Changes between Initial Version and Version 1 of Ticket #16873


Ignore:
Timestamp:
Feb 18, 2025, 9:59:49 AM (8 months ago)
Author:
Eric Pettersen
Comment:

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #16873

    • Property Component Unassigned → Window Toolkit
    • Property Owner set to Eric Pettersen
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → accepted
    • Property Summary ChimeraX bug report submission → Crash showing dock widget

  • Ticket #16873 – Description

    initial v1  
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     61[deleted to fit within ticket limits]
    156362],
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    … …  
    33521851Shift along axis 0.02761617 
    33531852 
    3354 Position of Nup98_CRconnector.pdb (#20) relative to map 20 (#25) coordinates: 
    3355 Matrix rotation and translation 
    3356 1.00000000 -0.00002411 -0.00000905 0.06603721 
    3357 0.00002411 0.99999999 -0.00014999 0.15422880 
    3358 0.00000906 0.00014999 0.99999999 -0.17855768 
    3359 Axis 0.98557257 -0.05949059 0.15845370 
    3360 Axis point 0.00000000 1219.74219065 1039.14042838 
    3361 Rotation angle (degrees) 0.00871942 
    3362 Shift along axis 0.02761617 
    3363  
    3364 Position of Nup133_propeller_CRinner.pdb (#21) relative to map 20 (#25)
    3365 coordinates: 
    3366 Matrix rotation and translation 
    3367 1.00000000 -0.00002411 -0.00000905 0.06603721 
    3368 0.00002411 0.99999999 -0.00014999 0.15422880 
    3369 0.00000906 0.00014999 0.99999999 -0.17855768 
    3370 Axis 0.98557257 -0.05949059 0.15845370 
    3371 Axis point 0.00000000 1219.74219065 1039.14042838 
    3372 Rotation angle (degrees) 0.00871942 
    3373 Shift along axis 0.02761617 
    3374  
    3375 Position of Nup133_propeller_CRouter.pdb (#22) relative to map 20 (#25)
    3376 coordinates: 
    3377 Matrix rotation and translation 
    3378 1.00000000 -0.00002411 -0.00000905 0.06603721 
    3379 0.00002411 0.99999999 -0.00014999 0.15422880 
    3380 0.00000906 0.00014999 0.99999999 -0.17855768 
    3381 Axis 0.98557257 -0.05949059 0.15845370 
    3382 Axis point 0.00000000 1219.74219065 1039.14042838 
    3383 Rotation angle (degrees) 0.00871942 
    3384 Shift along axis 0.02761617 
    3385  
    3386 Position of Y_CRinner.pdb (#23) relative to map 20 (#25) coordinates: 
    3387 Matrix rotation and translation 
    3388 1.00000000 -0.00002411 -0.00000905 0.06603721 
    3389 0.00002411 0.99999999 -0.00014999 0.15422880 
    3390 0.00000906 0.00014999 0.99999999 -0.17855768 
    3391 Axis 0.98557257 -0.05949059 0.15845370 
    3392 Axis point 0.00000000 1219.74219065 1039.14042838 
    3393 Rotation angle (degrees) 0.00871942 
    3394 Shift along axis 0.02761617 
    3395  
    3396 Position of Y_CRouter.pdb (#24) relative to map 20 (#25) coordinates: 
    3397 Matrix rotation and translation 
    3398 1.00000000 -0.00002411 -0.00000905 0.06603721 
    3399 0.00002411 0.99999999 -0.00014999 0.15422880 
    3400 0.00000906 0.00014999 0.99999999 -0.17855768 
    3401 Axis 0.98557257 -0.05949059 0.15845370 
    3402 Axis point 0.00000000 1219.74219065 1039.14042838 
    3403 Rotation angle (degrees) 0.00871942 
    3404 Shift along axis 0.02761617 
    3405  
    3406 
    3407 > fitmap #25 inMap #3
    3408 
    3409 Fit map map 20 in map ref_mock_CR_cut_resampled.mrc using 25762 points 
    3410 correlation = 0.7559, correlation about mean = 0.4009, overlap = 364.6 
    3411 steps = 36, shift = 0.0064, angle = 0.0187 degrees 
    3412  
    3413 Position of map 20 (#25) relative to ref_mock_CR_cut_resampled.mrc (#3)
    3414 coordinates: 
    3415 Matrix rotation and translation 
    3416 -0.70298476 0.71103959 -0.01533433 863.40000662 
    3417 -0.71109587 -0.70309113 -0.00235184 2061.86489387 
    3418 -0.01245369 0.00925087 0.99987966 -4.89643065 
    3419 Axis 0.00815837 -0.00202551 -0.99996467 
    3420 Axis point 862.14271662 850.69698957 0.00000000 
    3421 Rotation angle (degrees) 134.67609735 
    3422 Shift along axis 7.76386901 
    3423  
    3424 
    3425 > hide #!25 models
    3426 
    3427 > save
    3428 > C:/Users/dziemianowicz/Desktop/11-11-24_CRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    3429 > bin2_structureFitting).cxs includeMaps true
    3430 
    3431 > name CRatom sel
    3432 
    3433 > ~select
    3434 
    3435 Nothing selected 
    3436 
    3437 > select CRaotm
    3438 
    3439 Expected an objects specifier or a keyword 
    3440 
    3441 > select CRatom
    3442 
    3443 Nothing selected 
    3444 
    3445 > select CRatom
    3446 
    3447 Nothing selected 
    3448 Drag select of 3 ref_mock_CR_cut_resampled.mrc , 9
    3449 ref_mock_IR_cut_resampled.mrc , 10914 residues, 148340 atoms, 4 pseudobonds 
    3450 
    3451 > select add #3
    3452 
    3453 234892 atoms, 4 pseudobonds, 29498 residues, 19 models selected 
    3454 
    3455 > select subtract #3
    3456 
    3457 234892 atoms, 4 pseudobonds, 29498 residues, 16 models selected 
    3458 
    3459 > select add #9
    3460 
    3461 234892 atoms, 4 pseudobonds, 29498 residues, 17 models selected 
    3462 
    3463 > select subtract #9
    3464 
    3465 234892 atoms, 4 pseudobonds, 29498 residues, 14 models selected 
    3466 
    3467 > name list
    3468 
    3469 CRatom sel 
    3470 
    3471 > select CRatom sel
    3472 
    3473 Expected a keyword 
    3474 
    3475 > combine sel name CRatom
    3476 
    3477 Remapping chain ID 'D' in hNup155_CRconnector_NTD.pdb #14 to 'E' 
    3478 Remapping chain ID '0' in hNup358_1_CRouter.pdb #16 to 'AA' 
    3479 Remapping chain ID '0' in hNup358_2_CRinner.pdb #17 to 'AB' 
    3480 Remapping chain ID '0' in hNup358_2_CRouter.pdb #18 to 'AC' 
    3481 Remapping chain ID '0' in hNup358_CRmiddle.pdb #19 to 'AD' 
    3482 Remapping chain ID 'K' in Nup133_propeller_CRouter.pdb #22 to 'L' 
    3483 Remapping chain ID 'R' in Nup133_propeller_CRouter.pdb #22 to 'T' 
    3484 Remapping chain ID 'S' in Nup133_propeller_CRouter.pdb #22 to 'V' 
    3485 Remapping chain ID 'K' in Y_CRinner.pdb #23 to 'W' 
    3486 Remapping chain ID 'L' in Y_CRinner.pdb #23 to 'X' 
    3487 Remapping chain ID 'R' in Y_CRinner.pdb #23 to 'Y' 
    3488 Remapping chain ID 'S' in Y_CRinner.pdb #23 to 'Z' 
    3489 Remapping chain ID 'A' in Y_CRouter.pdb #24 to 'B' 
    3490 Remapping chain ID 'C' in Y_CRouter.pdb #24 to 'F' 
    3491 Remapping chain ID 'K' in Y_CRouter.pdb #24 to 'a' 
    3492 Remapping chain ID 'L' in Y_CRouter.pdb #24 to 'b' 
    3493 Remapping chain ID 'M' in Y_CRouter.pdb #24 to 'c' 
    3494 Remapping chain ID 'N' in Y_CRouter.pdb #24 to 'd' 
    3495 Remapping chain ID 'O' in Y_CRouter.pdb #24 to 'e' 
    3496 Remapping chain ID 'P' in Y_CRouter.pdb #24 to 'f' 
    3497 Remapping chain ID 'Q' in Y_CRouter.pdb #24 to 'g' 
    3498 Remapping chain ID 'R' in Y_CRouter.pdb #24 to 'h' 
    3499 Remapping chain ID 'S' in Y_CRouter.pdb #24 to 'i' 
    3500 Remapping chain ID 'U' in Y_CRouter.pdb #24 to 'j' 
    3501 Remapping chain ID 'V' in Y_CRouter.pdb #24 to 'k' 
    3502 Remapping chain ID 'W' in Y_CRouter.pdb #24 to 'l' 
    3503 
    3504 > hide #!26 models
    3505 
    3506 > show #!26 models
    3507 
    3508 > hide #15-22#!13-14,23-24 target m
    3509 
    3510 > hide #!26 cartoons
    3511 
    3512 > hide #!26 atoms
    3513 
    3514 > select clear
    3515 
    3516 > select add #26
    3517 
    3518 234892 atoms, 239909 bonds, 6 pseudobonds, 29498 residues, 2 models selected 
    3519 
    3520 > show sel cartoons
    3521 
    3522 > select clear
    3523 
    3524 > open
    3525 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNup155_NRconnector_CTD.pdb
    3526 
    3527 Chain information for hNup155_NRconnector_CTD.pdb #27 
    3528 --- 
    3529 Chain | Description 
    3530 D | No description available 
    3531  
    3532 
    3533 > open
    3534 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNup155_NRconnector_NTD.pdb
    3535 
    3536 Chain information for hNup155_NRconnector_NTD.pdb #28 
    3537 --- 
    3538 Chain | Description 
    3539 D | No description available 
    3540  
    3541 
    3542 > open
    3543 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/Nup98_NRconnector.pdb
    3544 
    3545 Chain information for Nup98_NRconnector.pdb #29 
    3546 --- 
    3547 Chain | Description 
    3548 U | No description available 
    3549  
    3550 
    3551 > open
    3552 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/Nup133_propeller_NRinner.pdb
    3553 
    3554 Chain information for Nup133_propeller_NRinner.pdb #30 
    3555 --- 
    3556 Chain | Description 
    3557 K | No description available 
    3558 R | No description available 
    3559 S | No description available 
    3560 T | No description available 
    3561  
    3562 
    3563 > open
    3564 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/Nup133_propeller_NRouter.pdb
    3565 
    3566 Chain information for Nup133_propeller_NRouter.pdb #31 
    3567 --- 
    3568 Chain | Description 
    3569 K | No description available 
    3570 R | No description available 
    3571 S | No description available 
    3572 T | No description available 
    3573  
    3574 
    3575 > open E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/Y_NRinner.pdb
    3576 
    3577 Chain information for Y_NRinner.pdb #32 
    3578 --- 
    3579 Chain | Description 
    3580 K | No description available 
    3581 L | No description available 
    3582 M | No description available 
    3583 N | No description available 
    3584 O | No description available 
    3585 P | No description available 
    3586 Q | No description available 
    3587 R | No description available 
    3588 S | No description available 
    3589 T | No description available 
    3590  
    3591 
    3592 > open E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/Y_NRouter.pdb
    3593 
    3594 Chain information for Y_NRouter.pdb #33 
    3595 --- 
    3596 Chain | Description 
    3597 A | No description available 
    3598 C | No description available 
    3599 K | No description available 
    3600 L | No description available 
    3601 M | No description available 
    3602 N | No description available 
    3603 O | No description available 
    3604 P | No description available 
    3605 Q | No description available 
    3606 R | No description available 
    3607 S | No description available 
    3608 T | No description available 
    3609  
    3610 Drag select of 9169 residues, 131687 atoms, 4 pseudobonds 
    3611 
    3612 > ui mousemode right "translate selected models"
    3613 
    3614 > view matrix models
    3615 > #27,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728,#28,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728,#29,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728,#30,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728,#31,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728,#32,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728,#33,1,0,0,866.09,0,1,0,203.02,0,0,1,12.728
    3616 
    3617 > view matrix models
    3618 > #27,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306,#28,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306,#29,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306,#30,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306,#31,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306,#32,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306,#33,1,0,0,744.03,0,1,0,343.45,0,0,1,2.6306
    3619 
    3620 > ui mousemode right "rotate selected models"
    3621 
    3622 > view matrix models
    3623 > #27,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08,#28,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08,#29,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08,#30,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08,#31,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08,#32,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08,#33,-0.82829,0.55789,-0.051885,940.72,-0.53288,-0.81299,-0.23471,2231.1,-0.17313,-0.16676,0.97068,228.08
    3624 
    3625 > ui mousemode right "translate selected models"
    3626 
    3627 > view matrix models
    3628 > #27,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19,#28,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19,#29,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19,#30,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19,#31,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19,#32,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19,#33,-0.82829,0.55789,-0.051885,1010.8,-0.53288,-0.81299,-0.23471,2146.3,-0.17313,-0.16676,0.97068,198.19
    3629 
    3630 > view matrix models
    3631 > #27,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82,#28,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82,#29,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82,#30,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82,#31,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82,#32,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82,#33,-0.82829,0.55789,-0.051885,1069.1,-0.53288,-0.81299,-0.23471,2179.2,-0.17313,-0.16676,0.97068,198.82
    3632 
    3633 > view matrix models
    3634 > #27,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38,#28,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38,#29,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38,#30,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38,#31,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38,#32,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38,#33,-0.82829,0.55789,-0.051885,1057,-0.53288,-0.81299,-0.23471,2230.2,-0.17313,-0.16676,0.97068,208.38
    3635 
    3636 > view matrix models
    3637 > #27,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29,#28,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29,#29,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29,#30,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29,#31,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29,#32,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29,#33,-0.82829,0.55789,-0.051885,1043.1,-0.53288,-0.81299,-0.23471,2239.4,-0.17313,-0.16676,0.97068,214.29
    3638 
    3639 > volume #10 level 0.05607
    3640 
    3641 > lighting soft
    3642 
    3643 > lighting simple
    3644 
    3645 > view matrix models
    3646 > #27,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21,#28,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21,#29,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21,#30,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21,#31,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21,#32,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21,#33,-0.82829,0.55789,-0.051885,1043.6,-0.53288,-0.81299,-0.23471,2240.1,-0.17313,-0.16676,0.97068,193.21
    3647 
    3648 > ui mousemode right "rotate selected models"
    3649 
    3650 > view matrix models
    3651 > #27,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473,#28,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473,#29,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473,#30,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473,#31,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473,#32,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473,#33,-0.80852,0.53306,0.24927,860.64,-0.53911,-0.84078,0.049375,2080.1,0.2359,-0.094465,0.96717,-13.473
    3652 
    3653 > ui mousemode right "translate selected models"
    3654 
    3655 > view matrix models
    3656 > #27,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769,#28,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769,#29,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769,#30,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769,#31,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769,#32,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769,#33,-0.80852,0.53306,0.24927,860.06,-0.53911,-0.84078,0.049375,2086.1,0.2359,-0.094465,0.96717,3.4769
    3657 
    3658 > rename #25 "CR_map 20"
    3659 
