8,0.64668,-0.48636,-0.58759,197.95,0.62208,0.78207,0.037305,444.15,0.44139,-0.38965,0.8083,329.57 > view matrix models > #8,0.64668,-0.48636,-0.58759,169.46,0.62208,0.78207,0.037305,443.32,0.44139,-0.38965,0.8083,312.78 > view matrix models > #8,0.64668,-0.48636,-0.58759,171.24,0.62208,0.78207,0.037305,446.48,0.44139,-0.38965,0.8083,311.68 Can only have one displayed volume when erasing [Repeated 14 time(s)] > select clear Can only have one displayed volume when erasing [Repeated 4 time(s)] > select #2 3 models selected Can only have one displayed volume when erasing [Repeated 5 time(s)] > select clear > select add #2 3 models selected > view matrix models #2,1,0,0,-310.67,0,1,0,-540.68,0,0,1,-432.77 > view matrix models #2,1,0,0,-296.4,0,1,0,-523.03,0,0,1,-446.36 > view matrix models #2,1,0,0,-494.27,0,1,0,-390.89,0,0,1,-482.51 > view matrix models #2,1,0,0,-492.36,0,1,0,-388.82,0,0,1,-485.46 Drag select of 1 1-DNA.mrc , 7 symmismatch_ort-6.mrc , 2 2-capsid.mrc > view matrix models > #1,1,5.8431e-05,0.00022376,-589.35,-5.8432e-05,1,5.2875e-06,-595.04,-0.00022376,-5.3006e-06,1,-537.43,#7,1,0,0,-25.97,0,1,0,-31.882,0,0,1,25.613,#2,1,0,0,-518.33,0,1,0,-420.7,0,0,1,-459.85 > select subtract #2 4 models selected > select add #2 7 models selected > select add #7 7 models selected > select subtract #7 5 models selected > view matrix models > #1,0.64914,-0.55132,-0.52408,215.99,0.55723,0.81365,-0.16574,-704.91,0.5178,-0.18445,0.83538,-621.94,#2,0.64899,-0.55136,-0.52423,125.29,0.55724,0.81362,-0.16587,-536.36,0.51797,-0.18447,0.83527,-552.51 > view matrix models > #1,0.98702,0.14925,-0.059372,-635.69,-0.14411,0.98606,0.083141,-554.16,0.070954,-0.073505,0.99477,-529.74,#2,0.98701,0.14919,-0.059594,-544.2,-0.14403,0.98607,0.083168,-386.03,0.071172,-0.073504,0.99475,-460.32 > select subtract #2 2 models selected > select add #1 2 models selected > select subtract #1 Nothing selected > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.8567, correlation about mean = 0.1614, overlap = 2.655e+07 steps = 204, shift = 4.92, angle = 8.57 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99932569 0.00245242 -0.03663532 -543.63853477 0.00077754 0.99612974 0.08789160 -610.78633398 0.03670908 -0.08786082 0.99545614 -531.81402356 Axis -0.92282815 -0.38511151 -0.00879435 Axis point 0.00000000 -6156.01564672 3428.87027586 Rotation angle (degrees) 5.46426409 Shift along axis 741.58274475 > volume #7 level 5.081 > ui mousemode right select [Repeated 1 time(s)] > select add #2 3 models selected > select #2 3 models selected Drag select of 2 2-capsid.mrc > select #2 3 models selected > ui mousemode right ""translate selected models"" > view matrix models > #2,0.98701,0.14919,-0.059594,-521.17,-0.14403,0.98607,0.083168,-502.65,0.071172,-0.073504,0.99475,-449.02 > view matrix models > #2,0.98701,0.14919,-0.059594,-444.04,-0.14403,0.98607,0.083168,-1027.3,0.071172,-0.073504,0.99475,-253.56 > view matrix models > #2,0.98701,0.14919,-0.059594,-458.52,-0.14403,0.98607,0.083168,-976.69,0.071172,-0.073504,0.99475,-234.05 > view matrix models > #2,0.98701,0.14919,-0.059594,-483.48,-0.14403,0.98607,0.083168,-889.31,0.071172,-0.073504,0.99475,-200.46 > view matrix models > #2,0.98701,0.14919,-0.059594,-449.29,-0.14403,0.98607,0.083168,-976.66,0.071172,-0.073504,0.99475,-284.47 > view matrix models > #2,0.98701,0.14919,-0.059594,-522.74,-0.14403,0.98607,0.083168,-524.41,0.071172,-0.073504,0.99475,-414.89 > view matrix models > #2,0.98701,0.14919,-0.059594,-531.4,-0.14403,0.98607,0.083168,-483.04,0.071172,-0.073504,0.99475,-416.22 > view matrix models > #2,0.98701,0.14919,-0.059594,-531.89,-0.14403,0.98607,0.083168,-465.89,0.071172,-0.073504,0.99475,-433.68 > view matrix models > #2,0.98701,0.14919,-0.059594,-488.75,-0.14403,0.98607,0.083168,-456.61,0.071172,-0.073504,0.99475,-425.77 > view matrix models > #2,0.98701,0.14919,-0.059594,-488.54,-0.14403,0.98607,0.083168,-471.28,0.071172,-0.073504,0.99475,-409.73 > view matrix models > #2,0.98701,0.14919,-0.059594,-476.68,-0.14403,0.98607,0.083168,-504.52,0.071172,-0.073504,0.99475,-435.37 > ui mousemode right ""rotate selected models"" > view matrix models > #2,0.65171,-0.74546,-0.13988,99.821,0.7399,0.66541,-0.098867,-672.26,0.16678,-0.039065,0.98522,-488.4 > view matrix models > #2,-0.65316,-0.55743,-0.51251,755.18,0.73001,-0.64336,-0.2306,-34.087,-0.20118,-0.52475,0.82714,-43.24 > view matrix models > #2,-0.677,-0.44201,-0.58847,748.32,0.67874,-0.68413,-0.26699,22.421,-0.28457,-0.58017,0.76317,45.983 > ui mousemode right ""translate selected models"" > view matrix models > #2,-0.677,-0.44201,-0.58847,729.06,0.67874,-0.68413,-0.26699,91.991,-0.28457,-0.58017,0.76317,69.349 > view matrix models > #2,-0.677,-0.44201,-0.58847,733.28,0.67874,-0.68413,-0.26699,79.25,-0.28457,-0.58017,0.76317,61.326 > ui mousemode right ""rotate selected models"" > view matrix models > #2,-0.064719,-0.72216,-0.68869,631.23,0.99325,-0.11319,0.02535,-438.98,-0.09626,-0.68241,0.72461,40.418 > ui mousemode right ""translate selected models"" > view matrix models > #2,-0.064719,-0.72216,-0.68869,628.16,0.99325,-0.11319,0.02535,-418.53,-0.09626,-0.68241,0.72461,59.644 > ui mousemode right ""rotate selected models"" > view matrix models > #2,-0.028707,-0.71837,-0.69507,613.46,0.99528,-0.084996,0.046739,-441.24,-0.092654,-0.69045,0.71742,64.763 > view matrix models > #2,0.057052,0.95496,-0.2912,-338.24,-0.49663,-0.22588,-0.83806,666.5,-0.86609,0.19243,0.46137,129.26 > view matrix models > #2,0.085282,0.96236,-0.25806,-368.5,-0.49823,-0.18311,-0.84749,652.53,-0.86284,0.20085,0.46386,123.03 > fitmap #2 inMap #7 Fit map 2-capsid.mrc in map symmismatch_ort-6.mrc using 5101298 points correlation = 0.8541, correlation about mean = 0.1846, overlap = 5.04e+07 steps = 220, shift = 16.3, angle = 14.3 degrees Position of 2-capsid.mrc (#2) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation -0.16240021 0.95107588 -0.26283236 -231.36711930 -0.49997311 -0.30895741 -0.80905637 711.93533332 -0.85067800 0.00001819 0.52568711 142.98182433 Axis 0.45910105 0.33356697 -0.82338284 Axis point 181.18428453 471.24178270 0.00000000 Rotation angle (degrees) 118.21849669 Shift along axis 13.52844210 > view matrix models > #2,-0.30758,0.87251,-0.37964,-107.49,-0.43227,-0.48356,-0.76113,706,-0.84767,-0.070002,0.52589,197.99 > ui mousemode right ""translate selected models"" > select clear > select subtract #2 Nothing selected > select add #2 3 models selected > ui mousemode right ""translate selected models"" > view matrix models > #2,-0.30758,0.87251,-0.37964,-107.07,-0.43227,-0.48356,-0.76113,702.1,-0.84767,-0.070002,0.52589,193.93 > ui mousemode right ""rotate selected models"" > view matrix models > #2,-0.16212,0.94831,-0.27281,-251.44,-0.47334,-0.31732,-0.82174,673.7,-0.86583,-0.0040896,0.50032,184.17 > fitmap #2 inMap #7 Fit map 2-capsid.mrc in map symmismatch_ort-6.mrc using 5101298 points correlation = 0.8541, correlation about mean = 0.1846, overlap = 5.04e+07 steps = 80, shift = 5.63, angle = 1.79 degrees Position of 2-capsid.mrc (#2) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation -0.16243866 0.95106883 -0.26283412 -231.35439173 -0.50000330 -0.30897912 -0.80902943 711.91973020 -0.85065292 0.00000028 0.52572770 142.95799009 Axis 0.45907833 0.33355372 -0.82340088 Axis point 181.16505013 471.22190977 0.00000000 Rotation angle (degrees) 118.21913295 Shift along axis 13.54195558 > fitmap #2 inMap #7 Fit map 2-capsid.mrc in map symmismatch_ort-6.mrc using 5101298 points correlation = 0.8541, correlation about mean = 0.1846, overlap = 5.04e+07 steps = 24, shift = 0.0241, angle = 0.00361 degrees Position of 2-capsid.mrc (#2) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation -0.16240094 0.95107570 -0.26283256 -231.38675965 -0.49996441 -0.30895796 -0.80906153 711.88778188 -0.85068297 0.00001457 0.52567907 142.99328222 Axis 0.45910323 0.33357062 -0.82338014 Axis point 181.16383912 471.22234130 0.00000000 Rotation angle (degrees) 118.21880030 Shift along axis 13.49661341 > fitmap #2 inMap #7 Fit map 2-capsid.mrc in map symmismatch_ort-6.mrc using 5101298 points correlation = 0.8541, correlation about mean = 0.1846, overlap = 5.04e+07 steps = 24, shift = 0.00509, angle = 0.000944 degrees Position of 2-capsid.mrc (#2) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation -0.16240601 0.95107098 -0.26284650 -231.37745603 -0.49995731 -0.30897248 -0.80906038 711.88850618 -0.85068618 0.00001576 0.52567388 142.99192578 Axis 0.45910671 0.33356705 -0.82337965 Axis point 181.16448750 471.21784008 0.00000000 Rotation angle (degrees) 118.21960603 Shift along axis 13.49896670 > select subtract #2 Nothing selected > fitmap #2 inMap #7 Fit map 2-capsid.mrc in map symmismatch_ort-6.mrc using 5101298 points correlation = 0.8541, correlation about mean = 0.1846, overlap = 5.04e+07 steps = 24, shift = 0.012, angle = 0.000995 degrees Position of 2-capsid.mrc (#2) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation -0.16241425 0.95106563 -0.26286078 -231.37059485 -0.49995358 -0.30898896 -0.80905639 711.89549949 -0.85068680 0.00001590 0.52567287 143.00282729 Axis 0.45910813 0.33356191 -0.82338094 Axis point 181.16985110 471.21772383 0.00000000 Rotation angle (degrees) 118.22044232 Shift along axis 13.49130252 > hide #!2 models > select add #1 2 models selected > ui mousemode right ""translate selected models"" > view matrix models > #1,0.99933,0.0024524,-0.036635,-558.24,0.00077754,0.99613,0.087892,-670.5,0.036709,-0.087861,0.99546,-509.33 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.6842, correlation about mean = 0.07801, overlap = 1.943e+07 steps = 104, shift = 18.9, angle = 1.6 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99963992 0.01531225 -0.02203545 -551.16198627 -0.01284267 0.99405167 0.10814962 -639.27043186 0.02356039 -0.10782768 0.99389039 -496.86327874 Axis -0.97057055 -0.20490109 -0.12652412 Axis point 0.00000000 -3997.00621847 4310.36412023 Rotation angle (degrees) 6.38813074 Shift along axis 728.79398810 > view matrix models > #1,0.99964,0.015312,-0.022035,-577.58,-0.012843,0.99405,0.10815,-680.04,0.02356,-0.10783,0.99389,-470.86 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.6842, correlation about mean = 0.07784, overlap = 1.943e+07 steps = 60, shift = 8.88, angle = 0.0253 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99964330 0.01558096 -0.02169108 -551.50553982 -0.01314528 0.99403963 0.10822392 -639.16063721 0.02324803 -0.10790018 0.99388987 -496.62387112 Axis -0.97087276 -0.20187551 -0.12904402 Axis point 0.00000000 -3976.37613106 4327.89518798 Rotation angle (degrees) 6.39049233 Shift along axis 728.55892398 > view matrix models > #1,0.99964,0.015581,-0.021691,-577.91,-0.013145,0.99404,0.10822,-681.03,0.023248,-0.1079,0.99389,-472.44 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.6842, correlation about mean = 0.07751, overlap = 1.944e+07 steps = 200, shift = 10.2, angle = 0.768 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99967750 0.00274674 -0.02524579 -542.11844335 -0.00004651 0.99432966 0.10634157 -645.54768239 0.02539473 -0.10630610 0.99400912 -499.00581913 Axis -0.97271636 -0.23164547 -0.01277719 Axis point 0.00000000 -4855.56544322 4323.28721074 Rotation angle (degrees) 6.27531703 Shift along axis 683.24156938 > ui mousemode right clip [Repeated 1 time(s)] > ui mousemode right ""clip rotate"" > ui mousemode right clip > ui mousemode right zoom > ui mousemode right ""translate selected models"" > view matrix models > #1,0.99968,0.0027467,-0.025246,-561.71,-4.6506e-05,0.99433,0.10634,-670.7,0.025395,-0.10631,0.99401,-476.6 > ui mousemode right ""rotate selected models"" > view matrix models > #1,0.99857,0.050895,0.016544,-612.39,-0.051922,0.99626,0.069107,-622.45,-0.012965,-0.069867,0.99747,-478.56 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.7314, correlation about mean = 0.104, overlap = 2.184e+07 steps = 88, shift = 9.11, angle = 3.32 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.99788885 0.03728857 0.05317334 -604.51089786 -0.03875520 0.99888867 0.02682280 -582.29636935 -0.05211406 -0.02882691 0.99822499 -502.77785529 Axis -0.39384783 0.74514700 -0.53818198 Axis point -9231.31272092 0.00000000 10448.32397907 Rotation angle (degrees) 4.05124999 Shift along axis 74.77489259 > view matrix models > #1,0.98512,0.16619,-0.043746,-645.47,-0.15827,0.97657,0.14585,-600.37,0.066959,-0.13675,0.98834,-474.6 > view matrix models > #1,0.98081,-0.10205,0.16613,-601.64,0.099996,0.99477,0.020705,-685.49,-0.16737,-0.0036953,0.98589,-421.04 > view matrix models > #1,0.99768,-0.034873,0.058411,-590.95,0.029188,0.995,0.095489,-687.55,-0.061449,-0.093563,0.99372,-431.54 > ui mousemode right ""translate selected models"" > view matrix models > #1,0.99768,-0.034873,0.058411,-585.66,0.029188,0.995,0.095489,-681.07,-0.061449,-0.093563,0.99372,-430.62 > ui mousemode right ""rotate selected models"" > view matrix models > #1,0.76921,0.6367,-0.054197,-790.26,-0.6322,0.77062,0.08049,-173.71,0.093013,-0.02765,0.99528,-555.96 > ui mousemode right ""translate selected models"" > view matrix models > #1,0.76921,0.6367,-0.054197,-779.67,-0.6322,0.77062,0.08049,-162.81,0.093013,-0.02765,0.99528,-562.41 > ui mousemode right ""rotate selected models"" > view matrix models > #1,0.72837,0.68241,-0.061637,-779.67,-0.67772,0.73075,0.081806,-114.87,0.10087,-0.017812,0.99474,-572.24 > fitmap #1 inMap #7 Fit map 1-DNA.mrc in map symmismatch_ort-6.mrc using 1058275 points correlation = 0.7018, correlation about mean = 0.1151, overlap = 1.99e+07 steps = 196, shift = 12.8, angle = 5.97 degrees Position of 1-DNA.mrc (#1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.71831823 0.69571468 -0.00003890 -796.31726472 -0.69571467 0.71831823 0.00016308 -12.77716493 0.00014139 -0.00009008 0.99999999 -563.05951661 Axis -0.00018194 -0.00012957 -0.99999998 Axis point -413.79619820 976.91764327 0.00000000 Rotation angle (degrees) 44.08419644 Shift along axis 563.20604123 > ui mousemode right ""translate selected models"" > ui mousemode right clip > ui mousemode right ""clip rotate"" > select clear > volume #3 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #3 step 1 > volume #3 change image level 1.375e-05,0 level 0.08171,0.8 level 0.817,1 > volume #3 level 0.1408 > select add #3 3 models selected > select add #4 5 models selected > select add #5 7 models selected > select add #6 9 models selected > ui mousemode right ""translate selected models"" > view matrix models > #3,1,0,0,-138.14,0,1,0,-274.09,0,0,1,147.25,#4,1,0,0,-138.14,0,1,0,-274.09,0,0,1,147.25,#5,1,0,0,-138.14,0,1,0,-274.09,0,0,1,147.25,#6,1,0,0,-138.14,0,1,0,-274.09,0,0,1,147.25 > volume #7 level 2 > view matrix models > #3,1,0,0,-136.73,0,1,0,-271.43,0,0,1,134.2,#4,1,0,0,-136.73,0,1,0,-271.43,0,0,1,134.2,#5,1,0,0,-136.73,0,1,0,-271.43,0,0,1,134.2,#6,1,0,0,-136.73,0,1,0,-271.43,0,0,1,134.2 > view matrix models > #3,1,0,0,-156.69,0,1,0,-261.44,0,0,1,134.07,#4,1,0,0,-156.69,0,1,0,-261.44,0,0,1,134.07,#5,1,0,0,-156.69,0,1,0,-261.44,0,0,1,134.07,#6,1,0,0,-156.69,0,1,0,-261.44,0,0,1,134.07 > volume #7 level 3 > volume #7 level 2.5 > volume #6 level 3.796e-05,0 level 0.07197,0.8 level 0.7193,1 > volume #6 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #6 step 1 > volume #6 level 0.1115 > volume #5 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #5 step 1 > volume #5 change image level 0.0001,0 level 9.001e-05,0.8 level 0,1 > volume #5 level 0.2383 > volume #4 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #4 step 1 > volume #4 level 0.07098 > volume #4 level 0.08787 > ui mousemode right ""translate selected models"" [Repeated 1 time(s)] > view matrix models > #3,1,0,0,-157.9,0,1,0,-264.03,0,0,1,121.25,#4,1,0,0,-157.9,0,1,0,-264.03,0,0,1,121.25,#5,1,0,0,-157.9,0,1,0,-264.03,0,0,1,121.25,#6,1,0,0,-157.9,0,1,0,-264.03,0,0,1,121.25 > view matrix models > #3,1,0,0,-210.42,0,1,0,-237.74,0,0,1,120.91,#4,1,0,0,-210.42,0,1,0,-237.74,0,0,1,120.91,#5,1,0,0,-210.42,0,1,0,-237.74,0,0,1,120.91,#6,1,0,0,-210.42,0,1,0,-237.74,0,0,1,120.91 > view matrix models > #3,1,0,0,-210.86,0,1,0,-238.52,0,0,1,128,#4,1,0,0,-210.86,0,1,0,-238.52,0,0,1,128,#5,1,0,0,-210.86,0,1,0,-238.52,0,0,1,128,#6,1,0,0,-210.86,0,1,0,-238.52,0,0,1,128 > view matrix models > #3,1,0,0,-220.31,0,1,0,-233.79,0,0,1,127.94,#4,1,0,0,-220.31,0,1,0,-233.79,0,0,1,127.94,#5,1,0,0,-220.31,0,1,0,-233.79,0,0,1,127.94,#6,1,0,0,-220.31,0,1,0,-233.79,0,0,1,127.94 > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.98742,-0.1572,-0.017176,-183.78,0.15739,0.98748,0.010354,-264.13,0.015333,-0.012927,0.9998,127.57,#4,0.98742,-0.1572,-0.017176,-183.78,0.15739,0.98748,0.010354,-264.13,0.015333,-0.012927,0.9998,127.57,#5,0.98742,-0.1572,-0.017176,-183.78,0.15739,0.98748,0.010354,-264.13,0.015333,-0.012927,0.9998,127.57,#6,0.98742,-0.1572,-0.017176,-183.78,0.15739,0.98748,0.010354,-264.13,0.015333,-0.012927,0.9998,127.57 > fitmap #5 inMap #7 Fit map nozzle-resample.mrc in map symmismatch_ort-6.mrc using 157429 points correlation = 0.886, correlation about mean = 0.1854, overlap = 2.341e+05 steps = 68, shift = 2.72, angle = 2.36 degrees Position of nozzle-resample.mrc (#5) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.98125667 -0.19270467 0.00051641 -156.49905982 0.19270407 0.98125639 0.00101957 -233.17617246 -0.00070320 -0.00090095 0.99999935 104.06046591 Axis -0.00498298 0.00316441 0.99998258 Axis point 1122.38313051 -918.59493375 0.00000000 Rotation angle (degrees) 11.11084643 Shift along axis 104.10062084 > fitmap #3 inMap #7 Fit map adaptor-resample.mrc in map symmismatch_ort-6.mrc using 98827 points correlation = 0.8348, correlation about mean = 0.1816, overlap = 1.545e+05 steps = 72, shift = 4.7, angle = 2.84 degrees Position of adaptor-resample.mrc (#3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.97942494 -0.20180492 -0.00124682 -155.05558596 0.20180191 0.97942390 -0.00219620 -234.49308100 0.00166437 0.00189940 0.99999681 103.09531904 Axis 0.01014672 -0.00721239 0.99992251 Axis point 1068.33101148 -882.45495289 0.00000000 Rotation angle (degrees) 11.64335257 Shift along axis 103.20528116 > select add #3 9 models selected > select add #4 10 models selected > select add #5 11 models selected > select add #6 12 models selected > ui mousemode right ""translate selected models"" > view matrix models > #3,0.98742,-0.1572,-0.017176,-185.01,0.15739,0.98748,0.010354,-264.58,0.015333,-0.012927,0.9998,127.66,#4,0.98742,-0.1572,-0.017176,-185.01,0.15739,0.98748,0.010354,-264.58,0.015333,-0.012927,0.9998,127.66,#5,0.98742,-0.1572,-0.017176,-185.01,0.15739,0.98748,0.010354,-264.58,0.015333,-0.012927,0.9998,127.66,#6,0.98742,-0.1572,-0.017176,-185.01,0.15739,0.98748,0.010354,-264.58,0.015333,-0.012927,0.9998,127.66 > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.89621,-0.44209,0.036832,-118.32,0.44239,0.89682,0.00016205,-300.61,-0.033104,0.016149,0.99932,131.61,#4,0.89621,-0.44209,0.036832,-118.32,0.44239,0.89682,0.00016205,-300.61,-0.033104,0.016149,0.99932,131.61,#5,0.89621,-0.44209,0.036832,-118.32,0.44239,0.89682,0.00016205,-300.61,-0.033104,0.016149,0.99932,131.61,#6,0.89621,-0.44209,0.036832,-118.32,0.44239,0.89682,0.00016205,-300.61,-0.033104,0.016149,0.99932,131.61 > view matrix models > #3,0.449,-0.89328,-0.021462,68.123,0.89353,0.44887,0.010733,-302.69,4.5648e-05,-0.023996,0.99971,133.22,#4,0.449,-0.89328,-0.021462,68.123,0.89353,0.44887,0.010733,-302.69,4.5648e-05,-0.023996,0.99971,133.22,#5,0.449,-0.89328,-0.021462,68.123,0.89353,0.44887,0.010733,-302.69,4.5648e-05,-0.023996,0.99971,133.22,#6,0.449,-0.89328,-0.021462,68.123,0.89353,0.44887,0.010733,-302.69,4.5648e-05,-0.023996,0.99971,133.22 > view matrix models > #3,0.37888,-0.92484,-0.03356,90.245,0.92545,0.37862,0.013839,-295.6,-9.2013e-05,-0.036301,0.99934,135.84,#4,0.37888,-0.92484,-0.03356,90.245,0.92545,0.37862,0.013839,-295.6,-9.2013e-05,-0.036301,0.99934,135.84,#5,0.37888,-0.92484,-0.03356,90.245,0.92545,0.37862,0.013839,-295.6,-9.2013e-05,-0.036301,0.99934,135.84,#6,0.37888,-0.92484,-0.03356,90.245,0.92545,0.37862,0.013839,-295.6,-9.2013e-05,-0.036301,0.99934,135.84 > fitmap #5 inMap #7 Fit map nozzle-resample.mrc in map symmismatch_ort-6.mrc using 157429 points correlation = 0.8857, correlation about mean = 0.1832, overlap = 2.342e+05 steps = 72, shift = 2.56, angle = 4.02 degrees Position of nozzle-resample.mrc (#5) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.32264503 -0.94652003 0.00011092 123.32380557 0.94652003 0.32264504 0.00011795 -251.75610935 -0.00014743 0.00006694 0.99999999 103.78510816 Axis -0.00002695 0.00013648 0.99999999 Axis point 237.57225363 -39.71827762 0.00000000 Rotation angle (degrees) 71.17703931 Shift along axis 103.74742514 > fitmap #3 inMap #7 Fit map adaptor-resample.mrc in map symmismatch_ort-6.mrc using 98827 points correlation = 0.8349, correlation about mean = 0.1801, overlap = 1.545e+05 steps = 76, shift = 2.33, angle = 4.44 degrees Position of adaptor-resample.mrc (#3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.31475499 -0.94917221 -0.00119189 124.50568597 0.94916820 0.31475714 -0.00276892 -250.73600642 0.00300334 -0.00025977 0.99999546 103.30258972 Axis 0.00132176 -0.00220994 0.99999668 Axis point 235.68026322 -39.11885366 0.00000000 Rotation angle (degrees) 71.65404883 Shift along axis 104.02092390 > ui mousemode right ""translate selected models"" > ui mousemode right ""move picked models"" > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.28252,-0.95913,-0.015797,112.84,0.95902,0.28203,0.027308,-285.72,-0.021736,-0.022865,0.9995,137.47,#4,0.28252,-0.95913,-0.015797,112.84,0.95902,0.28203,0.027308,-285.72,-0.021736,-0.022865,0.9995,137.47,#5,0.28252,-0.95913,-0.015797,112.84,0.95902,0.28203,0.027308,-285.72,-0.021736,-0.022865,0.9995,137.47,#6,0.28252,-0.95913,-0.015797,112.84,0.95902,0.28203,0.027308,-285.72,-0.021736,-0.022865,0.9995,137.47 > fitmap #5 inMap #7 Fit map nozzle-resample.mrc in map symmismatch_ort-6.mrc using 157429 points correlation = 0.8857, correlation about mean = 0.1833, overlap = 2.342e+05 steps = 56, shift = 1.3, angle = 3.02 degrees Position of nozzle-resample.mrc (#5) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.32278451 -0.94647248 -0.00000548 123.33085027 0.94647241 0.32278448 0.00039855 -251.87720568 -0.00037545 -0.00013383 0.99999992 103.88018122 Axis -0.00028124 0.00019545 0.99999994 Axis point 237.70527679 -39.74511109 0.00000000 Rotation angle (degrees) 71.16859938 Shift along axis 103.79626075 > fitmap #3 inMap #7 Fit map adaptor-resample.mrc in map symmismatch_ort-6.mrc using 98827 points correlation = 0.8349, correlation about mean = 0.1801, overlap = 1.545e+05 steps = 68, shift = 2.82, angle = 2.71 degrees Position of adaptor-resample.mrc (#3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.31476171 -0.94916946 -0.00154825 124.58621234 0.94916665 0.31476472 -0.00241560 -250.81961680 0.00278015 -0.00070921 0.99999588 103.42770935 Axis 0.00089888 -0.00228010 0.99999700 Axis point 235.79638634 -39.07003468 0.00000000 Rotation angle (degrees) 71.65360427 Shift along axis 104.11128032 > view matrix models > #3,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59,#4,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59,#5,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59,#6,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59 > ui mousemode right ""translate selected models"" > view matrix models > #3,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59,#4,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59,#5,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59,#6,0.26589,-0.9639,-0.013749,116.6,0.96371,0.26543,0.028482,-283.59,-0.023805,-0.020823,0.9995,137.59 > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.24088,-0.9705,-0.01019,122.16,0.97019,0.24049,0.030101,-280.25,-0.026763,-0.017137,0.99949,137.47,#4,0.24088,-0.9705,-0.01019,122.16,0.97019,0.24049,0.030101,-280.25,-0.026763,-0.017137,0.99949,137.47,#5,0.24088,-0.9705,-0.01019,122.16,0.97019,0.24049,0.030101,-280.25,-0.026763,-0.017137,0.99949,137.47,#6,0.24088,-0.9705,-0.01019,122.16,0.97019,0.24049,0.030101,-280.25,-0.026763,-0.017137,0.99949,137.47 > fitmap #5 inMap #7 Fit map nozzle-resample.mrc in map symmismatch_ort-6.mrc using 157429 points correlation = 0.8856, correlation about mean = 0.1829, overlap = 2.342e+05 steps = 76, shift = 1.56, angle = 5.2 degrees Position of nozzle-resample.mrc (#5) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.32244022 -0.94658979 0.00026165 123.32877782 0.94658975 0.32244030 0.00032527 -251.79660618 -0.00039226 0.00014280 0.99999991 103.77618690 Axis -0.00009638 0.00034541 0.99999994 Axis point 237.58155730 -39.76055626 0.00000000 Rotation angle (degrees) 71.18943684 Shift along axis 103.67732149 > fitmap #3 inMap #7 Fit map adaptor-resample.mrc in map symmismatch_ort-6.mrc using 98827 points correlation = 0.8349, correlation about mean = 0.18, overlap = 1.545e+05 steps = 60, shift = 2.87, angle = 4.82 degrees Position of adaptor-resample.mrc (#3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.31475742 -0.94917085 -0.00156884 124.59345302 0.94916763 0.31476060 -0.00256581 -250.78440149 0.00292920 -0.00068148 0.99999548 103.40303454 Axis 0.00099262 -0.00236945 0.99999670 Axis point 235.76352594 -39.04998211 0.00000000 Rotation angle (degrees) 71.65387048 Shift along axis 104.12058777 > fitmap #3 inMap #7 Fit map adaptor-resample.mrc in map symmismatch_ort-6.mrc using 98827 points correlation = 0.8349, correlation about mean = 0.18, overlap = 1.545e+05 steps = 60, shift = 2.87, angle = 4.82 degrees Position of adaptor-resample.mrc (#3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.31475742 -0.94917085 -0.00156884 124.59345302 0.94916763 0.31476060 -0.00256581 -250.78440149 0.00292920 -0.00068148 0.99999548 103.40303454 Axis 0.00099262 -0.00236945 0.99999670 Axis point 235.76352594 -39.04998211 0.00000000 Rotation angle (degrees) 71.65387048 Shift along axis 104.12058777 > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.33011,-0.94387,0.012068,96.02,0.94263,0.33029,0.048615,-295.67,-0.049872,-0.0046729,0.99874,139.65,#4,0.33011,-0.94387,0.012068,96.02,0.94263,0.33029,0.048615,-295.67,-0.049872,-0.0046729,0.99874,139.65,#5,0.33011,-0.94387,0.012068,96.02,0.94263,0.33029,0.048615,-295.67,-0.049872,-0.0046729,0.99874,139.65,#6,0.33011,-0.94387,0.012068,96.02,0.94263,0.33029,0.048615,-295.67,-0.049872,-0.0046729,0.99874,139.65 > view matrix models > #3,0.24949,-0.96706,-0.050447,126.92,0.96837,0.24939,0.0083423,-278.95,0.0045136,-0.050932,0.99869,138.22,#4,0.24949,-0.96706,-0.050447,126.92,0.96837,0.24939,0.0083423,-278.95,0.0045136,-0.050932,0.99869,138.22,#5,0.24949,-0.96706,-0.050447,126.92,0.96837,0.24939,0.0083423,-278.95,0.0045136,-0.050932,0.99869,138.22,#6,0.24949,-0.96706,-0.050447,126.92,0.96837,0.24939,0.0083423,-278.95,0.0045136,-0.050932,0.99869,138.22 > view matrix models > #3,0.4766,-0.86936,-0.13063,75.03,0.87802,0.47816,0.021167,-307.4,0.04406,-0.12478,0.99121,145.44,#4,0.4766,-0.86936,-0.13063,75.03,0.87802,0.47816,0.021167,-307.4,0.04406,-0.12478,0.99121,145.44,#5,0.4766,-0.86936,-0.13063,75.03,0.87802,0.47816,0.021167,-307.4,0.04406,-0.12478,0.99121,145.44,#6,0.4766,-0.86936,-0.13063,75.03,0.87802,0.47816,0.021167,-307.4,0.04406,-0.12478,0.99121,145.44 > view matrix models > #3,0.92345,-0.35204,-0.15268,-108.87,0.36275,0.93064,0.048241,-290.58,0.1251,-0.099932,0.9871,125.1,#4,0.92345,-0.35204,-0.15268,-108.87,0.36275,0.93064,0.048241,-290.58,0.1251,-0.099932,0.9871,125.1,#5,0.92345,-0.35204,-0.15268,-108.87,0.36275,0.93064,0.048241,-290.58,0.1251,-0.099932,0.9871,125.1,#6,0.92345,-0.35204,-0.15268,-108.87,0.36275,0.93064,0.048241,-290.58,0.1251,-0.099932,0.9871,125.1 > view matrix models > #3,0.92566,-0.35095,-0.14137,-111.43,0.36294,0.9292,0.069719,-293.81,0.10689,-0.11585,0.9875,132.41,#4,0.92566,-0.35095,-0.14137,-111.43,0.36294,0.9292,0.069719,-293.81,0.10689,-0.11585,0.9875,132.41,#5,0.92566,-0.35095,-0.14137,-111.43,0.36294,0.9292,0.069719,-293.81,0.10689,-0.11585,0.9875,132.41,#6,0.92566,-0.35095,-0.14137,-111.43,0.36294,0.9292,0.069719,-293.81,0.10689,-0.11585,0.9875,132.41 > view matrix models > #3,0.92975,-0.36454,-0.051725,-124.4,0.36602,0.93033,0.022548,-286.93,0.039902,-0.039897,0.99841,130.3,#4,0.92975,-0.36454,-0.051725,-124.4,0.36602,0.93033,0.022548,-286.93,0.039902,-0.039897,0.99841,130.3,#5,0.92975,-0.36454,-0.051725,-124.4,0.36602,0.93033,0.022548,-286.93,0.039902,-0.039897,0.99841,130.3,#6,0.92975,-0.36454,-0.051725,-124.4,0.36602,0.93033,0.022548,-286.93,0.039902,-0.039897,0.99841,130.3 > ui mousemode right ""translate selected models"" > view matrix models > #3,0.92975,-0.36454,-0.051725,-119.57,0.36602,0.93033,0.022548,-293.06,0.039902,-0.039897,0.99841,129.3,#4,0.92975,-0.36454,-0.051725,-119.57,0.36602,0.93033,0.022548,-293.06,0.039902,-0.039897,0.99841,129.3,#5,0.92975,-0.36454,-0.051725,-119.57,0.36602,0.93033,0.022548,-293.06,0.039902,-0.039897,0.99841,129.3,#6,0.92975,-0.36454,-0.051725,-119.57,0.36602,0.93033,0.022548,-293.06,0.039902,-0.039897,0.99841,129.3 > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.99162,-0.11569,-0.057545,-179.24,0.11481,0.99322,-0.018392,-247.15,0.059282,0.01163,0.99817,115.36,#4,0.99162,-0.11569,-0.057545,-179.24,0.11481,0.99322,-0.018392,-247.15,0.059282,0.01163,0.99817,115.36,#5,0.99162,-0.11569,-0.057545,-179.24,0.11481,0.99322,-0.018392,-247.15,0.059282,0.01163,0.99817,115.36,#6,0.99162,-0.11569,-0.057545,-179.24,0.11481,0.99322,-0.018392,-247.15,0.059282,0.01163,0.99817,115.36 > view matrix models > #3,0.99441,-0.090493,-0.054438,-185.37,0.089372,0.99574,-0.022688,-241.69,0.056259,0.017696,0.99826,114.76,#4,0.99441,-0.090493,-0.054438,-185.37,0.089372,0.99574,-0.022688,-241.69,0.056259,0.017696,0.99826,114.76,#5,0.99441,-0.090493,-0.054438,-185.37,0.089372,0.99574,-0.022688,-241.69,0.056259,0.017696,0.99826,114.76,#6,0.99441,-0.090493,-0.054438,-185.37,0.089372,0.99574,-0.022688,-241.69,0.056259,0.017696,0.99826,114.76 > fitmap #3 inMap #7 Fit map adaptor-resample.mrc in map symmismatch_ort-6.mrc using 98827 points correlation = 0.8349, correlation about mean = 0.1812, overlap = 1.545e+05 steps = 88, shift = 8.44, angle = 7.24 degrees Position of adaptor-resample.mrc (#3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.97943038 -0.20177761 -0.00139128 -155.02669521 0.20177311 0.97942816 -0.00284417 -234.33870253 0.00193655 0.00250494 0.99999499 102.97202435 Axis 0.01325349 -0.00824538 0.99987817 Axis point 1067.08251046 -883.84005561 0.00000000 Rotation angle (degrees) 11.64223457 Shift along axis 102.83704656 > fitmap #5 inMap #7 Fit map nozzle-resample.mrc in map symmismatch_ort-6.mrc using 157429 points correlation = 0.886, correlation about mean = 0.1852, overlap = 2.341e+05 steps = 68, shift = 3.21, angle = 6.87 degrees Position of nozzle-resample.mrc (#5) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.98124630 -0.19275748 0.00050517 -156.47957339 0.19275690 0.98124603 0.00100572 -233.18475441 -0.00068955 -0.00088949 0.99999937 104.04165018 Axis -0.00491597 0.00309898 0.99998311 Axis point 1122.06300961 -918.30793732 0.00000000 Rotation angle (degrees) 11.11392467 Shift along axis 104.08650890 > hide #!7 models > fitmap #6 inMap #7 Fit map portal-resample.mrc in map symmismatch_ort-6.mrc using 250008 points correlation = 0.8066, correlation about mean = 0.1536, overlap = 2.469e+05 steps = 96, shift = 12.2, angle = 6.58 degrees Position of portal-resample.mrc (#6) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.98182660 -0.18973525 -0.00413112 -156.93560625 0.18973430 0.98183527 -0.00062479 -232.70914291 0.00417463 -0.00017038 0.99999127 102.41496677 Axis 0.00119717 -0.02188253 0.99975983 Axis point 1124.56098918 -935.52016550 0.00000000 Rotation angle (degrees) 10.93996639 Shift along axis 107.29475503 > hide #!1 models > fitmap #4 inMap #7 Fit map core-resample.mrc in map symmismatch_ort-6.mrc using 565764 points correlation = 0.7303, correlation about mean = 0.142, overlap = 3.627e+05 steps = 116, shift = 18.3, angle = 5.92 degrees Position of core-resample.mrc (#4) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.98463401 -0.17462979 0.00055952 -160.72387524 0.17463066 0.98462724 -0.00365148 -229.45946480 0.00008673 0.00369308 0.99999318 102.57239796 Axis 0.02102422 0.00135339 0.99977805 Axis point 1223.19351129 -1039.90228765 0.00000000 Rotation angle (degrees) 10.05939601 Shift along axis 98.85999045 > show #!1 models > hide #!1 models > show #!1 models > hide #!1 models > show #!1 models > hide #!1 models > select clear > volume #4 level 0.2027 > show #!1 models > show #!2 models > volume #1 level 6.042 > volume #1 level 6.759 > hide #!2 models > volume #1 level 6.281 > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > color #2 #ffaaffff models > color #2 #ffbcfeff models > color #1 #ff55ffff models > color #1 #ffaaffff models > color #1 #ffc7feff models > color #1 #ffe0ffff models > color #1 #fbbdffff models > color #1 #ff557fff models > color #1 #ff9b9dff models > color #1 #ffb9c4ff models > color #1 #ffa6bbff models > color #1 #ffabbaff models > show #!2 models > color #2 #ff557fff models > color #2 #ff638dff models > color #2 #ff6e95ff models > color #2 #ff97b6ff models > color #2 #ff86a6ff models > color #2 #e77997ff models > color #2 #d9728dff models > color #2 #d9a3a9ff models > color #1 #ffcdd9ff models > color #1 #ffd7ddff models > color #1 #ffc2c5ff models > color #1 #b88c8eff models > color #1 #d5a2a5ff models > color #2 #b1858aff models > color #2 #ce9ba1ff models > color #2 #ca989eff models > color #3 springgreen models > color #3 #e2ffb7ff models > color #3 #27ff35ff models > color #3 #aaff7fff models > color #3 #8aff42ff models > color #3 #71ff18ff models > color #3 #afff8cff models > color #3 #97dc79ff models > color #3 #90d374ff models > color #3 #8aca6fff models > color #3 #85c26bff models > color #5 cyan models > color #5 #5599ffff models > color #5 #5dd4ffff models > color #5 #4fb3d8ff models > color #5 #4dafd3ff models > color #3 cyan models > color #3 #25ff80ff models > color #3 #25ff99ff models > color #3 #35ffd3ff models > color #3 #2effd5ff models > color #3 #aa5500ff models > color #3 #ff5500ff models > color #3 #ffaa00ff models > color #3 #bcf8ffff models > color #3 #98f5ffff models > color #1 white models > color #2 white models > color #2 #bdbdbdff models > color #2 #abababff models > ui tool show ""Surface Color"" > open D:/e1004/e1004-painting/overall/capsid/t=7-capsid.pdb Chain information for t=7-capsid.pdb #8 --- Chain | Description A B C D E F | No description available V | No description available > select add #8 17237 atoms, 17494 bonds, 7 pseudobonds, 2357 residues, 2 models selected > color sel bychain > show sel atoms > hide sel atoms > show sel cartoons > hide #!2 models > hide #!1 models > hide #!3 models > hide #!4 models > hide #!6 models > hide #!5 models > show #!2 models > view matrix models > #8,0.99514,0.098492,-0.0010748,8.5116,-0.098393,0.99453,0.035172,-5.7827,0.0045331,-0.034895,0.99938,-2.8644 > view matrix models > #8,0.99427,0.096412,0.046113,-4.6866,-0.10049,0.99026,0.09637,-22.983,-0.036373,-0.10045,0.99428,-4.9432 > view matrix models > #8,0.99427,0.096412,0.046113,-38.676,-0.10049,0.99026,0.09637,-8.5761,-0.036373,-0.10045,0.99428,6.7425 > view matrix models > #8,0.93662,0.3354,0.10127,-31.969,-0.33625,0.94173,-0.0090363,27.222,-0.098402,-0.02559,0.99482,15.446 > view matrix models > #8,0.90761,0.4088,0.095491,-23.111,-0.40379,0.91233,-0.067854,44.146,-0.11486,0.023027,0.99311,20.601 > view matrix models > #8,0.90761,0.4088,0.095491,-61.613,-0.40379,0.91233,-0.067854,58.589,-0.11486,0.023027,0.99311,81.079 > view matrix models > #8,0.92197,0.38654,-0.023469,-31.118,-0.38024,0.9151,0.1342,1.8039,0.073351,-0.11481,0.99068,62.143 > view matrix models > #8,0.92197,0.38654,-0.023469,28.595,-0.38024,0.9151,0.1342,70.771,0.073351,-0.11481,0.99068,43.548 > view matrix models > #8,0.92197,0.38654,-0.023469,39.088,-0.38024,0.9151,0.1342,71.555,0.073351,-0.11481,0.99068,42.288 > view matrix models > #8,0.92197,0.38654,-0.023469,41.535,-0.38024,0.9151,0.1342,31.417,0.073351,-0.11481,0.99068,63.473 > view matrix models > #8,0.77039,0.30655,-0.55904,190.14,-0.20598,0.94947,0.2368,-2.0019,0.60338,-0.067278,0.79461,97.915 > view matrix models > #8,0.85738,0.4634,0.22397,-17.861,-0.48527,0.87283,0.051752,55.517,-0.17151,-0.15306,0.97322,76.157 > view matrix models > #8,0.80706,0.43022,0.40444,-68.279,-0.52658,0.83429,0.16332,23.339,-0.26715,-0.34478,0.89987,85.185 > view matrix models > #8,0.87814,0.23407,0.41723,-90.927,-0.47734,0.48689,0.7315,-164.42,-0.031919,-0.84152,0.53929,134.19 > view matrix models > #8,0.6897,0.7033,-0.17231,118.86,0.23887,0.003651,0.97104,-302.03,0.68356,-0.71089,-0.16548,307.96 > view matrix models > #8,0.25666,0.94022,0.22386,47.761,-0.92484,0.17165,0.33941,-61.407,0.2807,-0.29415,0.91361,60.978 > view matrix models > #8,0.32206,0.84655,0.42384,-18.152,-0.86279,0.078173,0.49948,-116.1,0.3897,-0.52655,0.75557,81 > view matrix models > #8,0.18948,0.94402,0.27005,38.282,-0.92039,0.074963,0.38375,-81.733,0.34202,-0.32127,0.88307,64.491 > view matrix models > #8,0.29214,0.8194,0.49319,-38.222,-0.79676,-0.076711,0.59941,-159.3,0.52899,-0.56806,0.63046,106.05 > view matrix models > #8,0.54881,0.8106,0.20429,29.586,-0.53284,0.52751,-0.66168,227.18,-0.64412,0.25428,0.72142,200.1 > view matrix models > #8,0.80914,0.50221,0.3051,-35.018,-0.58234,0.61589,0.53062,-93.617,0.078576,-0.60702,0.79079,78.632 > view matrix models > #8,0.80914,0.50221,0.3051,4.3532,-0.58234,0.61589,0.53062,-75.469,0.078576,-0.60702,0.79079,63.86 > view matrix models > #8,0.59459,0.72011,0.35763,17.095,-0.76992,0.63812,-0.0048421,83.018,-0.2317,-0.27247,0.93385,65.286 > view matrix models > #8,0.68833,0.64148,0.33868,11.767,-0.72142,0.65419,0.22714,17.908,-0.075852,-0.40067,0.91308,53.658 > view matrix models > #8,0.68833,0.64148,0.33868,0.20829,-0.72142,0.65419,0.22714,24.973,-0.075852,-0.40067,0.91308,59.625 > view matrix models > #8,0.68833,0.64148,0.33868,3.0675,-0.72142,0.65419,0.22714,29.89,-0.075852,-0.40067,0.91308,57.232 > view matrix models > #8,0.68833,0.64148,0.33868,1.6332,-0.72142,0.65419,0.22714,31.401,-0.075852,-0.40067,0.91308,57.474 > view matrix models > #8,0.68833,0.64148,0.33868,-2.7613,-0.72142,0.65419,0.22714,30.17,-0.075852,-0.40067,0.91308,58.566 > view matrix models > #8,0.68833,0.64148,0.33868,-2.7868,-0.72142,0.65419,0.22714,30.526,-0.075852,-0.40067,0.91308,58.557 > view matrix models > #8,0.68833,0.64148,0.33868,-8.7419,-0.72142,0.65419,0.22714,21.585,-0.075852,-0.40067,0.91308,31.773 > ui tool show ""Fit in Map"" > fitmap #8 inMap #2 Fit molecule t=7-capsid.pdb (#8) to map 2-capsid.mrc (#2) using 17237 atoms average map value = 0.1273, steps = 204 shifted from previous position = 10.9 rotated from previous position = 9.48 degrees atoms outside contour = 13996, contour level = 0.56165 Position of t=7-capsid.pdb (#8) relative to 2-capsid.mrc (#2) coordinates: Matrix rotation and translation 0.18803349 0.00939501 -0.98211768 436.42841888 0.90405057 0.38914130 0.17680953 453.04122451 0.38384368 -0.92113016 0.06467803 432.64726196 Axis -0.55798937 -0.69420198 0.45467733 Axis point -322.60544607 0.00000000 505.81138572 Rotation angle (degrees) 100.31580374 Shift along axis -361.30963007 > view matrix models > #8,0.72837,0.6107,0.31067,-15.053,-0.6839,0.62031,0.38405,-26.099,0.041833,-0.4922,0.86948,26.407 > view matrix models > #8,0.73551,0.61594,0.2822,-7.0634,-0.67399,0.6228,0.39731,-30.011,0.068967,-0.48243,0.87322,24.951 > view matrix models > #8,0.90866,0.35089,0.22631,-20.85,-0.41747,0.77389,0.47626,-51.084,-0.0080208,-0.52723,0.84969,31.275 > view matrix models > #8,0.90866,0.35089,0.22631,-32.325,-0.41747,0.77389,0.47626,-30.129,-0.0080208,-0.52723,0.84969,25.023 > fitmap #8 inMap #2 Fit molecule t=7-capsid.pdb (#8) to map 2-capsid.mrc (#2) using 17237 atoms average map value = 1.242, steps = 112 shifted from previous position = 8.4 rotated from previous position = 6.7 degrees atoms outside contour = 3443, contour level = 0.56165 Position of t=7-capsid.pdb (#8) relative to 2-capsid.mrc (#2) coordinates: Matrix rotation and translation -0.00002505 -0.00003631 -1.00000000 440.00003857 0.99999999 -0.00013546 -0.00002504 440.00061505 -0.00013546 -0.99999999 0.00003631 440.00876700 Axis -0.57735971 -0.57729596 0.57739513 Axis point 293.32782672 586.62160112 0.00000000 Rotation angle (degrees) 120.00410836 Shift along axis -253.98995280 > select subtract #8 Nothing selected > select /A 2471 atoms, 2508 bonds, 1 pseudobond, 338 residues, 2 models selected > select /B 2471 atoms, 2508 bonds, 1 pseudobond, 338 residues, 2 models selected > select /V 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > help help:user > select /V 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > select /V 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > sym chain v group i,222 center 440,440,440 Missing or invalid ""structures"" argument: invalid atomic structures specifier > split Split t=7-capsid.pdb (#8) into 7 models Chain information for t=7-capsid.pdb A #8.1 --- Chain | Description A | No description available Chain information for t=7-capsid.pdb B #8.2 --- Chain | Description B | No description available Chain information for t=7-capsid.pdb C #8.3 --- Chain | Description C | No description available Chain information for t=7-capsid.pdb D #8.4 --- Chain | Description D | No description available Chain information for t=7-capsid.pdb E #8.5 --- Chain | Description E | No description available Chain information for t=7-capsid.pdb F #8.6 --- Chain | Description F | No description available Chain information for t=7-capsid.pdb V #8.7 --- Chain | Description V | No description available > hide #!8.1-7 target m > close #8.1-7 > hide #8 models > show #8 models > open ""D:/e1004/e1004-painting/atom model/capsid/wujuti.pdb"" Chain information for wujuti.pdb #9 --- Chain | Description V | No description available > hide #8 models > hide #!2 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > color bychain > hide atoms > show cartoons > hide #!9 models > show #!9 models > close #9 > show #!2 models > open ""D:/e1004/e1004-painting/atom model/capsid/wujuti.pdb"" Chain information for wujuti.pdb #9 --- Chain | Description V | No description available > color bychain > hide atoms > show cartoons > hide #!2 models > show #!1 models > hide #!1 models > show #!2 models > show #!3 models > hide #!3 models > select add #9 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > view matrix models > #9,0.99448,-0.077647,-0.070632,36.863,0.076143,0.99681,-0.023739,-8.2196,0.07225,0.01823,0.99722,-17.696 > view matrix models > #9,0.99314,-0.086602,-0.078586,41.203,0.084734,0.99604,-0.0268,-8.9552,0.080596,0.019957,0.99655,-19.564 > view matrix models > #9,0.99314,-0.086602,-0.078586,-211.34,0.084734,0.99604,-0.0268,-165.14,0.080596,0.019957,0.99655,-95.751 > view matrix models > #9,0.99314,-0.086602,-0.078586,-219.53,0.084734,0.99604,-0.0268,-92.785,0.080596,0.019957,0.99655,28.532 > view matrix models > #9,0.99314,-0.086602,-0.078586,-169.88,0.084734,0.99604,-0.0268,-277.18,0.080596,0.019957,0.99655,40.439 > view matrix models > #9,0.99314,-0.086602,-0.078586,-175.88,0.084734,0.99604,-0.0268,-219.57,0.080596,0.019957,0.99655,75.206 > view matrix models > #9,0.9411,0.21005,-0.26498,-197.91,-0.27701,0.029503,-0.96041,307.51,-0.19392,0.97724,0.085952,95.453 > view matrix models > #9,0.44581,-0.62609,0.63973,-100.95,-0.53176,-0.76015,-0.37337,420.05,0.72006,-0.17373,-0.67181,385.99 > view matrix models > #9,0.4543,-0.35238,0.81819,-212.59,0.58883,-0.57043,-0.57262,204.93,0.6685,0.74192,-0.051658,22.401 > view matrix models > #9,0.4543,-0.35238,0.81819,-169.37,0.58883,-0.57043,-0.57262,150.25,0.6685,0.74192,-0.051658,25.677 > view matrix models > #9,0.42819,-0.38807,0.81612,-154.93,0.5544,-0.60038,-0.57635,165.21,0.71365,0.69925,-0.041932,25.611 > view matrix models > #9,0.2738,-0.49263,0.82604,-101.49,0.4998,-0.66091,-0.55981,187.05,0.82172,0.56614,0.065264,13.967 > view matrix models > #9,0.67676,-0.35007,0.64764,-173.05,0.37181,-0.59675,-0.71109,229.99,0.63542,0.72204,-0.2737,88.029 > view matrix models > #9,0.74545,-0.27336,0.60793,-196.32,0.41245,-0.5273,-0.74285,212.06,0.52363,0.8045,-0.28033,90.024 > view matrix models > #9,0.74545,-0.27336,0.60793,-210.34,0.41245,-0.5273,-0.74285,209.23,0.52363,0.8045,-0.28033,98.299 > view matrix models > #9,0.74545,-0.27336,0.60793,-211.96,0.41245,-0.5273,-0.74285,206.43,0.52363,0.8045,-0.28033,99.357 > view matrix models > #9,0.74545,-0.27336,0.60793,-209.13,0.41245,-0.5273,-0.74285,208.2,0.52363,0.8045,-0.28033,98.153 > view matrix models > #9,0.55262,-0.46016,0.69488,-145.36,0.44455,-0.5425,-0.71279,199.02,0.70497,0.70281,-0.095235,46.746 > view matrix models > #9,0.55262,-0.46016,0.69488,-144.67,0.44455,-0.5425,-0.71279,200.64,0.70497,0.70281,-0.095235,46.272 > view matrix models > #9,0.49495,-0.49134,0.71667,-130.85,0.48386,-0.52922,-0.697,186.19,0.72174,0.69174,-0.02419,29.54 > fitmap #9 inMap #2 Fit molecule wujuti.pdb (#9) to map 2-capsid.mrc (#2) using 2411 atoms average map value = 1.358, steps = 208 shifted from previous position = 6.53 rotated from previous position = 17.4 degrees atoms outside contour = 319, contour level = 0.56165 Position of wujuti.pdb (#9) relative to 2-capsid.mrc (#2) coordinates: Matrix rotation and translation -0.80916891 -0.49985891 0.30884743 373.17300997 0.49972613 -0.30897217 0.80920330 260.91865585 -0.30906222 0.80912129 0.49980324 328.91514127 Axis -0.00006979 0.52581246 0.85060052 Axis point 178.64199773 100.04534718 0.00000000 Rotation angle (degrees) 144.01481235 Shift along axis 416.94362900 > select subtract #9 Nothing selected > select add #9 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > select subtract #9 Nothing selected > select add #9 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > select subtract #9 Nothing selected > select add #9 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > sym #9 group i,222 center 440,440,440 Expected a keyword > sym #9 group i,222 center 440,440,440 Expected a keyword > sym #9 group i,222 center440,440,440 Expected a keyword > sym #9 center 440,440,440 group i,222 Expected a keyword > sym #9 center 440,440,440 group i,n25r Expected a keyword > help help:user > sym #9 center 440,440,440 group i,n25r Expected a keyword > sym #9 center 440,440,440 group i,n25r Expected a keyword > symmertry #9 center 440,440,440 group i,n25r Unknown command: symmertry #9 center 440,440,440 group i,n25r > help help:user > sym #9 group i,222 center 440,440,440 Expected a keyword > sym #8 group i,222 center 440,440,440 Expected a keyword > select subtract #9 Nothing selected > select add #9 2411 atoms, 2446 bonds, 1 pseudobond, 329 residues, 2 models selected > sym #9 group i,222 center 440,440,440 Expected a keyword > sym #9 group i,222 center 440,440,440 Expected a keyword > sym #9 group i,222 center 440,440,440 Expected a keyword > help help:user > sym /9 group i,222 center 440,440,440 Expected a keyword > sym #7 group i,222 center 440,440,440 Expected a keyword > close #9 > open D:/e1004/e1004-painting/overall/capsid/pentamer-sym.pdb Chain information for pentamer-sym.pdb #9 --- Chain | Description V | No description available > sym Missing or invalid ""structures"" argument: empty atom specifier > sym #9 pentamer-sym.pdb mmCIF Assemblies --- > sym #9 pentamer-sym.pdb mmCIF Assemblies --- > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > Sym #9 Unknown command: Sym #9 > sym Missing or invalid ""structures"" argument: empty atom specifier > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 target m > show #!6 models > show #!7 models > hide #!7 models > hide #!6 models > open D:/e1004/e1004-painting/overall/capsid/vertex.pdb Chain information for vertex.pdb #10 --- Chain | Description 0 1 2 3 4 5 6 7 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h i j k l m n o p q r s t u v w x y z | No description available > style #!10 sphere Changed 144660 atom styles > color #!10 bychain > hide #!10 atoms > show #!10 cartoons > show #!9 models > hide #!9 models > close #9 > select add #10 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 2 models selected > view matrix models > #10,0.99936,-0.032555,-0.014816,21.125,0.032612,0.99946,0.0036437,-15.716,0.01469,-0.0041246,0.99988,-4.5974 > view matrix models > #10,0.99936,-0.032555,-0.014816,-597.29,0.032612,0.99946,0.0036437,-93.955,0.01469,-0.0041246,0.99988,-323.73 > view matrix models > #10,0.98583,-0.096061,0.1375,-630.41,0.088864,0.99438,0.057569,-140.2,-0.14226,-0.044534,0.98883,-232.02 > view matrix models > #10,0.98583,-0.096061,0.1375,-629.16,0.088864,0.99438,0.057569,-139.78,-0.14226,-0.044534,0.98883,-232.03 > view matrix models > #10,0.99402,-0.072031,0.0821,-618.95,0.069206,0.99693,0.036757,-123.1,-0.084495,-0.030855,0.99595,-266.6 > view matrix models > #10,0.99402,-0.072031,0.0821,-310.87,0.069206,0.99693,0.036757,-299.01,-0.084495,-0.030855,0.99595,-296.82 > view matrix models > #10,0.99402,-0.072031,0.0821,-425.43,0.069206,0.99693,0.036757,-607.95,-0.084495,-0.030855,0.99595,-384.41 > view matrix models > #10,0.96038,0.02115,-0.27789,-293.23,0.083546,0.92941,0.35947,-726.54,0.26588,-0.36844,0.89082,-343.78 > view matrix models > #10,0.80725,0.58232,0.096171,-637.36,-0.55723,0.69826,0.44936,-382.45,0.19452,-0.41633,0.88816,-290.14 > view matrix models > #10,0.74374,0.42257,0.51797,-724.71,-0.53833,0.83799,0.08932,-293.83,-0.39631,-0.34527,0.85072,-44.974 > view matrix models > #10,0.95068,0.30931,0.023283,-548.27,-0.29054,0.86166,0.41608,-557.05,0.10863,-0.40232,0.90903,-267.7 > view matrix models > #10,0.95735,0.14476,-0.25006,-358.53,0.01374,0.84166,0.53984,-736.58,0.28861,-0.52025,0.80377,-248.69 > view matrix models > #10,0.96175,0.20912,-0.17692,-420.97,-0.10729,0.88186,0.45914,-665.51,0.25203,-0.4226,0.87057,-304.95 > view matrix models > #10,0.96175,0.20912,-0.17692,-507.5,-0.10729,0.88186,0.45914,-614.44,0.25203,-0.4226,0.87057,-313.68 > view matrix models > #10,0.95798,0.15572,-0.24086,-454.21,-0.025311,0.8824,0.46982,-655.45,0.2857,-0.44399,0.84926,-309.71 > view matrix models > #10,0.95798,0.15572,-0.24086,-437.7,-0.025311,0.8824,0.46982,-654.81,0.2857,-0.44399,0.84926,-278.94 > view matrix models > #10,0.99516,0.063348,-0.075091,-486.35,-0.05733,0.99516,0.079765,-518.71,0.079781,-0.075074,0.99398,-414.34 > view matrix models > #10,0.90334,-0.42892,0.0022249,-263.38,0.42686,0.89847,-0.10267,-608.94,0.042036,0.093693,0.99471,-472.31 > view matrix models > #10,0.90334,-0.42892,0.0022249,-222.23,0.42686,0.89847,-0.10267,-588.61,0.042036,0.093693,0.99471,-473.71 > view matrix models > #10,0.81872,-0.54936,-0.16706,-57.51,0.57017,0.81221,0.12338,-713.17,0.06791,-0.19626,0.9782,-350.25 > view matrix models > #10,0.49078,-0.73591,-0.46645,300.59,0.78931,0.60223,-0.11964,-610.28,0.36895,-0.30946,0.87642,-388.12 > view matrix models > #10,0.49078,-0.73591,-0.46645,289.06,0.78931,0.60223,-0.11964,-572.75,0.36895,-0.30946,0.87642,-393.95 > view matrix models > #10,-0.94351,-0.26342,-0.20101,595.47,0.30373,-0.44507,-0.84241,419.73,0.13245,-0.85587,0.49994,116.19 > view matrix models > #10,-0.85615,0.51411,0.051944,103.62,-0.18079,-0.20387,-0.96216,579.48,-0.48406,-0.83315,0.26749,479.73 > view matrix models > #10,-0.69008,0.40301,-0.60115,366.79,0.47218,-0.37879,-0.79597,296.02,-0.54849,-0.83313,0.071102,594.48 > fitmap #10 inMap #2 Fit molecule vertex.pdb (#10) to map 2-capsid.mrc (#2) using 144660 atoms average map value = 1.357, steps = 208 shifted from previous position = 20.4 rotated from previous position = 4.51 degrees atoms outside contour = 19129, contour level = 0.56165 Position of vertex.pdb (#10) relative to 2-capsid.mrc (#2) coordinates: Matrix rotation and translation 0.30900599 0.80901073 0.50001693 -271.93468651 -0.80901715 0.49999956 -0.30901728 711.93526941 -0.50000654 -0.30903408 0.80900642 440.02012606 Axis -0.00000883 0.52574148 -0.85064440 Axis point 439.99728324 711.94379710 0.00000000 Rotation angle (degrees) 72.00066330 Shift along axis -0.00435681 > color (#!10 & sel) forest green > hide #!2 models > ui tool show ""Color Actions"" > color #10 #ffaaffff > color #10 #ffb8f8ff > color #10 #ffcaffff > color #10 #f894ffff > color #10 #f569ffff > color #10 #ff98fdff > show #!2 models > ui tool show ""Color Zone"" > color zone #2 near #10 distance 4.39 > color zone #2 near #10 distance 3.82 > color zone #2 near #10 distance 3 [Repeated 1 time(s)] > color #10 #ffaaffff > color #10 #ff7ef4ff > color #10 #ff80f4ff > color #10 #ff557fff > color zone #2 near #10 distance 3 > color #10 #ff6b86ff > color #10 #ff7998ff > color #10 #ff6b92ff > color #10 #ff73a9ff > color #10 #ea6a9bff > color zone #2 near #10 distance 3 > color #10 #da6290ff > color #10 #da4f7bff > color #10 #fa5a8dff > color zone #2 near #10 distance 3 > color #2 #ffaaffff models > color #2 #ff557fff models > color #2 #ff97b6ff models > color #2 #ffafceff models > color #2 #ff9dd5ff models > color #2 #ffb2deff models > color #2 #da98bdff models > color #2 #eca5cdff models > color #2 #ec94b7ff models > color #2 #eca3c0ff models > color #2 #ec85a6ff models > color #2 #ec92afff models > color #2 #eca6c1ff models > color #2 #ecb4c7ff models > color zone #2 near #10 distance 3 > color #2 #ecd4dfff models > color #2 #ecc1d3ff models > color #2 #ecbfd2ff models > color #2 #ecc4d5ff models > color #2 #ddb8c8ff models > color zone #2 near #10 distance 3 > color #10 #fa72a8ff > color #10 #fa7bb2ff > color zone #2 near #10 distance 3 > color #10 #ff557fff > color #10 #ff5500ff > color #10 #ff7e14ff > color #10 #ffaa7fff > color #10 #f3a279ff > color #10 #cb8765ff > color zone #2 near #10 distance 3 > show #!3 models > show #!5 models > show #!6 models > color #3 #63ffffff models > color #3 #ffaa00ff models > color #3 #ffb41eff models > color #3 #ff7e42ff models > color #2 #ddccdcff models > color #2 #ffaa00ff models > color #2 #ffe0ddff models > color #2 #ffc8beff models > color zone #2 near #10 distance 3 > color #3 #ffa274ff models > color #3 #ff8349ff models > color #3 #ff854cff models > color #3 #ff8750ff models > color #3 #aaaa7fff models > color #3 #9daa63ff models > color #3 #9eaa61ff models > color #3 #aaa15dff models > color #5 #555500ff models > color #5 white models > graphics silhouettes true > lighting simple > lighting shadows true > lighting shadows false > lighting soft [Repeated 1 time(s)] > lighting simple > lighting full > color #3 #00aa7fff models > color #3 #aaa129ff models > color #3 #9faa2bff models > color #3 #5baa49ff models > color #3 #65aa7bff models > color #3 #6baa7fff models > color #5 #55aaffff models > color #5 #ffaa7fff models > color #5 #ffaa00ff models > color #5 #ffd454ff models > color #5 cyan models > color #3 #ff5500ff models > color #3 #ff973cff models > color #3 #ff7070ff models > color #3 #ff7373ff models > color #3 #ff9a86ff models > color #3 #bbffb3ff models > color #3 #ff5454ff models > color #3 #ffa16bff models > color #3 #d8ff98ff models > color #3 #55557fff models > color #3 #55007fff models > color #3 #5500ffff models > color #3 #00007fff models > color #3 #aa557fff models > color #3 #ffaa00ff models > color #3 #aaffffff models > color #3 #aaaa7fff models > color #5 #00aa7fff models > color #5 #00aa00ff models > color #5 #00aaffff models > color #5 #55aa7fff models > color #5 #44aa55ff models > color #5 #78aa8aff models > color #5 #68aa80ff models > color #5 #66aa82ff models > color #3 #55aaffff models > color #3 #60daffff models > color #3 #60d5ffff models > color #3 yellow models > color #3 #a5ff14ff models > color #3 #b9ff6eff models > color #3 #aaaa00ff models > color #3 #99aa28ff models > color #3 #94aa28ff models > color #3 #ffaa7fff models > color #3 #ffb08cff models > color #3 #ff9966ff models > color #3 #ffdb58ff models > color #3 #ffe358ff models > color #3 #aa5500ff models > color #3 #ea7500ff models > color #3 #ea8f1fff models > color #3 #ea9a3fff models > color #3 #eaab17ff models > color #3 #ea2acaff models > color #3 #d1ea31ff models > color #3 #ffaaffff models > color #3 white models > color #5 white models > color #3 yellow models > color #3 #ffaa7fff models > color #3 #bf7f5fff models > color #3 #bf994dff models > color #3 #8dbf4cff models > color #3 #76bf32ff models > color #3 #69aa2dff models > color #3 #5f9928ff models > color #3 #538623ff models > color #3 #629f2aff models > color #3 #72b830ff models > color #3 #67a72cff models > color #3 #54a736ff models > color #3 #3ea71eff models > color #3 #6aa741ff models > color #3 white models > color #2 #ffd3caff models > color #2 #ffd4c7ff models > color #2 #ffd7cbff models > color #2 #ffd0c4ff models > color #2 #ffcdc4ff models > color #10 #ffcdc4ff > color #10 #ffc5b2ff > color #10 #ffb9a1ff > color zone #2 near #10 distance 3 > color #6 #ffc6beff models > color #6 #ffd4c9ff models > color #6 #ffd5cfff models > color #6 #ffdbdbff models > color #6 #ffdcdcff models > color #2 #ffe0deff models > color #2 #ffd2d0ff models > color zone #2 near #10 distance 3 > color #10 #ffb69dff > color #10 #ffbaa5ff > color #10 #ffd5c4ff > color zone #2 near #10 distance 3 > color #10 #ffd4c6ff > color #10 #ffd9caff > color #10 #ffd3c2ff > color #10 #ffd5c5ff > color zone #2 near #10 distance 3 [Repeated 1 time(s)] > color #10 #ffc6b8ff > color zone #2 near #10 distance 3 [Repeated 1 time(s)] > color #2 #ffe2ddff models > color zone #2 near #10 distance 3 [Repeated 1 time(s)] > set bgColor white > set bgColor #ffffff00 > show #!7 models > hide #!7 models > show #!7 models > hide #!7 models > show #!7 models > hide #!7 models > open C:/Users/SBN/Desktop/capsid-resample-lp5.5.mrc Opened capsid-resample-lp5.5.mrc as #9, grid size 800,800,800, pixel 1.1, shown at step 1, values float32 > volume #9 level 7.786e-06,0 level 0.3828,0.8 level 1.099,1 > volume #9 region 0,0,0,799,799,799 step 4 [Repeated 1 time(s)] > volume #9 step 1 > select subtract #10 Nothing selected > select add #9 3 models selected > ui mousemode right ""translate selected models"" > view matrix models #9,1,0,0,7.9704,0,1,0,-31.537,0,0,1,6.3325 > view matrix models #9,1,0,0,27.578,0,1,0,-109.16,0,0,1,22.114 > lighting simple > view matrix models #9,1,0,0,15.977,0,1,0,-60.929,0,0,1,1.2504 > ui mousemode right ""rotate selected models"" > view matrix models > #9,0.45969,-0.30375,-0.83452,15.977,0.42557,0.90011,-0.0932,-60.929,0.77947,-0.3123,0.54304,1.2504 > view matrix models > #9,0.94874,-0.25816,-0.18235,15.977,0.2936,0.93348,0.20596,-60.929,0.11704,-0.24894,0.96142,1.2504 > view matrix models > #9,0.98131,0.18536,0.051595,15.977,-0.1924,0.94752,0.2553,-60.929,-0.0015645,-0.26046,0.96548,1.2504 > view matrix models > #9,-0.75483,-0.36315,-0.54622,15.977,0.64227,-0.5782,-0.50316,-60.929,-0.13311,-0.73062,0.66968,1.2504 > view matrix models > #9,-0.81912,-0.21516,-0.53174,15.977,0.53745,-0.61185,-0.58034,-60.929,-0.20048,-0.76115,0.61681,1.2504 > ui mousemode right ""translate selected models"" > view matrix models > #9,-0.81912,-0.21516,-0.53174,7.0353,0.53745,-0.61185,-0.58034,-15.099,-0.20048,-0.76115,0.61681,33.396 > view matrix models > #9,-0.81912,-0.21516,-0.53174,10.296,0.53745,-0.61185,-0.58034,-35.024,-0.20048,-0.76115,0.61681,32.941 > ui mousemode right ""rotate selected models"" > view matrix models > #9,-0.64934,-0.55839,-0.51629,10.296,0.75786,-0.53161,-0.37821,-35.024,-0.063276,-0.63686,0.76837,32.941 > fitmap #9 inMap #2 Fit map capsid-resample-lp5.5.mrc in map 2-capsid.mrc using 5110266 points correlation = 0.1523, correlation about mean = 0.01079, overlap = 2.863e+05 steps = 284, shift = 37.5, angle = 3 degrees Position of capsid-resample-lp5.5.mrc (#9) relative to 2-capsid.mrc (#2) coordinates: Matrix rotation and translation -0.24136566 0.87772315 -0.41393802 439.26987754 -0.85560440 -0.39374775 -0.33601164 439.47326048 -0.45791236 0.27306552 0.84602097 439.97311380 Axis 0.33142508 0.02392833 -0.94317806 Axis point 452.60876041 41.91116330 0.00000000 Rotation angle (degrees) 113.23767578 Shift along axis -258.87207563 > fitmap #9 inMap #7 Fit map capsid-resample-lp5.5.mrc in map symmismatch_ort-6.mrc using 5110266 points correlation = 0.9116, correlation about mean = 0.1882, overlap = 2.146e+07 steps = 148, shift = 0.905, angle = 7.62 degrees Position of capsid-resample-lp5.5.mrc (#9) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation -0.58779876 -0.68818366 -0.42531854 -0.00499104 0.80900718 -0.49998999 -0.30905888 -0.02060855 0.00003426 -0.52575018 0.85063902 0.00518397 Axis -0.13789243 -0.27067507 0.95274377 Axis point 0.00235717 -0.01044577 0.00000000 Rotation angle (degrees) 128.21213797 Shift along axis 0.01120544 > hide #!9 models > show #!9 models > hide #!2 models > lighting shadows true > lighting shadows false > lighting full [Repeated 3 time(s)] > lighting simple > lighting full > show #!2 models > hide #!9 models > show #!9 models > hide #!2 models > volume #9 level 0.2984 > volume #2 level 0.2 > volume #2 change image level 0.0003141,0 level 0.804,0.8 level 3.836,1 > show #!2 models > hide #!9 models > show #!9 models > hide #!2 models > close #9 > show #!2 models > lighting simple [Repeated 1 time(s)] > volume #2 level 0.5 > hide #!2 models > hide #!3 models > hide #!6 models > hide #!5 models > show #!7 models > hide #!10 models > set bgColor black > set bgColor transparent > open D:/e1004/e1004-painting/split/7-fiber.mrc > D:/e1004/e1004-painting/split/adaptor-resample-lp5.mrc > D:/e1004/e1004-painting/split/capsid-resample-lp7-eraser.mrc > D:/e1004/e1004-painting/split/core-resample-lp5.mrc > D:/e1004/e1004-painting/split/nozzle-resample-lp5.mrc > D:/e1004/e1004-painting/split/portal-resample-lp5.mrc Opened 7-fiber.mrc as #9.1, grid size 512,512,512, pixel 2.2, shown at level 0.886, step 2, values float32 Opened adaptor-resample-lp5.mrc as #9.2, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 Opened capsid-resample-lp7-eraser.mrc as #9.3, grid size 800,800,800, pixel 1.1, shown at step 1, values float32 Opened core-resample-lp5.mrc as #9.4, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 Opened nozzle-resample-lp5.mrc as #9.5, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 Opened portal-resample-lp5.mrc as #9.6, grid size 720,720,720, pixel 1.1, shown at step 1, values float32 > ui tool show ""Side View"" > ui tool show ""Hide Dust"" > surface dust #9.1 size 13.2 > surface dust #9.1 size 38.25 > surface dust #9.1 size 194.73 > surface dust #9.1 size 50.18 > volume #9.6 level -2.165e-05,0 level 0.02745,0.8 level 0.2747,1 > volume #9.6 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #9.6 level 0.02729 > volume #9.6 step 1 > select add #9.1 2 models selected > ui mousemode right ""translate selected models"" > view matrix models #9.1,1,0,0,-25.063,0,1,0,-29.351,0,0,1,31.864 > view matrix models #9.1,1,0,0,-9.7869,0,1,0,-42.646,0,0,1,31.633 > fitmap #9.1 inMap #7 Fit map 7-fiber.mrc in map symmismatch_ort-6.mrc using 167753 points correlation = 0.9989, correlation about mean = 0.9937, overlap = 2.769e+05 steps = 120, shift = 20.4, angle = 0.000491 degrees Position of 7-fiber.mrc (#9.1) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 1.00000000 0.00000372 0.00000747 0.01502157 -0.00000372 1.00000000 0.00000198 0.04890833 -0.00000747 -0.00000198 1.00000000 -0.22430304 Axis -0.23107506 0.87096380 -0.43362008 Axis point -22112.77513952 0.00000000 -6230.79554166 Rotation angle (degrees) 0.00049135 Shift along axis 0.13638858 > volume #9.1 level 1 > volume #9.1 level 1.2 > select clear > select add #9.6 3 models selected > ui mousemode right ""translate selected models"" [Repeated 1 time(s)] > view matrix models #9.6,1,0,0,-28.428,0,1,0,-261.92,0,0,1,170.2 > view matrix models #9.6,1,0,0,-28.014,0,1,0,-257.52,0,0,1,143.94 > view matrix models #9.6,1,0,0,-84.849,0,1,0,-251.25,0,0,1,144.09 > view matrix models #9.6,1,0,0,-216.28,0,1,0,-236.75,0,0,1,144.46 > fitmap #9.6 inMap #6 Fit map portal-resample-lp5.mrc in map portal-resample.mrc using 429457 points correlation = 0.9209, correlation about mean = 0.8607, overlap = 1.404e+04 steps = 164, shift = 18.8, angle = 10.9 degrees Position of portal-resample-lp5.mrc (#9.6) relative to portal-resample.mrc (#6) coordinates: Matrix rotation and translation 1.00000000 0.00002927 -0.00006291 0.00319543 -0.00002928 0.99999998 -0.00019815 0.03124073 0.00006291 0.00019815 0.99999998 -0.04488030 Axis 0.94380563 -0.29964753 -0.13943559 Axis point 0.00000000 226.57174851 157.50587632 Rotation angle (degrees) 0.01202926 Shift along axis -0.00008743 > hide #!7 models > select add #6 6 models selected > select subtract #6 3 models selected > show #!6 models > hide #!9.6 models > show #!9.6 models > hide #!9.6 models > show #!9.6 models > volume #9.6 level 0.06348 > volume #9.6 level 0.05599 > volume #9.5 level -1.189e-09,0 level 2.893e-09,0.8 level 1.256e-07,1 > volume #9.5 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #9.5 step 1 > show #!5 models > select subtract #9.6 Nothing selected > select add #9.5 3 models selected > ui mousemode right ""translate selected models"" > view matrix models #9.5,1,0,0,-27.911,0,1,0,-255.55,0,0,1,102.81 > view matrix models #9.5,1,0,0,-107.46,0,1,0,-246.78,0,0,1,103.03 > view matrix models #9.5,1,0,0,-223.37,0,1,0,-233.99,0,0,1,103.35 > view matrix models #9.5,1,0,0,-224.06,0,1,0,-230.22,0,0,1,121.6 > view matrix models #9.5,1,0,0,-233.15,0,1,0,-229.22,0,0,1,121.62 > fitmap #9.5 inMap #5 Fit map nozzle-resample-lp5.mrc in map nozzle-resample.mrc using 654550 points correlation = 0.2208, correlation about mean = 0.06129, overlap = 4211 steps = 160, shift = 6.85, angle = 13.3 degrees Position of nozzle-resample-lp5.mrc (#9.5) relative to nozzle-resample.mrc (#5) coordinates: Matrix rotation and translation 0.99915973 -0.03751852 0.01649852 -2.18064696 0.03756695 0.99929064 -0.00263499 -8.85326189 -0.01638796 0.00325258 0.99986042 -7.10632230 Axis 0.07163988 0.40016259 0.91363977 Axis point 126.32219747 -41.49066164 0.00000000 Rotation angle (degrees) 2.35502667 Shift along axis -10.19158417 > volume #9.5 level 0.07456 > hide #!5 models > hide #!6 models > view matrix models > #9.5,0.97317,-0.22943,0.017202,-183.39,0.22944,0.97332,0.0016002,-276.9,-0.01711,0.0023896,0.99985,48.319 > show #!5 models > view matrix models > #9.5,0.97317,-0.22943,0.017202,-182.42,0.22944,0.97332,0.0016002,-270.22,-0.01711,0.0023896,0.99985,134.81 > fitmap #9.5 inMap #5 Fit map nozzle-resample-lp5.mrc in map nozzle-resample.mrc using 301931 points correlation = 0.9367, correlation about mean = 0.8944, overlap = 2.327e+04 steps = 92, shift = 4.39, angle = 2.36 degrees Position of nozzle-resample-lp5.mrc (#9.5) relative to nozzle-resample.mrc (#5) coordinates: Matrix rotation and translation 0.99999999 0.00013753 0.00007667 -0.05460103 -0.00013753 0.99999999 -0.00003153 0.03798285 -0.00007667 0.00003152 1.00000000 -0.00140621 Axis 0.19629765 0.47745161 -0.85645034 Axis point 246.21499349 409.32489380 0.00000000 Rotation angle (degrees) 0.00920088 Shift along axis 0.00862127 > hide #!5 models > select clear > select add #9.2 2 models selected > volume #9.4 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #9.4 step 1 > volume #9.4 change image level -1.368e-09,0 level 8.284e-09,0.8 level > 1.319e-07,1 > volume #9.4 level 0.08331 > show #!4 models > select add #9.4 5 models selected > select add #9.2 5 models selected > select add #9.2 5 models selected > select add #9.4 5 models selected > select add #9.4 5 models selected > select add #9.2 5 models selected > ui mousemode right ""translate selected models"" [Repeated 1 time(s)] > view matrix models > #9.2,1,0,0,45.791,0,1,0,-126.54,0,0,1,126.83,#9.4,1,0,0,45.791,0,1,0,-126.54,0,0,1,126.83 > view matrix models > #9.2,1,0,0,-29.653,0,1,0,-154.48,0,0,1,126.19,#9.4,1,0,0,-29.653,0,1,0,-154.48,0,0,1,126.19 > view matrix models > #9.2,1,0,0,-214.07,0,1,0,-222.79,0,0,1,124.63,#9.4,1,0,0,-214.07,0,1,0,-222.79,0,0,1,124.63 > view matrix models > #9.2,1,0,0,-293.71,0,1,0,-252.28,0,0,1,123.95,#9.4,1,0,0,-293.71,0,1,0,-252.28,0,0,1,123.95 > view matrix models > #9.2,1,0,0,-291.77,0,1,0,-257.53,0,0,1,125,#9.4,1,0,0,-291.77,0,1,0,-257.53,0,0,1,125 [Repeated 1 time(s)] > view matrix models > #9.2,1,0,0,-264.53,0,1,0,-247.44,0,0,1,125.23,#9.4,1,0,0,-264.53,0,1,0,-247.44,0,0,1,125.23 > fitmap #9.4 inMap #4 Fit map core-resample-lp5.mrc in map core-resample.mrc using 473149 points correlation = 0.1015, correlation about mean = 0.01648, overlap = 1109 steps = 100, shift = 3.89, angle = 2.11 degrees Position of core-resample-lp5.mrc (#9.4) relative to core-resample.mrc (#4) coordinates: Matrix rotation and translation 0.98474737 0.17200614 -0.02620109 -70.60392087 -0.17259149 0.98474785 -0.02199678 30.32708192 0.02201789 0.02618336 0.99941465 -11.10570798 Axis 0.13715800 -0.13726857 -0.98099186 Axis point 136.23430601 420.19970165 0.00000000 Rotation angle (degrees) 10.11575031 Shift along axis -2.95223860 > select clear > select add #9.4 3 models selected > view matrix models > #9.4,0.99977,-0.0025886,-0.021398,-249.33,0.0019484,0.99955,-0.029883,-219.98,0.021466,0.029835,0.99932,118.19 > view matrix models > #9.4,0.99977,-0.0025886,-0.021398,-232.58,0.0019484,0.99955,-0.029883,-228.59,0.021466,0.029835,0.99932,118.81 > view matrix models > #9.4,0.99977,-0.0025886,-0.021398,-229.23,0.0019484,0.99955,-0.029883,-222.19,0.021466,0.029835,0.99932,117.28 > view matrix models > #9.4,0.99977,-0.0025886,-0.021398,-230.01,0.0019484,0.99955,-0.029883,-221.93,0.021466,0.029835,0.99932,117.22 > view matrix models > #9.4,0.99977,-0.0025886,-0.021398,-232.17,0.0019484,0.99955,-0.029883,-228.55,0.021466,0.029835,0.99932,116.8 > fitmap #9.4 inMap #4 Fit map core-resample-lp5.mrc in map core-resample.mrc using 473149 points correlation = 0.9475, correlation about mean = 0.8109, overlap = 2.554e+04 steps = 124, shift = 9.47, angle = 10.1 degrees Position of core-resample-lp5.mrc (#9.4) relative to core-resample.mrc (#4) coordinates: Matrix rotation and translation 0.99999999 -0.00011193 -0.00007752 0.01671824 0.00011194 0.99999998 0.00014367 -0.01319370 0.00007750 -0.00014368 0.99999999 0.03038175 Axis -0.72586281 -0.39157647 0.56550072 Axis point 0.00000000 171.25087705 64.01762486 Rotation angle (degrees) 0.01134129 Shift along axis 0.01021209 > select clear > hide #!4 models > show #!4 models > hide #!9.4 models > show #!9.4 models > hide #!9.4 models > show #!9.4 models > hide #!9.4 models > show #!9.4 models > hide #!4 models > volume #9.4 level 0.09177 > volume #9.4 level 0.08472 > volume #9.2 region 0,0,0,719,719,719 step 4 [Repeated 1 time(s)] > volume #9.2 change image level -8.32e-06,0 level 0.02602,0.8 level 0.2603,1 > volume #9.2 step 1 > volume #9.2 level 0.04335 > volume #9.2 level 0.04475 > volume #9.2 level 0.05453 > select add #9.5 3 models selected > select add #9.5 3 models selected > select add #9.5 3 models selected > select add #9.5 3 models selected > select clear > select add #9.2 3 models selected > show #!3 models > view matrix models #9.2,1,0,0,-232.75,0,1,0,-258.36,0,0,1,136.87 > view matrix models #9.2,1,0,0,-218.96,0,1,0,-220,0,0,1,135.21 > view matrix models #9.2,1,0,0,-215.71,0,1,0,-221.31,0,0,1,132.03 > view matrix models #9.2,1,0,0,-220.23,0,1,0,-233.88,0,0,1,132.57 > fitmap #9.2 inMap #3 Fit map adaptor-resample-lp5.mrc in map adaptor-resample.mrc using 133525 points correlation = 0.9279, correlation about mean = 0.8608, overlap = 1.074e+04 steps = 124, shift = 6.63, angle = 11.6 degrees Position of adaptor-resample-lp5.mrc (#9.2) relative to adaptor-resample.mrc (#3) coordinates: Matrix rotation and translation 1.00000000 -0.00002901 0.00000171 0.00501547 0.00002901 1.00000000 -0.00000015 -0.00597167 -0.00000171 0.00000015 1.00000000 0.02638708 Axis 0.00500982 0.05888369 0.99825228 Axis point 258.62591181 168.37271599 0.00000000 Rotation angle (degrees) 0.00166525 Shift along axis 0.02601445 > view matrix models > #9.2,0.97942,-0.20181,-0.0013896,-182.12,0.2018,0.97942,-0.002844,-269.37,0.0019349,0.002505,0.99999,128.75 > view matrix models > #9.2,0.97942,-0.20181,-0.0013896,-187.11,0.2018,0.97942,-0.002844,-267.64,0.0019349,0.002505,0.99999,127.16 > ui mousemode right ""rotate selected models"" > view matrix models > #9.2,0.98572,-0.16813,-0.0089302,-193.36,0.16804,0.98572,-0.010702,-260.47,0.010602,0.0090483,0.9999,124.17 > view matrix models > #9.2,0.99094,-0.13376,-0.012101,-200.5,0.13363,0.99097,-0.011196,-254.59,0.013489,0.0094772,0.99986,123.52 > ui mousemode right ""translate selected models"" > view matrix models > #9.2,0.99094,-0.13376,-0.012101,-198.72,0.13363,0.99097,-0.011196,-255.08,0.013489,0.0094772,0.99986,126.95 > view matrix models > #9.2,0.99094,-0.13376,-0.012101,-198.49,0.13363,0.99097,-0.011196,-254.45,0.013489,0.0094772,0.99986,126.92 > fitmap #9.2 inMap #3 Fit map adaptor-resample-lp5.mrc in map adaptor-resample.mrc using 133525 points correlation = 0.9275, correlation about mean = 0.8603, overlap = 1.076e+04 steps = 84, shift = 4.85, angle = 4.02 degrees Position of adaptor-resample-lp5.mrc (#9.2) relative to adaptor-resample.mrc (#3) coordinates: Matrix rotation and translation 0.99999998 0.00018447 -0.00000126 -0.03218046 -0.00018447 