    3660 > molmap sel 20
    3661 
    3662 Opened map 20 as #34, grid size 68,120,66, pixel 6.67, shown at level 0.0471,
    3663 step 1, values float32 
    3664 
    3665 > save
    3666 > C:/Users/dziemianowicz/Desktop/11-11-24_CR_NRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    3667 > bin2_structureFitting).cxs includeMaps true
    3668 
    3669 > hide #!10 models
    3670 
    3671 > show #!10 models
    3672 
    3673 > fitmap #34 inMap #10
    3674 
    3675 Fit map map 20 in map ref_mock_NR_cut_resampled.mrc using 20253 points 
    3676 correlation = 0.7401, correlation about mean = 0.3541, overlap = 288.4 
    3677 steps = 80, shift = 18.4, angle = 18.9 degrees 
    3678  
    3679 Position of map 20 (#34) relative to ref_mock_NR_cut_resampled.mrc (#10)
    3680 coordinates: 
    3681 Matrix rotation and translation 
    3682 -0.69445983 0.71943370 0.01186173 835.40825135 
    3683 -0.71915026 -0.69453414 0.02110061 2042.19344586 
    3684 0.02341887 0.00612317 0.99970700 -12.51880407 
    3685 Axis -0.01041034 -0.00803300 -0.99991354 
    3686 Axis point 851.22762300 843.84950420 0.00000000 
    3687 Rotation angle (degrees) 133.99881464 
    3688 Shift along axis -12.58409824 
    3689  
    3690 
    3691 > fitmap sel inMap #34
    3692 
    3693 Fit molecules hNup155_NRconnector_CTD.pdb (#27), hNup155_NRconnector_NTD.pdb
    3694 (#28), Nup98_NRconnector.pdb (#29), Nup133_propeller_NRinner.pdb (#30),
    3695 Nup133_propeller_NRouter.pdb (#31), Y_NRinner.pdb (#32), Y_NRouter.pdb (#33)
    3696 to map map 20 (#34) using 203994 atoms 
    3697 average map value = 0.2995, steps = 124 
    3698 shifted from previous position = 17.1 
    3699 rotated from previous position = 18.9 degrees 
    3700 atoms outside contour = 117, contour level = 0.0471 
    3701  
    3702 Position of hNup155_NRconnector_CTD.pdb (#27) relative to map 20 (#34)
    3703 coordinates: 
    3704 Matrix rotation and translation 
    3705 0.99999999 0.00012534 0.00005549 -0.10883655 
    3706 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3707 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3708 Axis -0.46752198 0.35782823 -0.80832058 
    3709 Axis point -3.94630624 998.29992145 0.00000000 
    3710 Rotation angle (degrees) 0.00888478 
    3711 Shift along axis -0.03485097 
    3712  
    3713 Position of hNup155_NRconnector_NTD.pdb (#28) relative to map 20 (#34)
    3714 coordinates: 
    3715 Matrix rotation and translation 
    3716 0.99999999 0.00012534 0.00005549 -0.10883655 
    3717 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3718 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3719 Axis -0.46752198 0.35782823 -0.80832058 
    3720 Axis point -3.94630624 998.29992145 0.00000000 
    3721 Rotation angle (degrees) 0.00888478 
    3722 Shift along axis -0.03485097 
    3723  
    3724 Position of Nup98_NRconnector.pdb (#29) relative to map 20 (#34) coordinates: 
    3725 Matrix rotation and translation 
    3726 0.99999999 0.00012534 0.00005549 -0.10883655 
    3727 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3728 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3729 Axis -0.46752198 0.35782823 -0.80832058 
    3730 Axis point -3.94630624 998.29992145 0.00000000 
    3731 Rotation angle (degrees) 0.00888478 
    3732 Shift along axis -0.03485097 
    3733  
    3734 Position of Nup133_propeller_NRinner.pdb (#30) relative to map 20 (#34)
    3735 coordinates: 
    3736 Matrix rotation and translation 
    3737 0.99999999 0.00012534 0.00005549 -0.10883655 
    3738 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3739 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3740 Axis -0.46752198 0.35782823 -0.80832058 
    3741 Axis point -3.94630624 998.29992145 0.00000000 
    3742 Rotation angle (degrees) 0.00888478 
    3743 Shift along axis -0.03485097 
    3744  
    3745 Position of Nup133_propeller_NRouter.pdb (#31) relative to map 20 (#34)
    3746 coordinates: 
    3747 Matrix rotation and translation 
    3748 0.99999999 0.00012534 0.00005549 -0.10883655 
    3749 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3750 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3751 Axis -0.46752198 0.35782823 -0.80832058 
    3752 Axis point -3.94630624 998.29992145 0.00000000 
    3753 Rotation angle (degrees) 0.00888478 
    3754 Shift along axis -0.03485097 
    3755  
    3756 Position of Y_NRinner.pdb (#32) relative to map 20 (#34) coordinates: 
    3757 Matrix rotation and translation 
    3758 0.99999999 0.00012534 0.00005549 -0.10883655 
    3759 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3760 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3761 Axis -0.46752198 0.35782823 -0.80832058 
    3762 Axis point -3.94630624 998.29992145 0.00000000 
    3763 Rotation angle (degrees) 0.00888478 
    3764 Shift along axis -0.03485097 
    3765  
    3766 Position of Y_NRouter.pdb (#33) relative to map 20 (#34) coordinates: 
    3767 Matrix rotation and translation 
    3768 0.99999999 0.00012534 0.00005549 -0.10883655 
    3769 -0.00012535 0.99999999 0.00007249 -0.01295485 
    3770 -0.00005548 -0.00007250 1.00000000 0.10033004 
    3771 Axis -0.46752198 0.35782823 -0.80832058 
    3772 Axis point -3.94630624 998.29992145 0.00000000 
    3773 Rotation angle (degrees) 0.00888478 
    3774 Shift along axis -0.03485097 
    3775  
    3776 
    3777 > rename #34 "NRmap 20"
    3778 
    3779 > hide #!34 models
    3780 
    3781 > save
    3782 > C:/Users/dziemianowicz/Desktop/11-11-24_CR_NRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    3783 > bin2_structureFitting).cxs includeMaps true
    3784 
    3785 > select clear
    3786 
    3787 > select add #27
    3788 
    3789 10364 atoms, 10569 bonds, 1 pseudobond, 1312 residues, 2 models selected 
    3790 
    3791 > select add #28
    3792 
    3793 20728 atoms, 21138 bonds, 2 pseudobonds, 2624 residues, 4 models selected 
    3794 
    3795 > select add #29
    3796 
    3797 20895 atoms, 21306 bonds, 2 pseudobonds, 2645 residues, 5 models selected 
    3798 
    3799 > select add #30
    3800 
    3801 46601 atoms, 47596 bonds, 2 pseudobonds, 5907 residues, 6 models selected 
    3802 
    3803 > select add #31
    3804 
    3805 72307 atoms, 73886 bonds, 2 pseudobonds, 9169 residues, 7 models selected 
    3806 
    3807 > select add #32
    3808 
    3809 127214 atoms, 130024 bonds, 4 pseudobonds, 16059 residues, 9 models selected 
    3810 
    3811 > select add #33
    3812 
    3813 203994 atoms, 208464 bonds, 6 pseudobonds, 25686 residues, 11 models selected 
    3814 
    3815 > combine sel name NRatom
    3816 
    3817 Remapping chain ID 'D' in hNup155_NRconnector_NTD.pdb #28 to 'E' 
    3818 Remapping chain ID 'K' in Nup133_propeller_NRouter.pdb #31 to 'L' 
    3819 Remapping chain ID 'R' in Nup133_propeller_NRouter.pdb #31 to 'V' 
    3820 Remapping chain ID 'S' in Nup133_propeller_NRouter.pdb #31 to 'W' 
    3821 Remapping chain ID 'T' in Nup133_propeller_NRouter.pdb #31 to 'X' 
    3822 Remapping chain ID 'K' in Y_NRinner.pdb #32 to 'Y' 
    3823 Remapping chain ID 'L' in Y_NRinner.pdb #32 to 'Z' 
    3824 Remapping chain ID 'R' in Y_NRinner.pdb #32 to 'a' 
    3825 Remapping chain ID 'S' in Y_NRinner.pdb #32 to 'b' 
    3826 Remapping chain ID 'T' in Y_NRinner.pdb #32 to 'c' 
    3827 Remapping chain ID 'K' in Y_NRouter.pdb #33 to 'd' 
    3828 Remapping chain ID 'L' in Y_NRouter.pdb #33 to 'e' 
    3829 Remapping chain ID 'M' in Y_NRouter.pdb #33 to 'f' 
    3830 Remapping chain ID 'N' in Y_NRouter.pdb #33 to 'g' 
    3831 Remapping chain ID 'O' in Y_NRouter.pdb #33 to 'h' 
    3832 Remapping chain ID 'P' in Y_NRouter.pdb #33 to 'i' 
    3833 Remapping chain ID 'Q' in Y_NRouter.pdb #33 to 'j' 
    3834 Remapping chain ID 'R' in Y_NRouter.pdb #33 to 'k' 
    3835 Remapping chain ID 'S' in Y_NRouter.pdb #33 to 'l' 
    3836 Remapping chain ID 'T' in Y_NRouter.pdb #33 to 'm' 
    3837 
    3838 > hide sel cartoons
    3839 
    3840 > hide sel atoms
    3841 
    3842 > select clear
    3843 
    3844 > select add #35
    3845 
    3846 203994 atoms, 208464 bonds, 6 pseudobonds, 25686 residues, 2 models selected 
    3847 
    3848 > hide sel atoms
    3849 
    3850 > hide sel cartoons
    3851 
    3852 > show sel cartoons
    3853 
    3854 > hide sel cartoons
    3855 
    3856 > select add #26
    3857 
    3858 438886 atoms, 448373 bonds, 12 pseudobonds, 55184 residues, 4 models selected 
    3859 
    3860 > hide sel cartoons
    3861 
    3862 > open
    3863 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNup53_dimer_IRcyt_outerG7.pdb
    3864 
    3865 Chain information for hNup53_dimer_IRcyt_outerG7.pdb #36 
    3866 --- 
    3867 Chain | Description 
    3868 F | No description available 
    3869  
    3870 
    3871 > open
    3872 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNup53_dimer_IRnuc_innerF0.pdb
    3873 
    3874 Chain information for hNup53_dimer_IRnuc_innerF0.pdb #37 
    3875 --- 
    3876 Chain | Description 
    3877 F | No description available 
    3878  
    3879 
    3880 > open
    3881 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNup53_dimer_IRnuc_outerG0.pdb
    3882 
    3883 Chain information for hNup53_dimer_IRnuc_outerG0.pdb #38 
    3884 --- 
    3885 Chain | Description 
    3886 F | No description available 
    3887  
    3888 
    3889 > open
    3890 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNups_IRcyt_inner.pdb
    3891 
    3892 Chain information for hNups_IRcyt_inner.pdb #39 
    3893 --- 
    3894 Chain | Description 
    3895 4 | No description available 
    3896 A | No description available 
    3897 C | No description available 
    3898 D | No description available 
    3899 E | No description available 
    3900 F | No description available 
    3901 H | No description available 
    3902 I | No description available 
    3903 J | No description available 
    3904 U | No description available 
    3905  
    3906 
    3907 > open
    3908 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNups_IRcyt_outer.pdb
    3909 
    3910 Chain information for hNups_IRcyt_outer.pdb #40 
    3911 --- 
    3912 Chain | Description 
    3913 A | No description available 
    3914 B | No description available 
    3915 D | No description available 
    3916 F | No description available 
    3917 H | No description available 
    3918 I | No description available 
    3919 J | No description available 
    3920 U | No description available 
    3921  
    3922 
    3923 > open
    3924 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNups_IRnuc_inner.pdb
    3925 
    3926 Chain information for hNups_IRnuc_inner.pdb #41 
    3927 --- 
    3928 Chain | Description 
    3929 4 | No description available 
    3930 A | No description available 
    3931 C | No description available 
    3932 D | No description available 
    3933 E | No description available 
    3934 F | No description available 
    3935 H | No description available 
    3936 I | No description available 
    3937 J | No description available 
    3938 U | No description available 
    3939  
    3940 
    3941 > open
    3942 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNups_IRnuc_outer.pdb
    3943 
    3944 Chain information for hNups_IRnuc_outer.pdb #42 
    3945 --- 
    3946 Chain | Description 
    3947 A | No description available 
    3948 B | No description available 
    3949 D | No description available 
    3950 F | No description available 
    3951 H | No description available 
    3952 I | No description available 
    3953 J | No description available 
    3954 U | No description available 
    3955  
    3956 
    3957 > open
    3958 > E:/ownCloud/Manuscripts/FluNPC/Figures/npc_fitting/hNup53_dimer_IRcyt_innerF7.pdb
    3959 
    3960 Chain information for hNup53_dimer_IRcyt_innerF7.pdb #43 
    3961 --- 
    3962 Chain | Description 
    3963 F | No description available 
    3964  
    3965 
    3966 > ui tool show "Side View"
    3967 
    3968 Drag select of 356 residues, 173648 atoms, 8 pseudobonds 
    3969 
    3970 > view matrix models
    3971 > #36,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#37,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#38,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#39,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#40,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#41,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#42,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905,#43,1,0,0,547.06,0,1,0,307.6,0,0,1,-14.905
    3972 
    3973 > ui mousemode right "rotate selected models"
    3974 
    3975 > view matrix models
    3976 > #36,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#37,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#38,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#39,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#40,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#41,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#42,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46,#43,-0.92673,0.36961,-0.067537,1029,-0.37571,-0.90972,0.17676,1984.4,0.0038925,0.18919,0.98193,-167.46
    3977 
    3978 > ui mousemode right "translate selected models"
    3979 
    3980 > view matrix models
    3981 > #36,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#37,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#38,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#39,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#40,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#41,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#42,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51,#43,-0.92673,0.36961,-0.067537,1227.2,-0.37571,-0.90972,0.17676,2102.7,0.0038925,0.18919,0.98193,-184.51
    3982 
    3983 > view matrix models
    3984 > #36,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#37,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#38,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#39,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#40,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#41,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#42,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55,#43,-0.92673,0.36961,-0.067537,1330.7,-0.37571,-0.90972,0.17676,1977.8,0.0038925,0.18919,0.98193,-168.55
    3985 
    3986 > view matrix models
    3987 > #36,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#37,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#38,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#39,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#40,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#41,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#42,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81,#43,-0.92673,0.36961,-0.067537,1305.1,-0.37571,-0.90972,0.17676,1960.2,0.0038925,0.18919,0.98193,-170.81
    3988 
    3989 > molmap sel 20
    3990 
    3991 Opened map 20 as #44, grid size 60,81,62, pixel 6.67, shown at level 0.0418,
    3992 step 1, values float32 
    3993 
    3994 > hide #!9 models
    3995 
    3996 > show #!9 models
    3997 
    3998 > fitmap #44 inMap #9
    3999 
    4000 Fit map map 20 in map ref_mock_IR_cut_resampled.mrc using 22079 points 
    4001 correlation = 0.7451, correlation about mean = 0.377, overlap = 219.2 
    4002 steps = 84, shift = 19.4, angle = 24.6 degrees 
    4003  
    4004 Position of map 20 (#44) relative to ref_mock_IR_cut_resampled.mrc (#9)
    4005 coordinates: 
    4006 Matrix rotation and translation 
    4007 -0.71406643 0.70007758 -0.00072354 863.76870492 
    4008 -0.70004324 -0.71402036 0.01069548 2054.06622661 
    4009 0.00697105 0.00814379 0.99994254 -9.52250781 
    4010 Axis -0.00182245 -0.00549557 -0.99998324 
    4011 Axis point 851.36365319 850.66463512 0.00000000 
    4012 Rotation angle (degrees) 135.56720753 
    4013 Shift along axis -3.34008014 
    4014  
    4015 
    4016 > fitmap #44 inMap #9
    4017 
    4018 Fit map map 20 in map ref_mock_IR_cut_resampled.mrc using 22079 points 
    4019 correlation = 0.7452, correlation about mean = 0.3769, overlap = 219.1 
    4020 steps = 40, shift = 0.101, angle = 0.0359 degrees 
    4021  
    4022 Position of map 20 (#44) relative to ref_mock_IR_cut_resampled.mrc (#9)
    4023 coordinates: 
    4024 Matrix rotation and translation 
    4025 -0.71405365 0.70009017 -0.00107141 864.03637002 
    4026 -0.70006212 -0.71400947 0.01017373 2054.54379709 
    4027 0.00635753 0.00801464 0.99994768 -9.07069264 
    4028 Axis -0.00154201 -0.00530573 -0.99998474 
    4029 Axis point 851.60534915 850.84148964 0.00000000 
    4030 Rotation angle (degrees) 135.56602920 
    4031 Shift along axis -3.16265128 
    4032  
    4033 
    4034 > fitmap sel inMap #44
    4035 
    4036 Fit molecules hNup53_dimer_IRcyt_outerG7.pdb (#36),
    4037 hNup53_dimer_IRnuc_innerF0.pdb (#37), hNup53_dimer_IRnuc_outerG0.pdb (#38),
    4038 hNups_IRcyt_inner.pdb (#39), hNups_IRcyt_outer.pdb (#40),
    4039 hNups_IRnuc_inner.pdb (#41), hNups_IRnuc_outer.pdb (#42),
    4040 hNup53_dimer_IRcyt_innerF7.pdb (#43) to map map 20 (#44) using 176440 atoms 
    4041 average map value = 0.2222, steps = 116 
    4042 shifted from previous position = 19.5 
    4043 rotated from previous position = 24.6 degrees 
    4044 atoms outside contour = 30, contour level = 0.041829 
    4045  
    4046 Position of hNup53_dimer_IRcyt_outerG7.pdb (#36) relative to map 20 (#44)
    4047 coordinates: 
    4048 Matrix rotation and translation 
    4049 0.99999999 -0.00008653 0.00007541 0.00245894 
    4050 0.00008651 0.99999996 0.00026594 -0.25823135 
    4051 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4052 Axis -0.91813508 0.26039502 0.29870120 
    4053 Axis point 0.00000000 1080.68608144 988.76459636 
    4054 Rotation angle (degrees) 0.01659549 
    4055 Shift along axis 0.01795668 
    4056  
    4057 Position of hNup53_dimer_IRnuc_innerF0.pdb (#37) relative to map 20 (#44)
    4058 coordinates: 
    4059 Matrix rotation and translation 
    4060 0.99999999 -0.00008653 0.00007541 0.00245894 
    4061 0.00008651 0.99999996 0.00026594 -0.25823135 
    4062 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4063 Axis -0.91813508 0.26039502 0.29870120 
    4064 Axis point 0.00000000 1080.68608144 988.76459636 
    4065 Rotation angle (degrees) 0.01659549 
    4066 Shift along axis 0.01795668 
    4067  
    4068 Position of hNup53_dimer_IRnuc_outerG0.pdb (#38) relative to map 20 (#44)
    4069 coordinates: 
    4070 Matrix rotation and translation 
    4071 0.99999999 -0.00008653 0.00007541 0.00245894 
    4072 0.00008651 0.99999996 0.00026594 -0.25823135 
    4073 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4074 Axis -0.91813508 0.26039502 0.29870120 
    4075 Axis point 0.00000000 1080.68608144 988.76459636 
    4076 Rotation angle (degrees) 0.01659549 
    4077 Shift along axis 0.01795668 
    4078  
    4079 Position of hNups_IRcyt_inner.pdb (#39) relative to map 20 (#44) coordinates: 
    4080 Matrix rotation and translation 
    4081 0.99999999 -0.00008653 0.00007541 0.00245894 
    4082 0.00008651 0.99999996 0.00026594 -0.25823135 
    4083 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4084 Axis -0.91813508 0.26039502 0.29870120 
    4085 Axis point 0.00000000 1080.68608144 988.76459636 
    4086 Rotation angle (degrees) 0.01659549 
    4087 Shift along axis 0.01795668 
    4088  
    4089 Position of hNups_IRcyt_outer.pdb (#40) relative to map 20 (#44) coordinates: 
    4090 Matrix rotation and translation 
    4091 0.99999999 -0.00008653 0.00007541 0.00245894 
    4092 0.00008651 0.99999996 0.00026594 -0.25823135 
    4093 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4094 Axis -0.91813508 0.26039502 0.29870120 
    4095 Axis point 0.00000000 1080.68608144 988.76459636 
    4096 Rotation angle (degrees) 0.01659549 
    4097 Shift along axis 0.01795668 
    4098  
    4099 Position of hNups_IRnuc_inner.pdb (#41) relative to map 20 (#44) coordinates: 
    4100 Matrix rotation and translation 
    4101 0.99999999 -0.00008653 0.00007541 0.00245894 
    4102 0.00008651 0.99999996 0.00026594 -0.25823135 
    4103 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4104 Axis -0.91813508 0.26039502 0.29870120 
    4105 Axis point 0.00000000 1080.68608144 988.76459636 
    4106 Rotation angle (degrees) 0.01659549 
    4107 Shift along axis 0.01795668 
    4108  
    4109 Position of hNups_IRnuc_outer.pdb (#42) relative to map 20 (#44) coordinates: 
    4110 Matrix rotation and translation 
    4111 0.99999999 -0.00008653 0.00007541 0.00245894 
    4112 0.00008651 0.99999996 0.00026594 -0.25823135 
    4113 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4114 Axis -0.91813508 0.26039502 0.29870120 
    4115 Axis point 0.00000000 1080.68608144 988.76459636 
    4116 Rotation angle (degrees) 0.01659549 
    4117 Shift along axis 0.01795668 
    4118  
    4119 Position of hNup53_dimer_IRcyt_innerF7.pdb (#43) relative to map 20 (#44)
    4120 coordinates: 
    4121 Matrix rotation and translation 
    4122 0.99999999 -0.00008653 0.00007541 0.00245894 
    4123 0.00008651 0.99999996 0.00026594 -0.25823135 
    4124 -0.00007543 -0.00026593 0.99999996 0.29278920 
    4125 Axis -0.91813508 0.26039502 0.29870120 
    4126 Axis point 0.00000000 1080.68608144 988.76459636 
    4127 Rotation angle (degrees) 0.01659549 
    4128 Shift along axis 0.01795668 
    4129  
    4130 
    4131 > hide #!44 models
    4132 
    4133 > rename #44 "IRmap 20"
    4134 
    4135 > combine sel name IRatom
    4136 
    4137 Remapping chain ID 'F' in hNup53_dimer_IRnuc_innerF0.pdb #37 to 'G' 
    4138 Remapping chain ID 'F' in hNup53_dimer_IRnuc_outerG0.pdb #38 to 'H' 
    4139 Remapping chain ID 'F' in hNups_IRcyt_inner.pdb #39 to 'K' 
    4140 Remapping chain ID 'H' in hNups_IRcyt_inner.pdb #39 to 'L' 
    4141 Remapping chain ID 'A' in hNups_IRcyt_outer.pdb #40 to 'M' 
    4142 Remapping chain ID 'D' in hNups_IRcyt_outer.pdb #40 to 'N' 
    4143 Remapping chain ID 'F' in hNups_IRcyt_outer.pdb #40 to 'O' 
    4144 Remapping chain ID 'H' in hNups_IRcyt_outer.pdb #40 to 'P' 
    4145 Remapping chain ID 'I' in hNups_IRcyt_outer.pdb #40 to 'Q' 
    4146 Remapping chain ID 'J' in hNups_IRcyt_outer.pdb #40 to 'R' 
    4147 Remapping chain ID 'U' in hNups_IRcyt_outer.pdb #40 to 'V' 
    4148 Remapping chain ID '4' in hNups_IRnuc_inner.pdb #41 to '5' 
    4149 Remapping chain ID 'A' in hNups_IRnuc_inner.pdb #41 to 'S' 
    4150 Remapping chain ID 'C' in hNups_IRnuc_inner.pdb #41 to 'T' 
    4151 Remapping chain ID 'D' in hNups_IRnuc_inner.pdb #41 to 'W' 
    4152 Remapping chain ID 'E' in hNups_IRnuc_inner.pdb #41 to 'X' 
    4153 Remapping chain ID 'F' in hNups_IRnuc_inner.pdb #41 to 'Y' 
    4154 Remapping chain ID 'H' in hNups_IRnuc_inner.pdb #41 to 'Z' 
    4155 Remapping chain ID 'I' in hNups_IRnuc_inner.pdb #41 to 'a' 
    4156 Remapping chain ID 'J' in hNups_IRnuc_inner.pdb #41 to 'b' 
    4157 Remapping chain ID 'U' in hNups_IRnuc_inner.pdb #41 to 'c' 
    4158 Remapping chain ID 'A' in hNups_IRnuc_outer.pdb #42 to 'd' 
    4159 Remapping chain ID 'B' in hNups_IRnuc_outer.pdb #42 to 'e' 
    4160 Remapping chain ID 'D' in hNups_IRnuc_outer.pdb #42 to 'f' 
    4161 Remapping chain ID 'F' in hNups_IRnuc_outer.pdb #42 to 'g' 
    4162 Remapping chain ID 'H' in hNups_IRnuc_outer.pdb #42 to 'h' 
    4163 Remapping chain ID 'I' in hNups_IRnuc_outer.pdb #42 to 'i' 
    4164 Remapping chain ID 'J' in hNups_IRnuc_outer.pdb #42 to 'j' 
    4165 Remapping chain ID 'U' in hNups_IRnuc_outer.pdb #42 to 'k' 
    4166 Remapping chain ID 'F' in hNup53_dimer_IRcyt_innerF7.pdb #43 to 'l' 
    4167 
    4168 > hide sel cartoons
    4169 
    4170 > hide sel atoms
    4171 
    4172 > select add #45
    4173 
    4174 352880 atoms, 179922 bonds, 16 pseudobonds, 44480 residues, 14 models selected 
    4175 
    4176 > hide sel atoms
    4177 
    4178 > show sel cartoons
    4179 
    4180 > save
    4181 > C:/Users/dziemianowicz/Desktop/11-11-24_CR_NR_IRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    4182 > bin2_structureFitting).cxs includeMaps true
    4183 
    4184 > select clear
    4185 
    4186 > select add #45
    4187 
    4188 176440 atoms, 179922 bonds, 8 pseudobonds, 22240 residues, 2 models selected 
    4189 
    4190 > select add #26
    4191 
    4192 411332 atoms, 419831 bonds, 14 pseudobonds, 51738 residues, 4 models selected 
    4193 
    4194 > hide #!27 models
    4195 
    4196 > hide #!28 models
    4197 
    4198 > hide #29 models
    4199 
    4200 > hide #30 models
    4201 
    4202 > hide #31 models
    4203 
    4204 > hide #!32 models
    4205 
    4206 > hide #!33 models
    4207 
    4208 > hide #36 models
    4209 
    4210 > hide #38 models
    4211 
    4212 > hide #37 models
    4213 
    4214 > hide #!39 models
    4215 
    4216 > hide #!40 models
    4217 
    4218 > hide #!41 models
    4219 
    4220 > hide #!42 models
    4221 
    4222 > hide #43 models
    4223 
    4224 > select add #35
    4225 
    4226 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 6 models selected 
    4227 
    4228 > hide sel cartoons
    4229 
    4230 > show sel atoms
    4231 
    4232 > save
    4233 > C:/Users/dziemianowicz/Desktop/11-11-24_CR_NR_IRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    4234 > bin2_structureFitting).cxs includeMaps true
    4235 
    4236 > volume gaussian #3 bfactor 200
    4237 
    4238 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4239 pixel 13.3, shown at step 1, values float32 
    4240 
    4241 > close #46
    4242 
    4243 > volume gaussian #3 bfactor 300
    4244 
    4245 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4246 pixel 13.3, shown at step 1, values float32 
    4247 
    4248 > volume #46 level 0.08015
    4249 
    4250 > surface dust #9 size 133
    4251 
    4252 > surface dust #10 size 133
    4253 
    4254 > surface dust #46 size 133
    4255 
    4256 > close #46
    4257 
    4258 > volume gaussian #3 sDev 1
    4259 
    4260 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4261 pixel 13.3, shown at step 1, values float32 
    4262 
    4263 > volume gaussian #3 sDev 2
    4264 
    4265 Opened ref_mock_CR_cut_resampled.mrc gaussian as #47, grid size 55,55,55,
    4266 pixel 13.3, shown at step 1, values float32 
    4267 
    4268 > hide #!46 models
    4269 
    4270 > show #!46 models
    4271 
    4272 > close #46
    4273 
    4274 > close #47
    4275 
    4276 > volume gaussian #3 sDev 5
    4277 
    4278 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4279 pixel 13.3, shown at step 1, values float32 
    4280 
    4281 > hide #!46 models
    4282 
    4283 > show #!46 models
    4284 
    4285 > volume gaussian #3 sDev 50
    4286 
    4287 Opened ref_mock_CR_cut_resampled.mrc gaussian as #47, grid size 55,55,55,
    4288 pixel 13.3, shown at step 1, values float32 
    4289 
    4290 > close #47
    4291 
    4292 > close #46
    4293 
    4294 > volume gaussian #3 sDev 10
    4295 
    4296 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4297 pixel 13.3, shown at step 1, values float32 
    4298 
    4299 > close #46
    4300 
    4301 > volume gaussian #3 sDev 6
    4302 
    4303 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4304 pixel 13.3, shown at step 1, values float32 
    4305 
    4306 > show #!3 models
    4307 
    4308 > hide #!3 models
    4309 
    4310 > show #!3 models
    4311 
    4312 > color #46 #55ffffff models
    4313 
    4314 > color #46 #ffff7fff models
    4315 
    4316 > color #46 #ffaa00ff models
    4317 
    4318 > color #46 #ffaa0096 models
    4319 
    4320 > color #46 #ffaa000a models
    4321 
    4322 > color #46 #ffaa0064 models
    4323 
    4324 > color #46 #ffaa0001 models
    4325 
    4326 > color #46 #ffaa0032 models
    4327 
    4328 > close #46
    4329 
    4330 > volume gaussian #3 sDev 8
    4331 
    4332 Opened ref_mock_CR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4333 pixel 13.3, shown at step 1, values float32 
    4334 
    4335 > color #46 #ffffb264 models
    4336 
    4337 > show #!3 models
    4338 
    4339 > volume #46 level 0.07084
    4340 
    4341 > volume gaussian #3 sDev 10
    4342 
    4343 Opened ref_mock_CR_cut_resampled.mrc gaussian as #47, grid size 55,55,55,
    4344 pixel 13.3, shown at step 1, values float32 
    4345 
    4346 > volume #47 level 0.06448
    4347 
    4348 > close #46
    4349 
    4350 > volume gaussian #9 sDev 10
    4351 
    4352 Opened ref_mock_IR_cut_resampled.mrc gaussian as #46, grid size 55,55,55,
    4353 pixel 13.3, shown at step 1, values float32 
    4354 
    4355 > volume gaussian #10 sDev 10
    4356 
    4357 Opened ref_mock_NR_cut_resampled.mrc gaussian as #48, grid size 55,55,55,
    4358 pixel 13.3, shown at step 1, values float32 
    4359 
    4360 > volume #46 level 0.05083
    4361 
    4362 > volume #46 level 0.04157
    4363 
    4364 > surface dust #47 size 133
    4365 
    4366 > surface dust #46 size 133
    4367 
    4368 > surface dust #48 size 133
    4369 
    4370 > volume #46 level 0.04311
    4371 
    4372 > volume #47 level 0.05272
    4373 
    4374 > volume #48 level 0.05081
    4375 
    4376 > color #46 #b2b2ff78 models
    4377 
    4378 > color #46 #b2b2ff64 models
    4379 
    4380 > color #47 #b2ffff64 models
    4381 
    4382 > color #48 #ffb2ff64 models
    4383 
    4384 > save
    4385 > C:/Users/dziemianowicz/Desktop/11-11-24_CR_NR_IRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    4386 > bin2_structureFitting).cxs includeMaps true
    4387 
    4388 > show #!3 models
    4389 
    4390 > hide #!3 models
    4391 
    4392 > show #!5 models
    4393 
    4394 > ui tool show "Side View"
    4395 
    4396 > volume copy #46
    4397 
    4398 Opened ref_mock_IR_cut_resampled.mrc gaussian copy as #49, grid size 55,55,55,
    4399 pixel 13.3, shown at step 1, values float32 
    4400 
    4401 > select add #49
    4402 
    4403 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 9 models selected 
    4404 
    4405 > select subtract #49
    4406 
    4407 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 6 models selected 
    4408 
    4409 > select subtract #45
    4410 
    4411 438886 atoms, 448373 bonds, 12 pseudobonds, 55184 residues, 4 models selected 
    4412 
    4413 > select subtract #26
    4414 
    4415 203994 atoms, 208464 bonds, 6 pseudobonds, 25686 residues, 2 models selected 
    4416 
    4417 > select subtract #35
    4418 
    4419 Nothing selected 
    4420 
    4421 > volume copy #46
    4422 
    4423 Opened ref_mock_IR_cut_resampled.mrc gaussian copy as #50, grid size 55,55,55,
    4424 pixel 13.3, shown at step 1, values float32 
    4425 
    4426 > select add #49
    4427 
    4428 3 models selected 
    4429 
    4430 > ui mousemode right "translate selected models"
    4431 
    4432 > view matrix models #49,1,0,0,225.55,0,1,0,-279.22,0,0,1,-0.6761
    4433 
    4434 > view matrix models #49,1,0,0,238.31,0,1,0,-304.26,0,0,1,6.5092
    4435 
    4436 > surface dust #49 size 133
    4437 
    4438 > ui mousemode right "rotate selected models"
    4439 
    4440 > view matrix models
    4441 > #49,0.77688,0.62858,0.036615,-230.05,-0.6287,0.77759,-0.0093915,752.13,-0.034375,-0.015724,0.99929,68.515
    4442 
    4443 > ui mousemode right "translate selected models"
    4444 
    4445 > view matrix models
    4446 > #49,0.77688,0.62858,0.036615,-259.7,-0.6287,0.77759,-0.0093915,723.22,-0.034375,-0.015724,0.99929,78.732
    4447 
    4448 > fitmap #49 inMap #5
    4449 
    4450 Fit map ref_mock_IR_cut_resampled.mrc gaussian copy in map full.mrc using 3462
    4451 points 
    4452 correlation = 0.8889, correlation about mean = 0.00462, overlap = 20.97 
    4453 steps = 116, shift = 127, angle = 6.48 degrees 
    4454  
    4455 Position of ref_mock_IR_cut_resampled.mrc gaussian copy (#49) relative to
    4456 full.mrc (#5) coordinates: 
    4457 Matrix rotation and translation 
    4458 0.70550852 0.70869239 0.00358169 -357.60587694 