0.99999998 -0.00000785 0.04096629 0.00000126 0.00000785 1.00000000 0.00502448 Axis 0.04249504 -0.00680776 -0.99907348 Axis point 221.81593358 172.93482043 0.00000000 Rotation angle (degrees) 0.01057905 Shift along axis -0.00666622 > hide #!3 models > show #!3 models > hide #!3 models > show #!3 models > hide #!9.2 models > show #!9.2 models > hide #!9.2 models > show #!9.2 models > hide #!3 models > volume #9.3 region 0,0,0,799,799,799 step 4 [Repeated 1 time(s)] > volume #9.3 step 1 > volume #9.3 level 0.1 > volume #9.3 change image level -1.84e-05,0 level 0.3033,0.8 level 0.6783,1 > show #!7 models > select add #9.3 6 models selected > select clear > select add #9.3 3 models selected > ui mousemode right ""translate selected models"" [Repeated 3 time(s)] > view matrix models #9.3,1,0,0,-42.323,0,1,0,506.19,0,0,1,146.77 > ui mousemode right ""rotate selected models"" > view matrix models > #9.3,0.99609,0.027201,-0.084092,-42.323,0.057546,0.52255,0.85066,506.19,0.067081,-0.85217,0.51894,146.77 > view matrix models > #9.3,0.94976,0.23518,0.20652,-42.323,-0.30337,0.85398,0.4227,506.19,-0.076951,-0.46412,0.88242,146.77 > ui mousemode right ""translate selected models"" > view matrix models > #9.3,0.94976,0.23518,0.20652,3.9049,-0.30337,0.85398,0.4227,-37.577,-0.076951,-0.46412,0.88242,31.922 > ui mousemode right ""rotate selected models"" > view matrix models > #9.3,0.96943,0.10676,0.22094,3.9049,-0.19852,0.87044,0.45047,-37.577,-0.14422,-0.48056,0.86502,31.922 > view matrix models > #9.3,0.841,0.53999,-0.033584,3.9049,-0.48517,0.78018,0.39487,-37.577,0.23943,-0.3158,0.91812,31.922 > ui mousemode right ""translate selected models"" > view matrix models > #9.3,0.841,0.53999,-0.033584,3.4115,-0.48517,0.78018,0.39487,-33.445,0.23943,-0.3158,0.91812,24.821 > ui mousemode right ""rotate selected models"" > view matrix models > #9.3,0.85576,0.49414,-0.15331,3.4115,-0.4122,0.83025,0.3752,-33.445,0.31268,-0.25788,0.91418,24.821 > view matrix models > #9.3,0.85334,0.4954,-0.16243,3.4115,-0.37506,0.79975,0.46876,-33.445,0.36213,-0.3391,0.86826,24.821 > view matrix models > #9.3,0.93915,0.33941,0.052964,3.4115,-0.321,0.8122,0.48713,-33.445,0.12232,-0.47449,0.87172,24.821 > fitmap #9.3 inMap #7 Fit map capsid-resample-lp7-eraser.mrc in map symmismatch_ort-6.mrc using 10726236 points correlation = 0.8979, correlation about mean = 0.3601, overlap = 2.316e+07 steps = 140, shift = 29.9, angle = 7.73 degrees Position of capsid-resample-lp7-eraser.mrc (#9.3) relative to symmismatch_ort-6.mrc (#7) coordinates: Matrix rotation and translation 0.95108530 0.26280018 0.16239710 -0.00319231 -0.30892839 0.80906240 0.49998128 -0.00529530 0.00000578 -0.52569392 0.85067379 -0.00097435 Axis -0.86523170 0.13698889 -0.48229467 Axis point 0.00000000 -0.00248746 0.01032785 Rotation angle (degrees) 36.35005783 Shift along axis 0.00250662 > select clear > hide #!7 models > lighting full > set bgColor white > set bgColor #ffffff00 > set bgColor black > set bgColor transparent > lighting simple > color #9.3 #ff557fff models > color #9.3 #ffd3d7ff models > color #9.3 #ffd4daff models > color #9.3 #ffd4dcff models > color #9.3 #c3a2a8ff models > color #9.3 #ecc4cbff models > color #9.3 #dab5bcff models > color #9.3 #e7c0c7ff models > color #9.3 #e7cbcfff models > color #9.3 #e7d0d3ff models > color #9.3 #e7c4c8ff models > color #9.3 #e3c0c5ff models > color #9.3 #aa557fff models > color #9.3 #aa9596ff models > color #9.3 #aa9a9aff models > color zone #2 near #10 distance 3 > color zone #9.3 near #10 distance 6.6 > color #10 #b48b82ff > color zone #9.3 near #10 distance 6.6 > lighting full > color #10 #ff557fff > color #10 #ff97a1ff > color #10 #ffafc0ff > color #10 #ff8ca5ff > color #10 #d37488ff > color zone #9.3 near #10 distance 6.6 > color #10 #ffaa7fff > color #10 #aa557fff > color #10 #aa7783ff > color #10 #aa6977ff > color #10 #aa717fff > color zone #9.3 near #10 distance 6.6 [Repeated 1 time(s)] > color #10 #ffaa7fff > color #10 #aa5500ff > color #10 #aa8487ff > color #10 #aa5500ff > color #10 #aa641fff > color #10 #aa8456ff > color zone #9.3 near #10 distance 6.6 > color #10 #aa8d5fff > color zone #9.3 near #10 distance 6.6 > color #10 #aa947aff > color #10 #aa9c90ff > color #10 #aa9a79ff > color zone #9.3 near #10 distance 6.6 [Repeated 1 time(s)] > color #10 #ffaaffff > color #10 #ffc1ffff > color #10 #ffaefeff > color #10 #ffb5f3ff > color #10 #c88ebeff > color #10 #d698ccff > color zone #9.3 near #10 distance 6.6 > color #10 #d6a9d0ff > color #10 #d6b9d1ff > color zone #9.3 near #10 distance 6.6 > color #10 #d6c5d3ff > color zone #9.3 near #10 distance 6.6 > color #10 #d6afd2ff > color #10 #be9bbaff > color zone #9.3 near #10 distance 6.6 [Repeated 1 time(s)] > color #10 white > color #9.3 white models > color #9.3 #d1d1d1ff models > color #9.3 #bebebeff models > color #9.3 #b6b6b6ff models > color #9.3 #cacacaff models > color #9.3 #bababaff models > color #9.3 #a6a6a6ff models > color #9.3 #c1c1c1ff models > color #9.3 #abababff models > color #9.3 #aaaa7fff models > color #9.3 #aaaa93ff models > color #9.3 #a8aa9bff models > color #9.3 #cdcfbdff models > color #9.3 #c6c8b7ff models > color #9.3 #c3c5b4ff models > color #9.3 #b7b9a9ff models > color #9.3 #c6c8b7ff models > color #10 #9966ccff > color #10 #96c3d8ff > color zone #9.3 near #10 distance 6.6 > color #10 #aaddf5ff > color #10 #a2d3eaff > color zone #9.3 near #10 distance 6.6 > color #9.3 #ffaaddff models > color #9.3 #fadcb4ff models > color #9.3 #fae7c1ff models > color #9.3 #faecccff models > color #9.3 #faf1d7ff models > color #9.3 #faf1cbff models > color #10 #ee33bbff > color #10 #e3b87fff > color zone #9.3 near #10 distance 6.6 > color #10 #d4ac77ff > color #10 #c7a170ff > color #10 #ba9768ff > color zone #9.3 near #10 distance 6.6 > color #10 #f1c387ff > color #10 #f1c794ff > color zone #9.3 near #10 distance 6.6 > view orient > lighting simple > lighting full > color #9.2 cyan models > color #9.2 #aaaaffff models > color #9.2 #aaaa7fff models > color #9.2 #aaaa6fff models > color #9.2 #aaa86dff models > color #9.2 #8baa63ff models > color #9.2 #8baa69ff models > color #9.2 #738d57ff models > color #9.5 #00aaffff models > color #9.5 #17a6ffff models > color #9.5 #11fff7ff models > color #9.5 #557766ff models > color #9.5 #576fa0ff models > color #9.2 #bb5577ff models > color #9.2 #b57979ff models > color #9.1 #117799ff models > color #9.1 #179454ff models > color #9.1 #55aa00ff models > color #9.1 #00aa7fff models > color #9.1 #aa557fff models > color #9.1 #00557fff models > color #9.1 #55007fff models > color #9.1 #55557fff models > color #9.1 #aa55ffff models > color #9.1 #aaaaffff models > color #9.1 #996666ff models > color #9.1 #9667b9ff models > color #9.1 #996666ff models > color #9.1 #44ffaaff models > color #9.1 #4fa772ff models > color #9.1 #44ffaaff models > color #9.1 #aaccddff models > color #9.1 #acd59fff models > color #9.3 #aaffffff models > color #9.3 #bbffffff models > color #9.3 #d0fffdff models > color #9.3 #ddffffff models > color #9.3 #d0fffcff models > color #10 #aaffffff > color #10 #5afff1ff > color #10 #93ffffff > color #10 #68b4b4ff > color zone #9.3 near #10 distance 6.6 > color #10 #7292b4ff > color #10 #7c97b4ff > color zone #9.3 near #10 distance 6.6 > color #10 #859db4ff > color #10 #91a4b4ff > color zone #9.3 near #10 distance 6.6 > color #10 #9ea6b4ff > color #10 #95a1b4ff > color #10 #9ca6b4ff > color #10 #8694b4ff > color #10 #8fa2b4ff > color zone #9.3 near #10 distance 6.6 > color #10 #aaaa7fff > color #10 #9c9c74ff > color #10 #9c9b81ff > color zone #9.3 near #10 distance 6.6 > color #10 #55aa7fff > color #10 #69aa89ff > color #10 #8baa9cff > color zone #9.3 near #10 distance 6.6 > color #10 #8caa9cff > color #10 #91aa9cff > color #10 #92aa9cff > color zone #9.3 near #10 distance 6.6 > color #9.3 #aaaa7fff models > color #9.3 #a9aa8dff models > color #9.3 #a8aa97ff models > color #9.3 #a8aa9dff models > color #9.3 #aaa79cff models > color #9.3 #aaa999ff models > color #9.3 #b8b6a5ff models > color zone #9.3 near #10 distance 6.6 > color #10 #aaaa7fff > color zone #9.3 near #10 distance 6.6 > color #10 #c7c794ff > color #10 #ffaa7fff > color #10 #c88564ff > color zone #9.3 near #10 distance 6.6 > color #10 #c89973ff > color #10 #c8a283ff > color #10 #e8bc98ff > color zone #9.3 near #10 distance 6.6 > color #9.5 #0055ffff models > color #9.5 #55557fff models > color #9.5 #ff5500ff models > color #9.5 #ff5622ff models > color #9.5 #d0461cff models > color #9.5 #d07039ff models > color #9.5 #d08840ff models > color #9.5 #d09c53ff models > color #9.2 #00aa7fff models > color #9.2 #11aa6aff models > color #9.2 #46aa73ff models > color #9.2 #56d08dff models > color #9.2 #5bdd96ff models > color #9.2 #54cb89ff models > color #9.1 #aaaaffff models > color #9.1 #aa5500ff models > color #9.1 #aa5f1dff models > color #9.1 #aa853cff models > color #9.3 #ffaaffff models > color #9.3 #ffc7feff models > color #9.3 #ffe1fbff models > color #9.3 #fde6ffff models > color #9.3 #fad3ffff models > color #9.3 #e4b9ffff models > color #9.3 #ff557fff models > color #9.3 #ffabb6ff models > color #9.3 #ffc1caff models > color #9.3 #ffd3daff models > color #9.3 #ffd9dfff models > color #9.3 #ffdee3ff models > color #10 #ff5500ff > color #10 #aaaaffff > color #10 #bdbdffff > color #10 #a4a4ceff > color zone #9.3 near #10 distance 6.6 > color #10 #ff557fff > color #10 #ff8198ff > color #10 #c56476ff > color #10 #c58186ff > color zone #9.3 near #10 distance 6.6 > color #10 #c58f96ff > color zone #9.3 near #10 distance 6.6 [Repeated 1 time(s)] > color #9.3 #ffddddff models > color #9.3 #fdd7cdff models > color #9.3 #ffddddff models > color #9.3 #ffffccff models > color #9.3 #ffcfd2ff models > color #9.3 #ffffccff models > color #9.3 #ee77ffff models > color #9.3 #e7fff2ff models > color #9.3 #ee77ffff models > color #9.3 #dd99ddff models > color #9.3 #d9d0bfff models > color #10 #cc5588ff > color #10 #dd44aaff > color #10 #d4ab88ff > color zone #9.3 near #10 distance 6.6 > color #9.1 #550011ff models > color #9.1 #501d8aff models > color #9.1 #550011ff models > color #9.1 #555500ff models > color #9.1 #aaaaffff models > color #9.1 #8787cbff models > color #9.1 #7878b4ff models > color #9.1 #ffaa00ff models > color #9.1 #ff5500ff models > color #9.1 #ff557fff models > color #9.1 #aa5500ff models > color #9.1 #55aaffff models > color #9.1 #ffaaffff models > color #9.1 #55ffffff models > color #9.1 #55ff7fff models > color #9.1 #55ff00ff models > color #9.1 red models > color #9.1 #ff5500ff models > color #9.1 #555500ff models > color #9.1 #0055ffff models > color #9.1 #aa00ffff models > color #9.1 #33ffaaff models > color #9.1 #3fab47ff models > color #9.2 #cc9944ff models > color #9.2 #c94733ff models > color #9.5 #22eeffff models > color #9.5 #22ee55ff models > color #9.5 #2e5fa1ff models > color #9.5 #3d7ed4ff models > color #9.5 #438beaff models > lighting simple > color #9.1 #ffaa00ff models > color #9.1 #003366ff models > color #9.1 #036f73ff models > color #9.3 #beb6a7ff models > color #9.3 #a8a194ff models > color #9.3 #bcb4a5ff models > color #9.3 white models > color #9.3 #c2c2c2ff models > color #9.3 #969696ff models > color #9.3 #b5b5b5ff models > color #9.3 #c7c7c7ff models > color #9.3 #b9b9b9ff models > color #9.3 #a5a5a5ff models > lighting shadows true > lighting simple > lighting full > set bgColor white > set bgColor #ffffff00 > set bgColor black > set bgColor transparent > lighting simple > color #9.3 cyan models > color #9.3 #aaffffff models > color #9.3 #55ffffff models > color #9.3 #aaffffff models > color #9.3 #7dbcbcff models > color #9.3 #92bbbcff models > color #9.3 #9cb8bcff models > color #9.3 #a6babcff models > color #9.3 #9db9bcff models > color #9.1 white models > color #10 cyan > color zone #9.3 near #10 distance 6.6 > color #10 #5efff2ff > color #10 #94fff6ff > color #10 #64aca6ff > color zone #9.3 near #10 distance 6.6 > lighting full > set bgColor white > set bgColor #ffffff00 > lighting simple > set bgColor black > set bgColor transparent > color #10 #aaaa7fff > color #10 red > color #10 #ff5500ff > color #10 #ffaa7fff > color #10 #ffc9aeff > color zone #9.3 near #10 distance 6.6 > color #10 white > color #9.3 #ffaa7fff models > color #9.3 #ffdcabff models > color #9.3 #ffe7c0ff models > color #9.3 #ffd19dff models > color #9.3 #ffc57dff models > color #9.3 #ffe39cff models > color #9.3 #ffdcaaff models > color #9.3 #caae87ff models > color #9.3 #e1c296ff models > color #9.3 #dfc095ff models > color #9.3 #ccb088ff models > color #9.3 #d9bb91ff models > color #9.3 #ccb088ff models > set bgColor white > set bgColor #ffffff00 > ui tool show ""Color Actions"" > select add #9.3 3 models selected > color sel moccasin > color sel bisque [Repeated 1 time(s)] > color sel light steel blue > color sel light blue > color sel tan > color sel lavender > color sel light cyan > color sel gainsboro > color sel alice blue > color sel honeydew > color sel lavender > color sel violet > color sel light cyan > color sel lavender > select add #10 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 5 models selected > select clear > select add #10 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 2 models selected > color sel plum > color zone #9.3 near #10 distance 6.6 > color sel pink > color zone #9.3 near #10 distance 6.6 > color sel saddle brown > color zone #9.3 near #10 distance 6.6 > color sel sandy brown > color zone #9.3 near #10 distance 6.6 > color sel rosy brown > color zone #9.3 near #10 distance 6.6 > select add #9.3 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 5 models selected > select subtract #10 3 models selected > color sel silver > select add #9.3 3 models selected > select add #10 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 5 models selected > color sel tan > select clear > select add #9.3 3 models selected > color sel wheat > color sel silver > color sel dark gray > color sel gainsboro > color sel silver > select clear > select add #10 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 2 models selected > color sel wheat > color zone #9.3 near #10 distance 6.6 > ui tool show ""Surface Color"" > color radial #9.3.2 palette 320,#eab578:350,#c28161 > color radial #9.3.2 palette 320,#c6c6c6:350,#c28161 > color radial #9.3.2 palette 310,#c6c6c6:350,#c28161 > set bgColor white > lighting full > lighting simple > select add #9.2 144660 atoms, 146760 bonds, 60 pseudobonds, 19740 residues, 5 models selected > ui tool show ""Color Actions"" > color sel rosy brown > color sel burly wood > color sel rosy brown > color sel pale violet red > color sel