    4459 -0.70870090 0.70550522 0.00232854 854.60501545 
    4460 -0.00087668 -0.00418115 0.99999088 5.96921865 
    4461 Axis -0.00459265 0.00314542 -0.99998451 
    4462 Axis point 849.50741605 857.61623799 0.00000000 
    4463 Rotation angle (degrees) 45.12986090 
    4464 Shift along axis -1.63867471 
    4465  
    4466 
    4467 > select add #50
    4468 
    4469 6 models selected 
    4470 
    4471 > select subtract #49
    4472 
    4473 3 models selected 
    4474 
    4475 > view matrix models #50,1,0,0,-262.25,0,1,0,206.05,0,0,1,7.1832
    4476 
    4477 > ui mousemode right "rotate selected models"
    4478 
    4479 > view matrix models
    4480 > #50,0.70658,-0.70691,0.031969,866.48,0.7011,0.70546,0.10383,-396.66,-0.095952,-0.050951,0.99408,186.02
    4481 
    4482 > fitmap #50 inMap #5
    4483 
    4484 Fit map ref_mock_IR_cut_resampled.mrc gaussian copy in map full.mrc using 3462
    4485 points 
    4486 correlation = 0.8889, correlation about mean = 0.004477, overlap = 20.97 
    4487 steps = 64, shift = 51.6, angle = 6.07 degrees 
    4488  
    4489 Position of ref_mock_IR_cut_resampled.mrc gaussian copy (#50) relative to
    4490 full.mrc (#5) coordinates: 
    4491 Matrix rotation and translation 
    4492 0.70861778 -0.70558920 -0.00217119 853.48862446 
    4493 0.70559157 0.70860833 0.00384344 -357.81118606 
    4494 -0.00117337 -0.00425550 0.99999026 6.48701599 
    4495 Axis -0.00573903 -0.00070707 0.99998328 
    4496 Axis point 859.98658652 854.48359340 0.00000000 
    4497 Rotation angle (degrees) 44.87821389 
    4498 Shift along axis 1.84171065 
    4499  
    4500 
    4501 > volume copy #47
    4502 
    4503 Opened ref_mock_CR_cut_resampled.mrc gaussian copy as #51, grid size 55,55,55,
    4504 pixel 13.3, shown at step 1, values float32 
    4505 
    4506 > volume copy #47
    4507 
    4508 Opened ref_mock_CR_cut_resampled.mrc gaussian copy as #52, grid size 55,55,55,
    4509 pixel 13.3, shown at step 1, values float32 
    4510 
    4511 > select subtract #50
    4512 
    4513 Nothing selected 
    4514 
    4515 > surface dust #5 size 133
    4516 
    4517 > surface dust #48 size 133
    4518 
    4519 > surface dust #49 size 133
    4520 
    4521 > surface dust #50 size 133
    4522 
    4523 > surface dust #51 size 133
    4524 
    4525 > surface dust #52 size 133
    4526 
    4527 > select add #51
    4528 
    4529 2 models selected 
    4530 
    4531 > ui mousemode right "translate selected models"
    4532 
    4533 > view matrix models #51,1,0,0,120.31,0,1,0,-349.21,0,0,1,-1.1393
    4534 
    4535 > ui mousemode right "rotate selected models"
    4536 
    4537 > view matrix models
    4538 > #51,0.52537,0.85087,0.0021747,-302.86,-0.84726,0.52337,-0.090735,1246.9,-0.078342,0.045827,0.99587,40.508
    4539 
    4540 > ui mousemode right "translate selected models"
    4541 
    4542 > view matrix models
    4543 > #51,0.52537,0.85087,0.0021747,-321.39,-0.84726,0.52337,-0.090735,1299.5,-0.078342,0.045827,0.99587,45.525
    4544 
    4545 > fitmap #51 inMap #5
    4546 
    4547 Fit map ref_mock_CR_cut_resampled.mrc gaussian copy in map full.mrc using 3699
    4548 points 
    4549 correlation = 0.9409, correlation about mean = 0.3122, overlap = 34.66 
    4550 steps = 92, shift = 36.8, angle = 14.3 degrees 
    4551  
    4552 Position of ref_mock_CR_cut_resampled.mrc gaussian copy (#51) relative to
    4553 full.mrc (#5) coordinates: 
    4554 Matrix rotation and translation 
    4555 0.70678929 0.70741132 -0.00425730 -348.37979997 
    4556 -0.70741894 0.70679436 -0.00042322 855.62484871 
    4557 0.00270964 0.00331082 0.99999085 -6.98687029 
    4558 Axis 0.00263917 -0.00492415 -0.99998439 
    4559 Axis point 857.99902237 848.10516775 0.00000000 
    4560 Rotation angle (degrees) 45.02588539 
    4561 Shift along axis 1.85410375 
    4562  
    4563 
    4564 > select add #52
    4565 
    4566 5 models selected 
    4567 
    4568 > select add #51
    4569 
    4570 6 models selected 
    4571 
    4572 > select subtract #51
    4573 
    4574 3 models selected 
    4575 
    4576 > view matrix models #52,1,0,0,-333.75,0,1,0,174.49,0,0,1,4.7689
    4577 
    4578 > ui mousemode right "rotate selected models"
    4579 
    4580 > view matrix models
    4581 > #52,0.64704,-0.75606,0.098508,828,0.75487,0.65342,0.056773,-351.03,-0.10729,0.037626,0.99352,91.069
    4582 
    4583 > ui mousemode right "translate selected models"
    4584 
    4585 > view matrix models
    4586 > #52,0.64704,-0.75606,0.098508,889.37,0.75487,0.65342,0.056773,-382.21,-0.10729,0.037626,0.99352,100.35
    4587 
    4588 > fitmap #52 inMap #5
    4589 
    4590 Fit map ref_mock_CR_cut_resampled.mrc gaussian copy in map full.mrc using 3699
    4591 points 
    4592 correlation = 0.9409, correlation about mean = 0.3121, overlap = 34.67 
    4593 steps = 68, shift = 30.9, angle = 7.92 degrees 
    4594  
    4595 Position of ref_mock_CR_cut_resampled.mrc gaussian copy (#52) relative to
    4596 full.mrc (#5) coordinates: 
    4597 Matrix rotation and translation 
    4598 0.70759066 -0.70662257 -0.00001643 852.43489581 
    4599 0.70661650 0.70758468 -0.00412730 -348.50228049 
    4600 0.00292807 0.00290882 0.99999149 -6.85052316 
    4601 Axis 0.00497865 -0.00208348 0.99998544 
    4602 Axis point 847.32631572 855.73000143 0.00000000 
    4603 Rotation angle (degrees) 44.96136608 
    4604 Shift along axis -1.88035109 
    4605  
    4606 
    4607 > select subtract #52
    4608 
    4609 Nothing selected 
    4610 
    4611 > volume copy #48
    4612 
    4613 Opened ref_mock_NR_cut_resampled.mrc gaussian copy as #53, grid size 55,55,55,
    4614 pixel 13.3, shown at step 1, values float32 
    4615 
    4616 > volume copy #48
    4617 
    4618 Opened ref_mock_NR_cut_resampled.mrc gaussian copy as #54, grid size 55,55,55,
    4619 pixel 13.3, shown at step 1, values float32 
    4620 
    4621 > select add #53
    4622 
    4623 2 models selected 
    4624 
    4625 > view matrix models #53,1,0,0,247.39,0,1,0,-183.51,0,0,1,2.0711
    4626 
    4627 > ui mousemode right "rotate selected models"
    4628 
    4629 > view matrix models
    4630 > #53,0.72492,0.68551,0.067626,-276.58,-0.68774,0.7258,0.014985,953.93,-0.038811,-0.057372,0.9976,117.84
    4631 
    4632 > fitmap #53 inMap #5
    4633 
    4634 Fit map ref_mock_NR_cut_resampled.mrc gaussian copy in map full.mrc using 2251
    4635 points 
    4636 correlation = 0.8907, correlation about mean = 0.02911, overlap = 16.11 
    4637 steps = 136, shift = 195, angle = 5.37 degrees 
    4638  
    4639 Position of ref_mock_NR_cut_resampled.mrc gaussian copy (#53) relative to
    4640 full.mrc (#5) coordinates: 
    4641 Matrix rotation and translation 
    4642 0.70726376 0.70665125 -0.02054196 -340.84439901 
    4643 -0.70682445 0.70738689 -0.00172767 854.03819626 
    4644 0.01331026 0.01574148 0.99978750 -34.91446106 
    4645 Axis 0.01235451 -0.02394094 -0.99963703 
    4646 Axis point 861.17957803 839.26749878 0.00000000 
    4647 Rotation angle (degrees) 44.99090015 
    4648 Shift along axis 10.24434522 
    4649  
    4650 
    4651 > select add #54
    4652 
    4653 5 models selected 
    4654 
    4655 > select add #53
    4656 
    4657 6 models selected 
    4658 
    4659 > select subtract #53
    4660 
    4661 3 models selected 
    4662 
    4663 > ui mousemode right "translate selected models"
    4664 
    4665 > view matrix models #54,1,0,0,-422.31,0,1,0,164.27,0,0,1,0.86927
    4666 
    4667 > ui mousemode right "rotate selected models"
    4668 
    4669 > view matrix models
    4670 > #54,0.60972,-0.79251,-0.013128,987.24,0.79237,0.60902,0.035208,-353.39,-0.019907,-0.031869,0.99929,62.74
    4671 
    4672 > ui mousemode right "translate selected models"
    4673 
    4674 > view matrix models
    4675 > #54,0.60972,-0.79251,-0.013128,1068.9,0.79237,0.60902,0.035208,-334.42,-0.019907,-0.031869,0.99929,68.476
    4676 
    4677 > fitmap #54 inMap #5
    4678 
    4679 Fit map ref_mock_NR_cut_resampled.mrc gaussian copy in map full.mrc using 2251
    4680 points 
    4681 correlation = 0.8908, correlation about mean = 0.02941, overlap = 16.11 
    4682 steps = 64, shift = 28.1, angle = 8.14 degrees 
    4683  
    4684 Position of ref_mock_NR_cut_resampled.mrc gaussian copy (#54) relative to
    4685 full.mrc (#5) coordinates: 
    4686 Matrix rotation and translation 
    4687 0.70693125 -0.70728051 0.00157900 853.82392986 
    4688 0.70715176 0.70675615 -0.02078785 -340.67760789 
    4689 0.01358687 0.01581217 0.99978266 -35.28135486 
    4690 Axis 0.02586653 -0.00848639 0.99962938 
    4691 Axis point 838.55495285 860.10554862 0.00000000 
    4692 Rotation angle (degrees) 45.03011430 
    4693 Shift along axis -10.29169189 
    4694  
    4695 
    4696 > hide #!5 models
    4697 
    4698 > select subtract #54
    4699 
    4700 Nothing selected 
    4701 
    4702 > show #!48 models
    4703 
    4704 > show #!47 models
    4705 
    4706 > show #!46 models
    4707 
    4708 > ui mousemode right select
    4709 
    4710 > surface dust #47 size 133
    4711 
    4712 > surface dust #46 size 133
    4713 
    4714 > surface dust #48 size 133
    4715 
    4716 > surface dust #49 size 133
    4717 
    4718 > surface dust #50 size 133
    4719 
    4720 > surface dust #51 size 133
    4721 
    4722 > surface dust #52 size 133
    4723 
    4724 > surface dust #53 size 133
    4725 
    4726 > surface dust #54 size 133
    4727 
    4728 > save
    4729 > C:/Users/dziemianowicz/Desktop/11-11-24_CR_NR_IRfit_(2023-11_15_mock_densityPrepModelling_bin4-on-
    4730 > bin2_structureFitting).cxs includeMaps true
    4731 
    4732 ——— End of log from Mon Nov 11 13:29:20 2024 ———
    4733 
    4734 opened ChimeraX session 
    4735 
    4736 > open /g/kosinski/kosinski/Flu/NPC/daniel_dir_from_agnieszka/PDBs_fit/*
    4737 
    4738 Chain information for Nup133_propeller_CRinner.pdb #55 
    4739 --- 
    4740 Chain | Description 
    4741 K | No description available 
    4742 R | No description available 
    4743 S | No description available 
    4744  
    4745 Chain information for Nup133_propeller_CRouter.pdb #56 
    4746 --- 
    4747 Chain | Description 
    4748 K | No description available 
    4749 R | No description available 
    4750 S | No description available 
    4751  
    4752 Chain information for Nup133_propeller_NRinner.pdb #57 
    4753 --- 
    4754 Chain | Description 
    4755 K | No description available 
    4756 R | No description available 
    4757 S | No description available 
    4758 T | No description available 
    4759  
    4760 Chain information for Nup133_propeller_NRouter.pdb #58 
    4761 --- 
    4762 Chain | Description 
    4763 K | No description available 
    4764 R | No description available 
    4765 S | No description available 
    4766 T | No description available 
    4767  
    4768 Chain information for Nup98_CRconnector.pdb #59 
    4769 --- 
    4770 Chain | Description 
    4771 U | No description available 
    4772  
    4773 Chain information for Nup98_NRconnector.pdb #60 
    4774 --- 
    4775 Chain | Description 
    4776 U | No description available 
    4777  
    4778 Chain information for Y_CRinner.pdb #61 
    4779 --- 
    4780 Chain | Description 
    4781 A | No description available 
    4782 C | No description available 
    4783 K | No description available 
    4784 L | No description available 
    4785 M | No description available 
    4786 N | No description available 
    4787 O | No description available 
    4788 P | No description available 
    4789 Q | No description available 
    4790 R | No description available 
    4791 S | No description available 
    4792  
    4793 Chain information for Y_CRouter.pdb #62 
    4794 --- 
    4795 Chain | Description 
    4796 A | No description available 
    4797 C | No description available 
    4798 J | No description available 
    4799 K | No description available 
    4800 L | No description available 
    4801 M | No description available 
    4802 N | No description available 
    4803 O | No description available 
    4804 P | No description available 
    4805 Q | No description available 
    4806 R | No description available 
    4807 S | No description available 
    4808 U | No description available 
    4809 V | No description available 
    4810 W | No description available 
    4811  
    4812 Chain information for Y_NRinner.pdb #63 
    4813 --- 
    4814 Chain | Description 
    4815 K | No description available 
    4816 L | No description available 
    4817 M | No description available 
    4818 N | No description available 
    4819 O | No description available 
    4820 P | No description available 
    4821 Q | No description available 
    4822 R | No description available 
    4823 S | No description available 
    4824 T | No description available 
    4825  
    4826 Chain information for Y_NRouter.pdb #64 
    4827 --- 
    4828 Chain | Description 
    4829 A | No description available 
    4830 C | No description available 
    4831 K | No description available 
    4832 L | No description available 
    4833 M | No description available 
    4834 N | No description available 
    4835 O | No description available 
    4836 P | No description available 
    4837 Q | No description available 
    4838 R | No description available 
    4839 S | No description available 
    4840 T | No description available 
    4841  
    4842 Chain information for hNup155_CRconnector_CTD.pdb #65 
    4843 --- 
    4844 Chain | Description 
    4845 D | No description available 
    4846  
    4847 Chain information for hNup155_CRconnector_NTD.pdb #66 
    4848 --- 
    4849 Chain | Description 
    4850 D | No description available 
    4851  
    4852 Chain information for hNup155_NRconnector_CTD.pdb #67 
    4853 --- 
    4854 Chain | Description 
    4855 D | No description available 
    4856  
    4857 Chain information for hNup155_NRconnector_NTD.pdb #68 
    4858 --- 
    4859 Chain | Description 
    4860 D | No description available 
    4861  
    4862 Chain information for hNup358_1_CRinner.pdb #69 
    4863 --- 
    4864 Chain | Description 
    4865 0 | No description available 
    4866  
    4867 Chain information for hNup358_1_CRouter.pdb #70 
    4868 --- 
    4869 Chain | Description 
    4870 0 | No description available 
    4871  
    4872 Chain information for hNup358_2_CRinner.pdb #71 
    4873 --- 
    4874 Chain | Description 
    4875 0 | No description available 
    4876  
    4877 Chain information for hNup358_2_CRouter.pdb #72 
    4878 --- 
    4879 Chain | Description 
    4880 0 | No description available 
    4881  
    4882 Chain information for hNup358_CRmiddle.pdb #73 
    4883 --- 
    4884 Chain | Description 
    4885 0 | No description available 
    4886  
    4887 Chain information for hNup53_dimer_IRcyt_innerF7.pdb #74 
    4888 --- 
    4889 Chain | Description 
    4890 F | No description available 
    4891  
    4892 Chain information for hNup53_dimer_IRcyt_outerG7.pdb #75 
    4893 --- 
    4894 Chain | Description 
    4895 F | No description available 
    4896  
    4897 Chain information for hNup53_dimer_IRnuc_innerF0.pdb #76 
    4898 --- 
    4899 Chain | Description 
    4900 F | No description available 
    4901  
    4902 Chain information for hNup53_dimer_IRnuc_outerG0.pdb #77 
    4903 --- 
    4904 Chain | Description 
    4905 F | No description available 
    4906  
    4907 Chain information for hNups_IRcyt_inner.pdb #78 
    4908 --- 
    4909 Chain | Description 
    4910 4 | No description available 
    4911 A | No description available 
    4912 C | No description available 
    4913 D | No description available 
    4914 E | No description available 
    4915 F | No description available 
    4916 H | No description available 
    4917 I | No description available 
    4918 J | No description available 
    4919 U | No description available 
    4920  
    4921 Chain information for hNups_IRcyt_outer.pdb #79 
    4922 --- 
    4923 Chain | Description 
    4924 A | No description available 
    4925 B | No description available 
    4926 D | No description available 
    4927 F | No description available 
    4928 H | No description available 
    4929 I | No description available 
    4930 J | No description available 
    4931 U | No description available 
    4932  
    4933 Chain information for hNups_IRnuc_inner.pdb #80 
    4934 --- 
    4935 Chain | Description 
    4936 4 | No description available 
    4937 A | No description available 
    4938 C | No description available 
    4939 D | No description available 
    4940 E | No description available 
    4941 F | No description available 
    4942 H | No description available 
    4943 I | No description available 
    4944 J | No description available 
    4945 U | No description available 
    4946  
    4947 Chain information for hNups_IRnuc_outer.pdb #81 
    4948 --- 
    4949 Chain | Description 
    4950 A | No description available 
    4951 B | No description available 
    4952 D | No description available 
    4953 F | No description available 
    4954 H | No description available 
    4955 I | No description available 
    4956 J | No description available 
    4957 U | No description available 
    4958  
    4959 
    4960 > hide #55-60,69-77#!26,35,45,61-68,78-81 atoms
    4961 
    4962 > show #55-60,69-77#!26,35,45,61-68,78-81 cartoons
    4963 
    4964 > view
    4965 
    4966 > hide #!26 models
    4967 
    4968 > hide #!35 models
    4969 
    4970 > hide #!45 models
    4971 
    4972 > select #556-81
    4973 
    4974 Nothing selected 
    4975 
    4976 > select #55-81
    4977 
    4978 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 39 models selected 
    4979 
    4980 > ui mousemode right "translate selected models"
    4981 
    4982 > view matrix models
    4983 > #55,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#56,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#57,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#58,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#59,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#60,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#61,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#62,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#63,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#64,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#65,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#66,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#67,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#68,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#69,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#70,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#71,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#72,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#73,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#74,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#75,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#76,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#77,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#78,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#79,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#80,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066,#81,1,0,0,687.18,0,1,0,32.494,0,0,1,27.066
    4984 
    4985 > view matrix models
    4986 > #55,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#56,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#57,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#58,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#59,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#60,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#61,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#62,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#63,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#64,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#65,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#66,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#67,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#68,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#69,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#70,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#71,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#72,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#73,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#74,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#75,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#76,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#77,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#78,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#79,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#80,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233,#81,1,0,0,419.83,0,1,0,-47.144,0,0,1,58.233
    4987 
    4988 > select clear
    4989 
    4990 > select #55-81
    4991 
    4992 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 39 models selected 
    4993 
    4994 > select clear
    4995 
    4996 > select #55-81
    4997 
    4998 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 39 models selected 
    4999 
    5000 > view matrix models
    5001 > #55,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#56,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#57,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#58,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#59,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#60,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#61,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#62,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#63,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#64,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#65,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#66,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#67,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#68,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#69,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#70,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#71,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#72,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#73,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#74,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#75,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#76,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#77,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#78,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#79,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#80,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72,#81,-0.50558,0.83568,-0.21455,409.05,-0.8607,-0.47124,0.1927,1352.7,0.05993,0.28209,0.95751,-168.72
    5002 
    5003 > view matrix models
    5004 > #55,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#56,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#57,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#58,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#59,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#60,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#61,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#62,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#63,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#64,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#65,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#66,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#67,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#68,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#69,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#70,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#71,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#72,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#73,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#74,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#75,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#76,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#77,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#78,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#79,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#80,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36,#81,-0.50826,0.82999,-0.22976,427.91,-0.85883,-0.46868,0.20678,1337.7,0.063942,0.30242,0.95103,-182.36
    5005 
    5006 > view matrix models
    5007 > #55,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#56,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#57,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#58,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#59,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#60,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#61,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#62,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#63,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#64,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#65,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#66,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#67,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#68,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#69,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#70,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#71,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#72,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#73,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#74,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#75,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#76,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#77,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#78,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#79,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#80,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81,#81,-0.50826,0.82999,-0.22976,808.38,-0.85883,-0.46868,0.20678,1731.7,0.063942,0.30242,0.95103,-217.81
    5008 
    5009 > view matrix models
    5010 > #55,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#56,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#57,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#58,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#59,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#60,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#61,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#62,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#63,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#64,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#65,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#66,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#67,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#68,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#69,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#70,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#71,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#72,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#73,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#74,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#75,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#76,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#77,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#78,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#79,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#80,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7,#81,-0.38562,0.92178,-0.040132,525.92,-0.92153,-0.38693,-0.032612,1889.3,-0.04559,0.024407,0.99866,18.7
    5011 
    5012 > view matrix models
    5013 > #55,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#56,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#57,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#58,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#59,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#60,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#61,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#62,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#63,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#64,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#65,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#66,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#67,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#68,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#69,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#70,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#71,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#72,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#73,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#74,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#75,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#76,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#77,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#78,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#79,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#80,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44,#81,-0.39601,0.91677,-0.052019,544.42,-0.91492,-0.39876,-0.062565,1922.9,-0.078101,0.022817,0.99668,33.44
    5014 
    5015 > view matrix models
    5016 > #55,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#56,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#57,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#58,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#59,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#60,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#61,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#62,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#63,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#64,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#65,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#66,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#67,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#68,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#69,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#70,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#71,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#72,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#73,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#74,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#75,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#76,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#77,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#78,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#79,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#80,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266,#81,-0.39601,0.91677,-0.052019,577.31,-0.91492,-0.39876,-0.062565,1900.9,-0.078101,0.022817,0.99668,-2.6266
    5017 
    5018 > view matrix models
    5019 > #55,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#56,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#57,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#58,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#59,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#60,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#61,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#62,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#63,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#64,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#65,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#66,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#67,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#68,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#69,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#70,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#71,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#72,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#73,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#74,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#75,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#76,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#77,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#78,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#79,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#80,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043,#81,-0.39601,0.91677,-0.052019,576.11,-0.91492,-0.39876,-0.062565,1902.3,-0.078101,0.022817,0.99668,-5.1043