salmon > color sel peru > color sel light salmon > color sel dark goldenrod > color sel dark salmon > color sel salmon > color sel tomato > color sel chocolate > color sel indian red > color sel fire brick > color sel dark orange > color sel coral > color sel sienna > color sel indian red > color sel light pink > color sel light coral > lighting shadows true > lighting shadows false > lighting full [Repeated 1 time(s)] > lighting simple > lighting soft > lighting simple > select clear > select add #9.5 3 models selected > color sel dark olive green > color sel dark slate gray > color sel turquoise > color sel medium turquoise > color sel light sea green > color sel cornflower blue > color sel dark cyan > color sel cornflower blue > color sel steel blue > color sel light sea green > color sel cornflower blue > color sel slate gray > color sel light slate gray > color sel deep sky blue > color sel cyan > color sel steel blue [Repeated 1 time(s)] > color sel fire brick > color sel tomato > color sel forest green > color sel lime green > color sel olive drab > color sel steel blue > color sel cadet blue > color sel steel blue > color sel cadet blue > color sel light slate gray > color sel steel blue > color sel cadet blue > color sel teal > color sel dark cyan > color sel medium aquamarine > color sel cornflower blue > color sel light sea green > color sel medium turquoise > color sel light steel blue > color sel medium purple > color sel pale turquoise > color sel light steel blue > color sel powder blue > color sel dark gray > color sel pale green > color sel dark sea green > color sel light cyan > color sel light blue > color sel light sky blue > color sel sky blue > select clear > select add #9.1 2 models selected > color sel pale green > color sel light green > color sel dark sea green > color sel medium aquamarine > color sel dark cyan > color sel yellow green > color sel lime > color sel olive > color sel indian red > color sel brown > color sel cyan > color sel medium purple > color sel dark olive green > color sel dark slate gray > color sel dark sea green > color sel aquamarine > color sel dark green > color sel teal > color sel medium aquamarine > color sel lime > color sel chocolate > color sel saddle brown > color sel coral > color sel sienna > color sel indian red > color sel sienna > lighting soft > lighting full > set bgColor white > lighting simple > color sel crimson > color sel maroon > color sel fire brick > color sel saddle brown > color sel sienna > color sel saddle brown > color radial #9.3.2 palette 310,#ffc898:350,#c2826d > color radial #9.3.2 palette 310,#ffe5dc:350,#c2826d > color radial #9.3.2 palette 310,#b5b5b5:350,#c2826d > color sel sienna > color sel coral > color sel goldenrod > color sel sandy brown > color sel dark orange > color sel olive drab > color sel burly wood > color sel tan > color sel wheat > color sel peru > color sel light salmon > color #9.1 #ffc783ff models > color #9.1 #ffcf95ff models > color #9.1 #ffc198ff models > color #9.1 #c9ffe0ff models > color #9.1 #87ff62ff models > color #9.1 #a7ffa6ff models > color #9.1 #c0ff9eff models > color #9.1 #deffacff models > color #9.1 #dfffb0ff models > color #9.1 #6fca37ff models > color #9.1 #3bca2cff models > color #9.1 #4eca5cff models > color #9.1 #ca8889ff models > color #9.1 #ca8e8fff models > color #9.1 #ca8e97ff models > color #9.1 #ca8fa4ff models > color #9.1 #ca8087ff models > color #9.1 #ca8085ff models > color #9.1 #ca5b6fff models > color #9.1 #ca8384ff models > color #9.2 #aa0000ff models > color #9.2 #d60000ff models > color #9.2 #e80000ff models > color #9.2 #670000ff models > color #9.2 #910000ff models > color #9.2 darkred models > color #9.2 #9e0000ff models > color #9.2 #9d0000ff models > color #9.2 #a60000ff models > color #9.2 #a10000ff models > color #9.5 #5555ffff models > color #9.5 #55aaffff models > color #9.5 #00aaffff models > color #9.5 #0099e5ff models > color #9.5 #008bd1ff models > color #9.5 #0090d8ff models > color #9.1 #555500ff models > color #9.1 #aa557fff models > color #9.1 #00aa7fff models > color #9.1 #aaaa7fff models > color #9.1 #55aa7fff models > color #9.1 #55ff7fff models > color #9.1 #55aa7fff models > color #9.1 #55ff7fff models > color #9.1 yellow models > color #9.1 #55ff00ff models > color #9.1 #3bb100ff models > color #9.1 #3fbe00ff models > color #9.1 #67be57ff models > color #9.1 #76be6eff models > color #9.1 #95be7fff models > color #9.1 #99be7bff models > color #9.1 #6bbe67ff models > color #9.1 #aaaa7fff models > color #9.1 #97aa7bff models > color #9.2 #97aa7bff models > color #9.5 #ff557fff models > color #9.5 #ff007fff models > color #9.5 magenta models > color #9.5 red models > color #9.5 #aa00ffff models > color #9.5 #aa55ffff models > color #9.5 #aaaaffff models > color #9.5 #9f9fefff models > color #9.5 #9696e1ff models > color #9.5 #9393ddff models > color #9.1 #aa55ffff models > color #9.1 #aaaaffff models > color #9.1 #00aaffff models > color #9.1 #aa5500ff models > color #9.1 #aa4d41ff models > color #9.1 white models > lighting soft > set bgColor white > lighting simple > color #9.2 #555500ff models > color #9.2 #55aa00ff models > color #9.2 #55aa7fff models > color #9.2 #4e9d74ff models > color #9.2 #4d9a72ff models > color #9.2 #555500ff models > color #9.2 #55aa00ff models > color #9.2 #4baa3aff models > color #9.2 #aa5500ff models > color #9.2 #aa8b3eff models > color #9.2 #aa783eff models > color #9.2 #aa703eff models > color #9.2 #aa6a4bff models > color #9.2 #aa614bff models > color #9.2 #aa5e4bff models > color #9.2 #aa564bff models > color #9.2 #aa5957ff models > color #9.2 #aa7256ff models > color #9.2 #8462aaff models > color #9.2 #9063aaff models > color #9.2 #9b63aaff models > color #9.2 #9e63aaff models > color #9.5 cyan models > color #9.5 #0055ffff models > color #9.5 blue models > color #9.5 #55007fff models > color #9.5 #7f00bfff models > color #9.5 #7300adff models > color #9.5 #7c00baff models > color #9.5 #8300c5ff models > color #9.2 blue models > color #9.2 #0055ffff models > color #9.2 #00aaffff models > color #9.2 #008bd1ff models > color #9.2 #0082c3ff models > color #9.1 #00aa7fff models > color #9.1 #aa5500ff models > color #9.1 #aaa74eff models > color #9.1 #aa7b5cff models > color #9.1 #aa6b5fff models > color #9.1 #aa665fff models > color #9.1 #aa928eff models > color #9.1 #aa928fff models > color #9.1 #aa9090ff models > lighting soft > lighting simple > ui tool show ""Color Actions"" > color #9.2 #88eebbff models > color #9.2 #8eb4d0ff models > color #9.5 #bb7799ff models > color #9.5 #b793bdff models > color #9.5 #a786adff models > color #9.5 #987a9dff models > color #9.5 #8c7191ff models > color #9.5 #826987ff models > color #9.4 #9adcdcff models > color #9.2 #82a5beff models > color #9.2 #7798afff models > color #9.2 #6e8ca1ff models > lighting full > lighting soft > color #9.2 #90b7d3ff models > color #9.2 #9ac3e1ff models > color #9.2 #9ec9e8ff models > color #9.2 #a9d7f8ff models > color #9.5 #c09bc7ff models > color #9.5 #d2a9daff models > color #9.5 #daafe2ff models > color #9.5 #e29fdfff models > color #9.5 #d7a0e2ff models > color #9.5 #d8a7e2ff models > color #9.5 #c39ee2ff models > color #9.5 #c29ce2ff models > color #9.1 #cc44eeff models > color #9.1 #c4e3ccff models > color #9.1 #cc44eeff models > color #9.1 #8844bbff models > color #9.1 #84b967ff models > color #9.1 #77cc77ff models > color #9.1 #7c7ab7ff models > color #9.1 #7cab7cff models > color #9.1 #c7ab7cff models > lighting soft [Repeated 1 time(s)] > lighting full > lighting shadows false > lighting soft > lighting simple > lighting soft > color #9.1 #8844ccff models > color #9.1 #84c3b7ff models > ui tool show ""Color Actions"" > color sel tan > color sel burly wood > color sel tan > color sel wheat > color sel tan > color sel sandy brown > color sel goldenrod > color sel peru > color sel tan > color sel burly wood > color sel tan > color sel peach puff > color sel navajo white > color sel tan > select clear > select add #9.5 3 models selected > ui tool show ""Color Actions"" > color sel light coral > color sel pale violet red > color sel medium orchid > color sel medium violet red > color sel fire brick > color sel maroon > color sel crimson > color sel dark goldenrod > color sel light salmon > color sel dark khaki > color sel peru > color sel goldenrod > color sel sandy brown > color sel dark orange > color sel indian red > color sel sienna > color sel coral > color sel sienna > color sel indian red > color sel sienna > color sel saddle brown > color sel chocolate > color sel brown > color sel tomato > color sel fire brick > color sel saddle brown > color sel chocolate > color sel coral > color sel sienna [Repeated 1 time(s)] > color sel indian red > color sel dark goldenrod > color sel peru > color sel yellow green > color sel olive > color sel goldenrod > color sel dark orange > color sel orange > color sel olive drab > color sel tan > color sel burly wood > color sel light coral > color sel burly wood > color sel wheat > color sel khaki > color sel pale goldenrod > color sel wheat > color sel linen > color sel antique white > color sel light pink > color sel bisque > color sel navajo white > color sel lemon chiffon > color sel tan > color sel gray > color sel slate gray > select clear > select add #9.2 3 models selected > color sel teal > color sel dark cyan > color sel rosy brown > color sel dark olive green > color sel coral > color sel saddle brown > color sel indian red > color sel coral > color sel dark red > color sel sandy brown > color sel goldenrod > color sel olive drab > color sel dark sea green > color sel burly wood > color sel orchid > color sel wheat > color sel pink > set bgColor white > set bgColor black > set bgColor transparent > lighting simple > lighting soft > set bgColor white > set bgColor #ffffff00 > color sel medium turquoise > color sel turquoise > color sel light sea green > color sel medium turquoise > color sel turquoise > color sel dodger blue > color sel dark turquoise > color sel sky blue > color sel light sky blue > color sel light blue > color sel pale turquoise > color sel sky blue > select clear > select add #9.2 3 models selected > color sel steel blue > color sel thistle > select clear > ui mousemode right clip > ui tool show ""Side View"" > lighting simple > lighting soft > lighting shadows true intensity 0.5 Drag select of 9.1 7-fiber.mrc , 9.2 adaptor-resample-lp5.mrc , 9.3 capsid- resample-lp7-eraser.mrc , 9.4 core-resample-lp5.mrc , 9.5 nozzle-resample- lp5.mrc , 9.6 portal-resample-lp5.mrc > graphics silhouettes false > select clear > ui tool show ""Color Actions"" > color sky blue > select add #9.3 3 models selected > color radial #9.3.2 palette 310,#e0ffff:350,#afeeee > color radial #9.3.2 palette 310,#b0e0e6:350,#87ceeb > color radial #9.3.2 palette 310,#fdf5e6:350,#87ceeb > color radial #9.3.2 palette 310,#fdf5e6:350,#a9a9a9 > color radial #9.3.2 palette 310,#b0e0e6:350,#00bfff > color radial #9.3.2 palette 310,#708090:350,#00bfff [Repeated 2 time(s)] > color radial #9.3.2 palette 310,#708090:350,#fdfdfd > color radial #9.3.2 palette 310,#708090:350,#0000ff > color radial #9.3.2 palette 310,#708090:350,#4682b4 > color radial #9.3.2 palette 310,#778899:350,#4682b4 > color radial #9.3.2 palette 310,#8da2b6:350,#4682b4 > color radial #9.3.2 palette 310,#8699ac:350,#4682b4 > ui tool show ""Color Actions"" > color sel saddle brown > color radial #9.3.2 palette 310,#8699ac:350,#4682b4 > select clear > select add #9.2 3 models selected > color sel sienna > color sel coral > color sel olive drab > color sel dark salmon > color sel sandy brown > color sel cornflower blue > color sel medium purple > color sel blue violet > color sel tan > color sel dark slate blue > color sel dark turquoise > color sel cornflower blue > color sel dark turquoise > select clear > select add #9.1 2 models selected > select clear > select add #9.1 2 models selected > color sel dark turquoise > color sel medium spring green > color sel medium slate blue > color sel light sea green > color sel olive > color sel light slate gray > color sel teal > color sel steel blue > color sel dark cyan > color sel cornflower blue > color sel gray > color sel light steel blue > color sel light blue > color sel pale turquoise > color sel sky blue > select clear > select add #9.2 3 models selected > color sel medium aquamarine > select clear > select add #9.5 3 models selected > color sel orchid > color sel medium purple > color sel gainsboro > select clear > color radial #9.3.2 palette 310,#dcdcdc:350,#4682b4 > color radial #9.3.2 palette 310,#c0c0c0:350,#4682b4 > color radial #9.3.2 palette 310,#c0c0c0:350,#bc8f8f > lighting soft [Repeated 1 time(s)] > lighting simple > lighting soft > lighting full > lighting soft > lighting flat > lighting shadows true intensity 0.5 > lighting full > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting simple > lighting soft > select clear > select add #9.1 2 models selected > color sel burly wood > color sel tan > color sel rosy brown > color sel antique white > color sel wheat > color sel navajo white > color sel peach puff > color sel sandy brown > color sel dark salmon > color sel light salmon > color sel dark salmon > color sel salmon > color sel dark salmon > color sel blanched almond > color radial #9.3.2 palette 310,#f5deb3:350,#bc8f8f > color radial #9.3.2 palette 310,#fff5ee:350,#bc8f8f > color radial #9.3.2 palette 310,#d1d1d1:350,#bc8f8f > graphics silhouettes false > color radial #9.3.2 palette 300,#d1d1d1:350,#bc8f8f > select clear > select add #9.2 3 models selected > color sel burly wood > color sel tan > color sel rosy brown > color sel orchid > color sel pale violet red > color sel coral > color sel saddle brown > color sel sienna > color sel salmon > color sel light salmon > color sel dark goldenrod > color sel tomato > color sel saddle brown > color sel sandy brown > color sel fire brick > color sel maroon > color sel orange red > color sel crimson > color sel rosy brown > color sel deep pink > color sel hot pink > color sel dark violet > color sel deep pink > color sel medium violet red > color sel deep pink > color sel magenta > color sel deep pink > color sel pale violet red > select clear > select add #9.5 3 models selected > color sel salmon > color sel red > color sel dark red > color sel sienna > color sel indigo > color sel medium violet red > color sel light coral > color sel slate blue > color sel medium slate blue > color sel indigo > color sel steel blue > color sel teal > color sel steel blue > color sel sienna > color sel saddle brown > color sel fire brick > color sel crimson > color sel dark red > color sel sienna > color sel salmon > color sel dark salmon > select clear > select add #9.1 2 models selected > color sel coral > color sel sienna > color sel salmon > color sel dark salmon > color sel peru > color sel dark goldenrod > color sel olive > color sel indian red > color sel sienna > color sel dark orange > color sel goldenrod > color sel sandy brown > select clear > select add #9.5 3 models selected > color sel indian red > color sel purple > color sel dark olive green > color sel light coral > color sel pink > color sel light pink > color sel deep pink > color sel magenta > color sel hot pink > color sel pale violet red > color sel cadet blue > color sel light slate gray > color sel slate gray > color sel light slate gray > hide #!9.3 models > select clear > select add #9.2 3 models selected > select add #9.2 3 models selected > select add #9.6 6 models selected > select add #9.2 6 models selected > select clear > select add #9.6 3 models selected > color sel teal > color sel light sea green > color sel medium turquoise > color sel turquoise > color sel dark turquoise > color sel pale turquoise > hide #!9.1 models > color sel royal blue > color sel slate gray > color sel cadet blue > color sel cornflower blue > color sel blue violet > color sel dark violet > color sel rebecca purple > color sel medium purple > color sel sky blue > hide #!9.2 models > show #!9.2 models > select add #9 18 models selected > select clear > select add #9.4 3 models selected > color sel deep pink > color sel blue violet > color sel medium orchid > color sel medium purple > color sel thistle > color sel light pink > color sel medium purple > color sel plum > color sel violet > color sel hot pink > color sel rosy brown > color sel violet > color sel plum > color sel pale violet red > color sel salmon > color sel coral > color sel light salmon > color sel plum > color sel violet > color sel medium violet red > color sel dark orchid > color sel dark magenta > color sel purple > color sel medium purple > color sel brown > color sel chocolate > color sel indian red > color sel light salmon > color sel light coral > color sel blue violet > color sel orchid > color sel medium orchid > color sel medium purple > show #!9.3 models > select clear > select add #9.2 3 models selected > color sel peach puff > color sel navajo white > show #!9.1 models > select clear > select add #9.1 2 models selected > color sel peach puff > color sel navajo white > color sel moccasin > color sel burly wood > color sel wheat > color sel antique white > color sel tan > color sel rosy brown > color sel tan > color sel burly wood > color sel tan > select subtract #9.1 Nothing selected > select add #9.2 3 models selected > color sel thistle > hide #!9.1 models > show #!9.1 models > hide #!9.1 models > color sel burly wood > color sel light coral > color sel pale violet red > color sel rosy brown > color sel light coral > color sel light pink > color sel light salmon > color sel dark salmon > color sel orchid > color sel hot pink > color sel pale violet red > color sel thistle > color sel plum > color sel lavender > color sel violet > color sel pink > color sel peach puff > color sel misty rose > color sel lavender blush > color sel alice blue > color sel burly wood > color sel light pink > color sel plum > color sel salmon > color sel light salmon > color sel hot pink > color sel pale violet red > show #!9.1 models > select clear > select add #9.1 2 models selected > color sel burly wood > color sel tan > color sel rosy brown > color sel thistle > color sel silver > color sel antique white > color sel wheat > color sel peach puff > color sel tan > color sel peach puff > color sel burly wood > color sel tan > color sel wheat > color sel antique white > color sel linen > color sel burly wood > color #9.1 #c6a984ff models > color #9.1 #b09775ff models > color #9.1 #bca17dff models > color #9.1 #b49a78ff models > color #9.1 #ba9f7cff models > color #9.1 #b89d7bff models > color #9.1 #ad9473ff models > color #9.1 #a78f6fff models > color #9.1 #af9675ff models > color #9.1 #b49a78ff models > color #9.1 #ad9473ff models > color #9.1 #988265ff models > color #9.1 #87745aff models > color #9.1 #aa9171ff models > color #9.1 #b99e7bff models > color #9.1 #a38b6dff models > color #9.1 #b89d7bff models > color #9.1 #a58d6eff models > color #9.1 #ccaf88ff models > color #9.1 #b69c79ff models > select clear > hide #!9.1 models > select add #9.2 3 models selected > color #9.2 #be6180ff models > color #9.2 #b65d7bff models > color #9.2 #954c64ff models > color #9.2 #d96f92ff models > color #9.2 #e8769cff models > color #9.2 #fa7fa8ff models > color #9.2 #ff82acff models > color sel light coral [Repeated 1 time(s)] > color sel rosy brown > color sel pink > color sel wheat > color sel orchid > color sel thistle > color sel burly wood > color sel pink > color sel light salmon > color sel plum > color sel violet > color sel light pink > color sel light coral > color sel pale violet red > select clear > select add #9.2 3 models selected > color #9.2 #ec789fff models > color #9.2 #f17ba2ff models > color #9.2 #fd81aaff models > color #9.2 #eb789eff models > color #9.2 #f07aa2ff models > color #9.2 #f17ba2ff models > color #9.2 #ff82acff models > color #9.2 #f07aa2ff models > color #9.2 #f97fa8ff models > color #9.2 #ef7aa1ff models > show #!9.1 models > hide #!9.1 models > show #!9.1 models > hide #!9.1 models > select add #9.2 3 models selected > select add #9.5 6 models selected > select clear > select add #9.5 3 models selected > color #9.2 #55557fff models > color sel pale violet red > select clear > select add #9.2 3 models selected > color sel pale violet red > select clear > color #9.2 #ef7aa1ff models > color #9.2 #f97fa8ff models > color #9.2 #a65570ff models > color #9.2 #e5759aff models [Repeated 1 time(s)] > color #9.2 #de7195ff models > select add #9.5 3 models selected > color sel slate blue > color sel cornflower blue > color sel light blue [Repeated 1 time(s)] > color sel slate gray > color sel light slate gray > select clear > color #9.5 #a0b7ceff models > color #9.5 #8b9fb3ff models > color #9.5 #9bb2c8ff models > color #9.5 #94aabfff models > show #!9.1 models > hide #!9.1 models > show #!9.1 models > hide #!9.1 models > show #!9.1 models > hide #!9.1 models > color #9.2 #aaaaffff models > select add #9.2 3 models selected > color sel dark turquoise > color sel cadet blue > color sel sandy brown > color sel old lace > color sel silver > color sel light gray > color sel pale turquoise > color sel sky blue > color sel hot pink > color sel orchid > color sel steel blue > color sel light steel blue > color sel pale turquoise > color sel azure > color sel turquoise > color sel tan > color sel rosy brown > color sel tan > color sel pink > color sel plum > select clear > color #9.2 #f1aff1ff models > color #9.2 #f5b2f5ff models > color #9.2 #c891c8ff models > show #!9.1 models > hide #!9.1 models > color #9.2 #e5a6e5ff models > color #9.2 #f4b1f4ff models > color #9.2 #b382b3ff models > color #9.2 #8c668cff models > hide #!9.3 models > color #9.2 #ecabecff models > color #9.2 #f4b1f4ff models > color #9.2 #feb8feff models > color #9.2 #876287ff models > color #9.2 #fdb8fdff models > color #9.2 #e1a3e1ff models > color #9.2 #eeadeeff models > color #9.6 #aaaaffff models > color #9.6 #aa557fff models > color #9.6 #aaaaffff models > color #9.4 #aa557fff models > color #9.4 #aa00ffff models > color #9.4 #aa55ffff models > color #9.4 #aaaaffff models > color #9.4 #00aaffff models > color #9.4 #aaaaffff models > color #9.4 #00aaffff models > color #9.4 #aaaaffff models > color #9.6 cyan models > color #9.6 #00aaffff models > color #9.6 #55aaffff models > color #9.6 #5ee4ffff models > color #9.6 #61c8ffff models > color #9.6 #5da6ffff models > color #9.6 #61b3ffff models > show #!9.3 models > show #!9.1 models > lighting soft > lighting simple > lighting soft > color radial #9.3.2 palette 300,#d1d1d1:350,#a77f7f Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\surfcolorgui.py"", line 439, in _color run(self.session, cmd, log = log_command) File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 55, in color_radial _color_geometry(session, surfaces, geometry = 'radial', File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 126, in _color_geometry cs.set_vertex_colors() File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 194, in set_vertex_colors s.vertex_colors = self.vertex_colors() ^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 180, in vertex_colors va = vertices if sp.is_identity() else sp * vertices ~~~^~~~~~~~~~ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\place.py"", line 130, in __mul__ return m34.apply_matrix(self._matrix, p) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. > color radial #9.3.2 palette 300,#d1d1d1:350,#a77f7f Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\surfcolorgui.py"", line 439, in _color run(self.session, cmd, log = log_command) File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 55, in color_radial _color_geometry(session, surfaces, geometry = 'radial', File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 126, in _color_geometry cs.set_vertex_colors() File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 194, in set_vertex_colors s.vertex_colors = self.vertex_colors() ^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 180, in vertex_colors va = vertices if sp.is_identity() else sp * vertices ~~~^~~~~~~~~~ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\place.py"", line 130, in __mul__ return m34.apply_matrix(self._matrix, p) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. > color radial #9.3.2 palette 300,#d1d1d1:350,#a77d6a Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\surfcolorgui.py"", line 439, in _color run(self.session, cmd, log = log_command) File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 55, in color_radial _color_geometry(session, surfaces, geometry = 'radial', File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 126, in _color_geometry cs.set_vertex_colors() File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 194, in set_vertex_colors s.vertex_colors = self.vertex_colors() ^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 180, in vertex_colors va = vertices if sp.is_identity() else sp * vertices ~~~^~~~~~~~~~ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\place.py"", line 130, in __mul__ return m34.apply_matrix(self._matrix, p) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. > color radial #9.3.2 palette 300,#d1d1d1:350,#a77d6a Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\surfcolorgui.py"", line 439, in _color run(self.session, cmd, log = log_command) File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 55, in color_radial _color_geometry(session, surfaces, geometry = 'radial', File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 126, in _color_geometry cs.set_vertex_colors() File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 194, in set_vertex_colors s.vertex_colors = self.vertex_colors() ^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 180, in vertex_colors va = vertices if sp.is_identity() else sp * vertices ~~~^~~~~~~~~~ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\place.py"", line 130, in __mul__ return m34.apply_matrix(self._matrix, p) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. > color radial #9.3.2 palette 300,#d1d1d1:350,#a77d6a Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\surfcolorgui.py"", line 439, in _color run(self.session, cmd, log = log_command) File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 55, in color_radial _color_geometry(session, surfaces, geometry = 'radial', File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 126, in _color_geometry cs.set_vertex_colors() File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 194, in set_vertex_colors s.vertex_colors = self.vertex_colors() ^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 180, in vertex_colors va = vertices if sp.is_identity() else sp * vertices ~~~^~~~~~~~~~ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\place.py"", line 130, in __mul__ return m34.apply_matrix(self._matrix, p) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. > color radial #9.3.2 palette 300,#d1d1d1:350,#a77d6a Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\surfcolorgui.py"", line 439, in _color run(self.session, cmd, log = log_command) File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 55, in color_radial _color_geometry(session, surfaces, geometry = 'radial', File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 126, in _color_geometry cs.set_vertex_colors() File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 194, in set_vertex_colors s.vertex_colors = self.vertex_colors() ^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\surface\colorgeom.py"", line 180, in vertex_colors va = vertices if sp.is_identity() else sp * vertices ~~~^~~~~~~~~~ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\place.py"", line 130, in __mul__ return m34.apply_matrix(self._matrix, p) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 numpy.core._exceptions._ArrayMemoryError: Unable to allocate 233. MiB for an array with shape (10170704, 3) and data type float64 File ""C:\Program Files\ChimeraX\bin\Lib\site- packages\chimerax\geometry\matrix.py"", line 33, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 552.41 OpenGL renderer: NVIDIA GeForce GTX 1660 Ti/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.2 Locale: zh_CN.cp936 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: windows Manufacturer: Dell Inc. Model: Inspiron 3020 OS: Microsoft Windows 11 家庭中文版 (Build 22631) Memory: 16,924,782,592 MaxProcessMemory: 137,438,953,344 CPU: 24 13th Gen Intel(R) Core(TM) i7-13700F OSLanguage: zh-CN 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-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-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.8 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 comtypes: 1.1.14 contourpy: 1.2.0 cxservices: 1.2.2 cycler: 0.12.1 Cython: 0.29.33 debugpy: 1.8.0 decorator: 5.1.1 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 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 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 pywin32: 305 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 WMI: 1.5.1 }}} " defect closed normal Surface limitation all ChimeraX