    5020 
    5021 > view matrix models
    5022 > #55,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#56,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#57,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#58,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#59,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#60,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#61,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#62,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#63,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#64,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#65,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#66,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#67,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#68,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#69,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#70,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#71,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#72,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#73,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#74,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#75,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#76,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#77,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#78,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#79,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#80,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806,#81,-0.39601,0.91677,-0.052019,574.57,-0.91492,-0.39876,-0.062565,1909.7,-0.078101,0.022817,0.99668,-15.806
    5023 
    5024 > view matrix models
    5025 > #55,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#56,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#57,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#58,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#59,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#60,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#61,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#62,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#63,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#64,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#65,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#66,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#67,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#68,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#69,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#70,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#71,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#72,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#73,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#74,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#75,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#76,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#77,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#78,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#79,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#80,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325,#81,-0.39601,0.91677,-0.052019,573.87,-0.91492,-0.39876,-0.062565,1900.4,-0.078101,0.022817,0.99668,7.7325
    5026 
    5027 > hide #!49-54 target m
    5028 
    5029 > volume add #46,47,48
    5030 
    5031 Opened volume sum as #82, grid size 55,55,55, pixel 13.3, shown at step 1,
    5032 values float32 
    5033 
    5034 > volume #82 color #b2b2b2a6
    5035 
    5036 > ui tool show "Fit in Map"
    5037 
    5038 > fitmap sel inMap #82
    5039 
    5040 Fit molecules Nup133_propeller_CRinner.pdb (#55), Nup133_propeller_CRouter.pdb
    5041 (#56), Nup133_propeller_NRinner.pdb (#57), Nup133_propeller_NRouter.pdb (#58),
    5042 Nup98_CRconnector.pdb (#59), Nup98_NRconnector.pdb (#60), Y_CRinner.pdb (#61),
    5043 Y_CRouter.pdb (#62), Y_NRinner.pdb (#63), Y_NRouter.pdb (#64),
    5044 hNup155_CRconnector_CTD.pdb (#65), hNup155_CRconnector_NTD.pdb (#66),
    5045 hNup155_NRconnector_CTD.pdb (#67), hNup155_NRconnector_NTD.pdb (#68),
    5046 hNup358_1_CRinner.pdb (#69), hNup358_1_CRouter.pdb (#70),
    5047 hNup358_2_CRinner.pdb (#71), hNup358_2_CRouter.pdb (#72), hNup358_CRmiddle.pdb
    5048 (#73), hNup53_dimer_IRcyt_innerF7.pdb (#74), hNup53_dimer_IRcyt_outerG7.pdb
    5049 (#75), hNup53_dimer_IRnuc_innerF0.pdb (#76), hNup53_dimer_IRnuc_outerG0.pdb
    5050 (#77), hNups_IRcyt_inner.pdb (#78), hNups_IRcyt_outer.pdb (#79),
    5051 hNups_IRnuc_inner.pdb (#80), hNups_IRnuc_outer.pdb (#81) to map volume sum
    5052 (#82) using 615326 atoms 
    5053 average map value = 0.08471, steps = 88 
    5054 shifted from previous position = 40.9 
    5055 rotated from previous position = 21.5 degrees 
    5056 atoms outside contour = 126066, contour level = 0.043111 
    5057  
    5058 Position of Nup133_propeller_CRinner.pdb (#55) relative to volume sum (#82)
    5059 coordinates: 
    5060 Matrix rotation and translation 
    5061 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5062 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5063 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5064 Axis 0.00411919 -0.00105802 -0.99999096 
    5065 Axis point 858.59572615 850.38260105 0.00000000 
    5066 Rotation angle (degrees) 134.50048976 
    5067 Shift along axis 3.56824331 
    5068  
    5069 Position of Nup133_propeller_CRouter.pdb (#56) relative to volume sum (#82)
    5070 coordinates: 
    5071 Matrix rotation and translation 
    5072 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5073 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5074 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5075 Axis 0.00411919 -0.00105802 -0.99999096 
    5076 Axis point 858.59572615 850.38260105 0.00000000 
    5077 Rotation angle (degrees) 134.50048976 
    5078 Shift along axis 3.56824331 
    5079  
    5080 Position of Nup133_propeller_NRinner.pdb (#57) relative to volume sum (#82)
    5081 coordinates: 
    5082 Matrix rotation and translation 
    5083 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5084 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5085 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5086 Axis 0.00411919 -0.00105802 -0.99999096 
    5087 Axis point 858.59572615 850.38260105 0.00000000 
    5088 Rotation angle (degrees) 134.50048976 
    5089 Shift along axis 3.56824331 
    5090  
    5091 Position of Nup133_propeller_NRouter.pdb (#58) relative to volume sum (#82)
    5092 coordinates: 
    5093 Matrix rotation and translation 
    5094 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5095 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5096 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5097 Axis 0.00411919 -0.00105802 -0.99999096 
    5098 Axis point 858.59572615 850.38260105 0.00000000 
    5099 Rotation angle (degrees) 134.50048976 
    5100 Shift along axis 3.56824331 
    5101  
    5102 Position of Nup98_CRconnector.pdb (#59) relative to volume sum (#82)
    5103 coordinates: 
    5104 Matrix rotation and translation 
    5105 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5106 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5107 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5108 Axis 0.00411919 -0.00105802 -0.99999096 
    5109 Axis point 858.59572615 850.38260105 0.00000000 
    5110 Rotation angle (degrees) 134.50048976 
    5111 Shift along axis 3.56824331 
    5112  
    5113 Position of Nup98_NRconnector.pdb (#60) relative to volume sum (#82)
    5114 coordinates: 
    5115 Matrix rotation and translation 
    5116 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5117 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5118 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5119 Axis 0.00411919 -0.00105802 -0.99999096 
    5120 Axis point 858.59572615 850.38260105 0.00000000 
    5121 Rotation angle (degrees) 134.50048976 
    5122 Shift along axis 3.56824331 
    5123  
    5124 Position of Y_CRinner.pdb (#61) relative to volume sum (#82) coordinates: 
    5125 Matrix rotation and translation 
    5126 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5127 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5128 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5129 Axis 0.00411919 -0.00105802 -0.99999096 
    5130 Axis point 858.59572615 850.38260105 0.00000000 
    5131 Rotation angle (degrees) 134.50048976 
    5132 Shift along axis 3.56824331 
    5133  
    5134 Position of Y_CRouter.pdb (#62) relative to volume sum (#82) coordinates: 
    5135 Matrix rotation and translation 
    5136 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5137 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5138 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5139 Axis 0.00411919 -0.00105802 -0.99999096 
    5140 Axis point 858.59572615 850.38260105 0.00000000 
    5141 Rotation angle (degrees) 134.50048976 
    5142 Shift along axis 3.56824331 
    5143  
    5144 Position of Y_NRinner.pdb (#63) relative to volume sum (#82) coordinates: 
    5145 Matrix rotation and translation 
    5146 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5147 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5148 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5149 Axis 0.00411919 -0.00105802 -0.99999096 
    5150 Axis point 858.59572615 850.38260105 0.00000000 
    5151 Rotation angle (degrees) 134.50048976 
    5152 Shift along axis 3.56824331 
    5153  
    5154 Position of Y_NRouter.pdb (#64) relative to volume sum (#82) coordinates: 
    5155 Matrix rotation and translation 
    5156 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5157 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5158 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5159 Axis 0.00411919 -0.00105802 -0.99999096 
    5160 Axis point 858.59572615 850.38260105 0.00000000 
    5161 Rotation angle (degrees) 134.50048976 
    5162 Shift along axis 3.56824331 
    5163  
    5164 Position of hNup155_CRconnector_CTD.pdb (#65) relative to volume sum (#82)
    5165 coordinates: 
    5166 Matrix rotation and translation 
    5167 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5168 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5169 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5170 Axis 0.00411919 -0.00105802 -0.99999096 
    5171 Axis point 858.59572615 850.38260105 0.00000000 
    5172 Rotation angle (degrees) 134.50048976 
    5173 Shift along axis 3.56824331 
    5174  
    5175 Position of hNup155_CRconnector_NTD.pdb (#66) relative to volume sum (#82)
    5176 coordinates: 
    5177 Matrix rotation and translation 
    5178 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5179 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5180 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5181 Axis 0.00411919 -0.00105802 -0.99999096 
    5182 Axis point 858.59572615 850.38260105 0.00000000 
    5183 Rotation angle (degrees) 134.50048976 
    5184 Shift along axis 3.56824331 
    5185  
    5186 Position of hNup155_NRconnector_CTD.pdb (#67) relative to volume sum (#82)
    5187 coordinates: 
    5188 Matrix rotation and translation 
    5189 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5190 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5191 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5192 Axis 0.00411919 -0.00105802 -0.99999096 
    5193 Axis point 858.59572615 850.38260105 0.00000000 
    5194 Rotation angle (degrees) 134.50048976 
    5195 Shift along axis 3.56824331 
    5196  
    5197 Position of hNup155_NRconnector_NTD.pdb (#68) relative to volume sum (#82)
    5198 coordinates: 
    5199 Matrix rotation and translation 
    5200 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5201 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5202 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5203 Axis 0.00411919 -0.00105802 -0.99999096 
    5204 Axis point 858.59572615 850.38260105 0.00000000 
    5205 Rotation angle (degrees) 134.50048976 
    5206 Shift along axis 3.56824331 
    5207  
    5208 Position of hNup358_1_CRinner.pdb (#69) relative to volume sum (#82)
    5209 coordinates: 
    5210 Matrix rotation and translation 
    5211 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5212 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5213 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5214 Axis 0.00411919 -0.00105802 -0.99999096 
    5215 Axis point 858.59572615 850.38260105 0.00000000 
    5216 Rotation angle (degrees) 134.50048976 
    5217 Shift along axis 3.56824331 
    5218  
    5219 Position of hNup358_1_CRouter.pdb (#70) relative to volume sum (#82)
    5220 coordinates: 
    5221 Matrix rotation and translation 
    5222 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5223 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5224 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5225 Axis 0.00411919 -0.00105802 -0.99999096 
    5226 Axis point 858.59572615 850.38260105 0.00000000 
    5227 Rotation angle (degrees) 134.50048976 
    5228 Shift along axis 3.56824331 
    5229  
    5230 Position of hNup358_2_CRinner.pdb (#71) relative to volume sum (#82)
    5231 coordinates: 
    5232 Matrix rotation and translation 
    5233 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5234 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5235 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5236 Axis 0.00411919 -0.00105802 -0.99999096 
    5237 Axis point 858.59572615 850.38260105 0.00000000 
    5238 Rotation angle (degrees) 134.50048976 
    5239 Shift along axis 3.56824331 
    5240  
    5241 Position of hNup358_2_CRouter.pdb (#72) relative to volume sum (#82)
    5242 coordinates: 
    5243 Matrix rotation and translation 
    5244 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5245 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5246 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5247 Axis 0.00411919 -0.00105802 -0.99999096 
    5248 Axis point 858.59572615 850.38260105 0.00000000 
    5249 Rotation angle (degrees) 134.50048976 
    5250 Shift along axis 3.56824331 
    5251  
    5252 Position of hNup358_CRmiddle.pdb (#73) relative to volume sum (#82)
    5253 coordinates: 
    5254 Matrix rotation and translation 
    5255 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5256 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5257 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5258 Axis 0.00411919 -0.00105802 -0.99999096 
    5259 Axis point 858.59572615 850.38260105 0.00000000 
    5260 Rotation angle (degrees) 134.50048976 
    5261 Shift along axis 3.56824331 
    5262  
    5263 Position of hNup53_dimer_IRcyt_innerF7.pdb (#74) relative to volume sum (#82)
    5264 coordinates: 
    5265 Matrix rotation and translation 
    5266 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5267 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5268 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5269 Axis 0.00411919 -0.00105802 -0.99999096 
    5270 Axis point 858.59572615 850.38260105 0.00000000 
    5271 Rotation angle (degrees) 134.50048976 
    5272 Shift along axis 3.56824331 
    5273  
    5274 Position of hNup53_dimer_IRcyt_outerG7.pdb (#75) relative to volume sum (#82)
    5275 coordinates: 
    5276 Matrix rotation and translation 
    5277 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5278 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5279 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5280 Axis 0.00411919 -0.00105802 -0.99999096 
    5281 Axis point 858.59572615 850.38260105 0.00000000 
    5282 Rotation angle (degrees) 134.50048976 
    5283 Shift along axis 3.56824331 
    5284  
    5285 Position of hNup53_dimer_IRnuc_innerF0.pdb (#76) relative to volume sum (#82)
    5286 coordinates: 
    5287 Matrix rotation and translation 
    5288 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5289 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5290 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5291 Axis 0.00411919 -0.00105802 -0.99999096 
    5292 Axis point 858.59572615 850.38260105 0.00000000 
    5293 Rotation angle (degrees) 134.50048976 
    5294 Shift along axis 3.56824331 
    5295  
    5296 Position of hNup53_dimer_IRnuc_outerG0.pdb (#77) relative to volume sum (#82)
    5297 coordinates: 
    5298 Matrix rotation and translation 
    5299 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5300 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5301 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5302 Axis 0.00411919 -0.00105802 -0.99999096 
    5303 Axis point 858.59572615 850.38260105 0.00000000 
    5304 Rotation angle (degrees) 134.50048976 
    5305 Shift along axis 3.56824331 
    5306  
    5307 Position of hNups_IRcyt_inner.pdb (#78) relative to volume sum (#82)
    5308 coordinates: 
    5309 Matrix rotation and translation 
    5310 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5311 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5312 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5313 Axis 0.00411919 -0.00105802 -0.99999096 
    5314 Axis point 858.59572615 850.38260105 0.00000000 
    5315 Rotation angle (degrees) 134.50048976 
    5316 Shift along axis 3.56824331 
    5317  
    5318 Position of hNups_IRcyt_outer.pdb (#79) relative to volume sum (#82)
    5319 coordinates: 
    5320 Matrix rotation and translation 
    5321 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5322 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5323 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5324 Axis 0.00411919 -0.00105802 -0.99999096 
    5325 Axis point 858.59572615 850.38260105 0.00000000 
    5326 Rotation angle (degrees) 134.50048976 
    5327 Shift along axis 3.56824331 
    5328  
    5329 Position of hNups_IRnuc_inner.pdb (#80) relative to volume sum (#82)
    5330 coordinates: 
    5331 Matrix rotation and translation 
    5332 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5333 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5334 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5335 Axis 0.00411919 -0.00105802 -0.99999096 
    5336 Axis point 858.59572615 850.38260105 0.00000000 
    5337 Rotation angle (degrees) 134.50048976 
    5338 Shift along axis 3.56824331 
    5339  
    5340 Position of hNups_IRnuc_outer.pdb (#81) relative to volume sum (#82)
    5341 coordinates: 
    5342 Matrix rotation and translation 
    5343 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5344 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5345 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5346 Axis 0.00411919 -0.00105802 -0.99999096 
    5347 Axis point 858.59572615 850.38260105 0.00000000 
    5348 Rotation angle (degrees) 134.50048976 
    5349 Shift along axis 3.56824331 
    5350  
    5351 
    5352 > fitmap sel inMap #82
    5353 
    5354 Fit molecules Nup133_propeller_CRinner.pdb (#55), Nup133_propeller_CRouter.pdb
    5355 (#56), Nup133_propeller_NRinner.pdb (#57), Nup133_propeller_NRouter.pdb (#58),
    5356 Nup98_CRconnector.pdb (#59), Nup98_NRconnector.pdb (#60), Y_CRinner.pdb (#61),
    5357 Y_CRouter.pdb (#62), Y_NRinner.pdb (#63), Y_NRouter.pdb (#64),
    5358 hNup155_CRconnector_CTD.pdb (#65), hNup155_CRconnector_NTD.pdb (#66),
    5359 hNup155_NRconnector_CTD.pdb (#67), hNup155_NRconnector_NTD.pdb (#68),
    5360 hNup358_1_CRinner.pdb (#69), hNup358_1_CRouter.pdb (#70),
    5361 hNup358_2_CRinner.pdb (#71), hNup358_2_CRouter.pdb (#72), hNup358_CRmiddle.pdb
    5362 (#73), hNup53_dimer_IRcyt_innerF7.pdb (#74), hNup53_dimer_IRcyt_outerG7.pdb
    5363 (#75), hNup53_dimer_IRnuc_innerF0.pdb (#76), hNup53_dimer_IRnuc_outerG0.pdb
    5364 (#77), hNups_IRcyt_inner.pdb (#78), hNups_IRcyt_outer.pdb (#79),
    5365 hNups_IRnuc_inner.pdb (#80), hNups_IRnuc_outer.pdb (#81) to map volume sum
    5366 (#82) using 615326 atoms 
    5367 average map value = 0.08471, steps = 36 
    5368 shifted from previous position = 0.0272 
    5369 rotated from previous position = 0.0167 degrees 
    5370 atoms outside contour = 126099, contour level = 0.043111 
    5371  
    5372 Position of Nup133_propeller_CRinner.pdb (#55) relative to volume sum (#82)
    5373 coordinates: 
    5374 Matrix rotation and translation 
    5375 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5376 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5377 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5378 Axis 0.00425548 -0.00099968 -0.99999045 
    5379 Axis point 858.70511698 850.46485355 0.00000000 
    5380 Rotation angle (degrees) 134.50636356 
    5381 Shift along axis 3.67823871 
    5382  
    5383 Position of Nup133_propeller_CRouter.pdb (#56) relative to volume sum (#82)
    5384 coordinates: 
    5385 Matrix rotation and translation 
    5386 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5387 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5388 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5389 Axis 0.00425548 -0.00099968 -0.99999045 
    5390 Axis point 858.70511698 850.46485355 0.00000000 
    5391 Rotation angle (degrees) 134.50636356 
    5392 Shift along axis 3.67823871 
    5393  
    5394 Position of Nup133_propeller_NRinner.pdb (#57) relative to volume sum (#82)
    5395 coordinates: 
    5396 Matrix rotation and translation 
    5397 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5398 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5399 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5400 Axis 0.00425548 -0.00099968 -0.99999045 
    5401 Axis point 858.70511698 850.46485355 0.00000000 
    5402 Rotation angle (degrees) 134.50636356 
    5403 Shift along axis 3.67823871 
    5404  
    5405 Position of Nup133_propeller_NRouter.pdb (#58) relative to volume sum (#82)
    5406 coordinates: 
    5407 Matrix rotation and translation 
    5408 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5409 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5410 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5411 Axis 0.00425548 -0.00099968 -0.99999045 
    5412 Axis point 858.70511698 850.46485355 0.00000000 
    5413 Rotation angle (degrees) 134.50636356 
    5414 Shift along axis 3.67823871 
    5415  
    5416 Position of Nup98_CRconnector.pdb (#59) relative to volume sum (#82)
    5417 coordinates: 
    5418 Matrix rotation and translation 
    5419 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5420 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5421 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5422 Axis 0.00425548 -0.00099968 -0.99999045 
    5423 Axis point 858.70511698 850.46485355 0.00000000 
    5424 Rotation angle (degrees) 134.50636356 
    5425 Shift along axis 3.67823871 
    5426  
    5427 Position of Nup98_NRconnector.pdb (#60) relative to volume sum (#82)
    5428 coordinates: 
    5429 Matrix rotation and translation 
    5430 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5431 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5432 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5433 Axis 0.00425548 -0.00099968 -0.99999045 
    5434 Axis point 858.70511698 850.46485355 0.00000000 
    5435 Rotation angle (degrees) 134.50636356 
    5436 Shift along axis 3.67823871 
    5437  
    5438 Position of Y_CRinner.pdb (#61) relative to volume sum (#82) coordinates: 
    5439 Matrix rotation and translation 
    5440 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5441 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5442 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5443 Axis 0.00425548 -0.00099968 -0.99999045 
    5444 Axis point 858.70511698 850.46485355 0.00000000 
    5445 Rotation angle (degrees) 134.50636356 
    5446 Shift along axis 3.67823871 
    5447  
    5448 Position of Y_CRouter.pdb (#62) relative to volume sum (#82) coordinates: 
    5449 Matrix rotation and translation 
    5450 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5451 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5452 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5453 Axis 0.00425548 -0.00099968 -0.99999045 
    5454 Axis point 858.70511698 850.46485355 0.00000000 
    5455 Rotation angle (degrees) 134.50636356 
    5456 Shift along axis 3.67823871 
    5457  
    5458 Position of Y_NRinner.pdb (#63) relative to volume sum (#82) coordinates: 
    5459 Matrix rotation and translation 
    5460 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5461 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5462 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5463 Axis 0.00425548 -0.00099968 -0.99999045 
    5464 Axis point 858.70511698 850.46485355 0.00000000 
    5465 Rotation angle (degrees) 134.50636356 
    5466 Shift along axis 3.67823871 
    5467  
    5468 Position of Y_NRouter.pdb (#64) relative to volume sum (#82) coordinates: 
    5469 Matrix rotation and translation 
    5470 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5471 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5472 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5473 Axis 0.00425548 -0.00099968 -0.99999045 
    5474 Axis point 858.70511698 850.46485355 0.00000000 
    5475 Rotation angle (degrees) 134.50636356 
    5476 Shift along axis 3.67823871 
    5477  
    5478 Position of hNup155_CRconnector_CTD.pdb (#65) relative to volume sum (#82)
    5479 coordinates: 
    5480 Matrix rotation and translation 
    5481 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5482 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5483 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5484 Axis 0.00425548 -0.00099968 -0.99999045 
    5485 Axis point 858.70511698 850.46485355 0.00000000 
    5486 Rotation angle (degrees) 134.50636356 
    5487 Shift along axis 3.67823871 
    5488  
    5489 Position of hNup155_CRconnector_NTD.pdb (#66) relative to volume sum (#82)
    5490 coordinates: 
    5491 Matrix rotation and translation 
    5492 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5493 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5494 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5495 Axis 0.00425548 -0.00099968 -0.99999045 
    5496 Axis point 858.70511698 850.46485355 0.00000000 
    5497 Rotation angle (degrees) 134.50636356 
    5498 Shift along axis 3.67823871 
    5499  
    5500 Position of hNup155_NRconnector_CTD.pdb (#67) relative to volume sum (#82)
    5501 coordinates: 
    5502 Matrix rotation and translation 
    5503 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5504 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5505 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5506 Axis 0.00425548 -0.00099968 -0.99999045 
    5507 Axis point 858.70511698 850.46485355 0.00000000 
    5508 Rotation angle (degrees) 134.50636356 
    5509 Shift along axis 3.67823871 
    5510  
    5511 Position of hNup155_NRconnector_NTD.pdb (#68) relative to volume sum (#82)
    5512 coordinates: 
    5513 Matrix rotation and translation 
    5514 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5515 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5516 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5517 Axis 0.00425548 -0.00099968 -0.99999045 
    5518 Axis point 858.70511698 850.46485355 0.00000000 
    5519 Rotation angle (degrees) 134.50636356 
    5520 Shift along axis 3.67823871 
    5521  
    5522 Position of hNup358_1_CRinner.pdb (#69) relative to volume sum (#82)
    5523 coordinates: 
    5524 Matrix rotation and translation 
    5525 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5526 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5527 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5528 Axis 0.00425548 -0.00099968 -0.99999045 
    5529 Axis point 858.70511698 850.46485355 0.00000000 
    5530 Rotation angle (degrees) 134.50636356 
    5531 Shift along axis 3.67823871 
    5532  
    5533 Position of hNup358_1_CRouter.pdb (#70) relative to volume sum (#82)
    5534 coordinates: 
    5535 Matrix rotation and translation 
    5536 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5537 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5538 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5539 Axis 0.00425548 -0.00099968 -0.99999045 
    5540 Axis point 858.70511698 850.46485355 0.00000000 
    5541 Rotation angle (degrees) 134.50636356 
    5542 Shift along axis 3.67823871 
    5543  
    5544 Position of hNup358_2_CRinner.pdb (#71) relative to volume sum (#82)
    5545 coordinates: 
    5546 Matrix rotation and translation 
    5547 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5548 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5549 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5550 Axis 0.00425548 -0.00099968 -0.99999045 
    5551 Axis point 858.70511698 850.46485355 0.00000000 
    5552 Rotation angle (degrees) 134.50636356 
    5553 Shift along axis 3.67823871 
    5554  
    5555 Position of hNup358_2_CRouter.pdb (#72) relative to volume sum (#82)
    5556 coordinates: 
    5557 Matrix rotation and translation 
    5558 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5559 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5560 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5561 Axis 0.00425548 -0.00099968 -0.99999045 
    5562 Axis point 858.70511698 850.46485355 0.00000000 
    5563 Rotation angle (degrees) 134.50636356 
    5564 Shift along axis 3.67823871 
    5565  
    5566 Position of hNup358_CRmiddle.pdb (#73) relative to volume sum (#82)
    5567 coordinates: 
    5568 Matrix rotation and translation 
    5569 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5570 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5571 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5572 Axis 0.00425548 -0.00099968 -0.99999045 
    5573 Axis point 858.70511698 850.46485355 0.00000000 
    5574 Rotation angle (degrees) 134.50636356 
    5575 Shift along axis 3.67823871 
    5576  
    5577 Position of hNup53_dimer_IRcyt_innerF7.pdb (#74) relative to volume sum (#82)
    5578 coordinates: 
    5579 Matrix rotation and translation 
    5580 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5581 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5582 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5583 Axis 0.00425548 -0.00099968 -0.99999045 
    5584 Axis point 858.70511698 850.46485355 0.00000000 
    5585 Rotation angle (degrees) 134.50636356 
    5586 Shift along axis 3.67823871 
    5587  
    5588 Position of hNup53_dimer_IRcyt_outerG7.pdb (#75) relative to volume sum (#82)
    5589 coordinates: 
    5590 Matrix rotation and translation 
    5591 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5592 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5593 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5594 Axis 0.00425548 -0.00099968 -0.99999045 
    5595 Axis point 858.70511698 850.46485355 0.00000000 
    5596 Rotation angle (degrees) 134.50636356 
    5597 Shift along axis 3.67823871 
    5598  
    5599 Position of hNup53_dimer_IRnuc_innerF0.pdb (#76) relative to volume sum (#82)
    5600 coordinates: 
    5601 Matrix rotation and translation 
    5602 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5603 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5604 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5605 Axis 0.00425548 -0.00099968 -0.99999045 
    5606 Axis point 858.70511698 850.46485355 0.00000000 
    5607 Rotation angle (degrees) 134.50636356 
    5608 Shift along axis 3.67823871 
    5609  
    5610 Position of hNup53_dimer_IRnuc_outerG0.pdb (#77) relative to volume sum (#82)
    5611 coordinates: 
    5612 Matrix rotation and translation 
    5613 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5614 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5615 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5616 Axis 0.00425548 -0.00099968 -0.99999045 
    5617 Axis point 858.70511698 850.46485355 0.00000000 
    5618 Rotation angle (degrees) 134.50636356 
    5619 Shift along axis 3.67823871 
    5620  
    5621 Position of hNups_IRcyt_inner.pdb (#78) relative to volume sum (#82)
    5622 coordinates: 
    5623 Matrix rotation and translation 
    5624 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5625 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5626 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5627 Axis 0.00425548 -0.00099968 -0.99999045 
    5628 Axis point 858.70511698 850.46485355 0.00000000 
    5629 Rotation angle (degrees) 134.50636356 
    5630 Shift along axis 3.67823871 
    5631  
    5632 Position of hNups_IRcyt_outer.pdb (#79) relative to volume sum (#82)
    5633 coordinates: 
    5634 Matrix rotation and translation 
    5635 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5636 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5637 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5638 Axis 0.00425548 -0.00099968 -0.99999045 
    5639 Axis point 858.70511698 850.46485355 0.00000000 
    5640 Rotation angle (degrees) 134.50636356 
    5641 Shift along axis 3.67823871 
    5642  
    5643 Position of hNups_IRnuc_inner.pdb (#80) relative to volume sum (#82)
    5644 coordinates: 
    5645 Matrix rotation and translation 
    5646 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5647 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5648 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5649 Axis 0.00425548 -0.00099968 -0.99999045 
    5650 Axis point 858.70511698 850.46485355 0.00000000 
    5651 Rotation angle (degrees) 134.50636356 
    5652 Shift along axis 3.67823871 
    5653  
    5654 Position of hNups_IRnuc_outer.pdb (#81) relative to volume sum (#82)
    5655 coordinates: 
    5656 Matrix rotation and translation 
    5657 -0.70095767 0.71315855 -0.00795140 854.12043073 
    5658 -0.71317302 -0.70098678 -0.00133446 2059.03111544 
    5659 -0.00652550 0.00473533 0.99996750 -2.10194819 
    5660 Axis 0.00425548 -0.00099968 -0.99999045 
    5661 Axis point 858.70511698 850.46485355 0.00000000 
    5662 Rotation angle (degrees) 134.50636356 
    5663 Shift along axis 3.67823871 
    5664  
    5665 
    5666 > fitmap sel inMap #82
    5667 
    5668 Fit molecules Nup133_propeller_CRinner.pdb (#55), Nup133_propeller_CRouter.pdb
    5669 (#56), Nup133_propeller_NRinner.pdb (#57), Nup133_propeller_NRouter.pdb (#58),
    5670 Nup98_CRconnector.pdb (#59), Nup98_NRconnector.pdb (#60), Y_CRinner.pdb (#61),
    5671 Y_CRouter.pdb (#62), Y_NRinner.pdb (#63), Y_NRouter.pdb (#64),
    5672 hNup155_CRconnector_CTD.pdb (#65), hNup155_CRconnector_NTD.pdb (#66),
    5673 hNup155_NRconnector_CTD.pdb (#67), hNup155_NRconnector_NTD.pdb (#68),
    5674 hNup358_1_CRinner.pdb (#69), hNup358_1_CRouter.pdb (#70),
    5675 hNup358_2_CRinner.pdb (#71), hNup358_2_CRouter.pdb (#72), hNup358_CRmiddle.pdb
    5676 (#73), hNup53_dimer_IRcyt_innerF7.pdb (#74), hNup53_dimer_IRcyt_outerG7.pdb
    5677 (#75), hNup53_dimer_IRnuc_innerF0.pdb (#76), hNup53_dimer_IRnuc_outerG0.pdb
    5678 (#77), hNups_IRcyt_inner.pdb (#78), hNups_IRcyt_outer.pdb (#79),
    5679 hNups_IRnuc_inner.pdb (#80), hNups_IRnuc_outer.pdb (#81) to map volume sum
    5680 (#82) using 615326 atoms 
    5681 average map value = 0.08471, steps = 88 
    5682 shifted from previous position = 40.9 
    5683 rotated from previous position = 21.5 degrees 
    5684 atoms outside contour = 126066, contour level = 0.043111 
    5685  
    5686 Position of Nup133_propeller_CRinner.pdb (#55) relative to volume sum (#82)
    5687 coordinates: 
    5688 Matrix rotation and translation 
    5689 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5690 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5691 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5692 Axis 0.00411919 -0.00105802 -0.99999096 
    5693 Axis point 858.59572615 850.38260105 0.00000000 
    5694 Rotation angle (degrees) 134.50048976 
    5695 Shift along axis 3.56824331 
    5696  
    5697 Position of Nup133_propeller_CRouter.pdb (#56) relative to volume sum (#82)
    5698 coordinates: 
    5699 Matrix rotation and translation 
    5700 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5701 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5702 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5703 Axis 0.00411919 -0.00105802 -0.99999096 
    5704 Axis point 858.59572615 850.38260105 0.00000000 
    5705 Rotation angle (degrees) 134.50048976 
    5706 Shift along axis 3.56824331 
    5707  
    5708 Position of Nup133_propeller_NRinner.pdb (#57) relative to volume sum (#82)
    5709 coordinates: 
    5710 Matrix rotation and translation 
    5711 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5712 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5713 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5714 Axis 0.00411919 -0.00105802 -0.99999096 
    5715 Axis point 858.59572615 850.38260105 0.00000000 
    5716 Rotation angle (degrees) 134.50048976 
    5717 Shift along axis 3.56824331 
    5718  
    5719 Position of Nup133_propeller_NRouter.pdb (#58) relative to volume sum (#82)
    5720 coordinates: 
    5721 Matrix rotation and translation 
    5722 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5723 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5724 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5725 Axis 0.00411919 -0.00105802 -0.99999096 
    5726 Axis point 858.59572615 850.38260105 0.00000000 
    5727 Rotation angle (degrees) 134.50048976 
    5728 Shift along axis 3.56824331 
    5729  
    5730 Position of Nup98_CRconnector.pdb (#59) relative to volume sum (#82)
    5731 coordinates: 
    5732 Matrix rotation and translation 
    5733 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5734 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5735 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5736 Axis 0.00411919 -0.00105802 -0.99999096 
    5737 Axis point 858.59572615 850.38260105 0.00000000 
    5738 Rotation angle (degrees) 134.50048976 
    5739 Shift along axis 3.56824331 
    5740  
    5741 Position of Nup98_NRconnector.pdb (#60) relative to volume sum (#82)
    5742 coordinates: 
    5743 Matrix rotation and translation 
    5744 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5745 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5746 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5747 Axis 0.00411919 -0.00105802 -0.99999096 
    5748 Axis point 858.59572615 850.38260105 0.00000000 
    5749 Rotation angle (degrees) 134.50048976 
    5750 Shift along axis 3.56824331 
    5751  
    5752 Position of Y_CRinner.pdb (#61) relative to volume sum (#82) coordinates: 
    5753 Matrix rotation and translation 
    5754 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5755 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5756 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5757 Axis 0.00411919 -0.00105802 -0.99999096 
    5758 Axis point 858.59572615 850.38260105 0.00000000 
    5759 Rotation angle (degrees) 134.50048976 
    5760 Shift along axis 3.56824331 
    5761  
    5762 Position of Y_CRouter.pdb (#62) relative to volume sum (#82) coordinates: 
    5763 Matrix rotation and translation 
    5764 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5765 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5766 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5767 Axis 0.00411919 -0.00105802 -0.99999096 
    5768 Axis point 858.59572615 850.38260105 0.00000000 
    5769 Rotation angle (degrees) 134.50048976 
    5770 Shift along axis 3.56824331 
    5771  
    5772 Position of Y_NRinner.pdb (#63) relative to volume sum (#82) coordinates: 
    5773 Matrix rotation and translation 
    5774 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5775 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5776 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5777 Axis 0.00411919 -0.00105802 -0.99999096 
    5778 Axis point 858.59572615 850.38260105 0.00000000 
    5779 Rotation angle (degrees) 134.50048976 
    5780 Shift along axis 3.56824331 
    5781  
    5782 Position of Y_NRouter.pdb (#64) relative to volume sum (#82) coordinates: 
    5783 Matrix rotation and translation 
    5784 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5785 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5786 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5787 Axis 0.00411919 -0.00105802 -0.99999096 
    5788 Axis point 858.59572615 850.38260105 0.00000000 
    5789 Rotation angle (degrees) 134.50048976 
    5790 Shift along axis 3.56824331 
    5791  
    5792 Position of hNup155_CRconnector_CTD.pdb (#65) relative to volume sum (#82)
    5793 coordinates: 
    5794 Matrix rotation and translation 
    5795 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5796 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5797 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5798 Axis 0.00411919 -0.00105802 -0.99999096 
    5799 Axis point 858.59572615 850.38260105 0.00000000 
    5800 Rotation angle (degrees) 134.50048976 
    5801 Shift along axis 3.56824331 
    5802  
    5803 Position of hNup155_CRconnector_NTD.pdb (#66) relative to volume sum (#82)
    5804 coordinates: 
    5805 Matrix rotation and translation 
    5806 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5807 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5808 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5809 Axis 0.00411919 -0.00105802 -0.99999096 
    5810 Axis point 858.59572615 850.38260105 0.00000000 
    5811 Rotation angle (degrees) 134.50048976 
    5812 Shift along axis 3.56824331 
    5813  
    5814 Position of hNup155_NRconnector_CTD.pdb (#67) relative to volume sum (#82)
    5815 coordinates: 
    5816 Matrix rotation and translation 
    5817 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5818 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5819 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5820 Axis 0.00411919 -0.00105802 -0.99999096 
    5821 Axis point 858.59572615 850.38260105 0.00000000 
    5822 Rotation angle (degrees) 134.50048976 
    5823 Shift along axis 3.56824331 
    5824  
    5825 Position of hNup155_NRconnector_NTD.pdb (#68) relative to volume sum (#82)
    5826 coordinates: 
    5827 Matrix rotation and translation 
    5828 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5829 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5830 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5831 Axis 0.00411919 -0.00105802 -0.99999096 
    5832 Axis point 858.59572615 850.38260105 0.00000000 
    5833 Rotation angle (degrees) 134.50048976 
    5834 Shift along axis 3.56824331 
    5835  
    5836 Position of hNup358_1_CRinner.pdb (#69) relative to volume sum (#82)
    5837 coordinates: 
    5838 Matrix rotation and translation 
    5839 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5840 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5841 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5842 Axis 0.00411919 -0.00105802 -0.99999096 
    5843 Axis point 858.59572615 850.38260105 0.00000000 
    5844 Rotation angle (degrees) 134.50048976 
    5845 Shift along axis 3.56824331 
    5846  
    5847 Position of hNup358_1_CRouter.pdb (#70) relative to volume sum (#82)
    5848 coordinates: 
    5849 Matrix rotation and translation 
    5850 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5851 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5852 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5853 Axis 0.00411919 -0.00105802 -0.99999096 
    5854 Axis point 858.59572615 850.38260105 0.00000000 
    5855 Rotation angle (degrees) 134.50048976 
    5856 Shift along axis 3.56824331 
    5857  
    5858 Position of hNup358_2_CRinner.pdb (#71) relative to volume sum (#82)
    5859 coordinates: 
    5860 Matrix rotation and translation 
    5861 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5862 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5863 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5864 Axis 0.00411919 -0.00105802 -0.99999096 
    5865 Axis point 858.59572615 850.38260105 0.00000000 
    5866 Rotation angle (degrees) 134.50048976 
    5867 Shift along axis 3.56824331 
    5868  
    5869 Position of hNup358_2_CRouter.pdb (#72) relative to volume sum (#82)
    5870 coordinates: 
    5871 Matrix rotation and translation 
    5872 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5873 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5874 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5875 Axis 0.00411919 -0.00105802 -0.99999096 
    5876 Axis point 858.59572615 850.38260105 0.00000000 
    5877 Rotation angle (degrees) 134.50048976 
    5878 Shift along axis 3.56824331 
    5879  
    5880 Position of hNup358_CRmiddle.pdb (#73) relative to volume sum (#82)
    5881 coordinates: 
    5882 Matrix rotation and translation 
    5883 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5884 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5885 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5886 Axis 0.00411919 -0.00105802 -0.99999096 
    5887 Axis point 858.59572615 850.38260105 0.00000000 
    5888 Rotation angle (degrees) 134.50048976 
    5889 Shift along axis 3.56824331 
    5890  
    5891 Position of hNup53_dimer_IRcyt_innerF7.pdb (#74) relative to volume sum (#82)
    5892 coordinates: 
    5893 Matrix rotation and translation 
    5894 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5895 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5896 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5897 Axis 0.00411919 -0.00105802 -0.99999096 
    5898 Axis point 858.59572615 850.38260105 0.00000000 
    5899 Rotation angle (degrees) 134.50048976 
    5900 Shift along axis 3.56824331 
    5901  
    5902 Position of hNup53_dimer_IRcyt_outerG7.pdb (#75) relative to volume sum (#82)
    5903 coordinates: 
    5904 Matrix rotation and translation 
    5905 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5906 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5907 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5908 Axis 0.00411919 -0.00105802 -0.99999096 
    5909 Axis point 858.59572615 850.38260105 0.00000000 
    5910 Rotation angle (degrees) 134.50048976 
    5911 Shift along axis 3.56824331 
    5912  
    5913 Position of hNup53_dimer_IRnuc_innerF0.pdb (#76) relative to volume sum (#82)
    5914 coordinates: 
    5915 Matrix rotation and translation 
    5916 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5917 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5918 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5919 Axis 0.00411919 -0.00105802 -0.99999096 
    5920 Axis point 858.59572615 850.38260105 0.00000000 
    5921 Rotation angle (degrees) 134.50048976 
    5922 Shift along axis 3.56824331 
    5923  
    5924 Position of hNup53_dimer_IRnuc_outerG0.pdb (#77) relative to volume sum (#82)
    5925 coordinates: 
    5926 Matrix rotation and translation 
    5927 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5928 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5929 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5930 Axis 0.00411919 -0.00105802 -0.99999096 
    5931 Axis point 858.59572615 850.38260105 0.00000000 
    5932 Rotation angle (degrees) 134.50048976 
    5933 Shift along axis 3.56824331 
    5934  
    5935 Position of hNups_IRcyt_inner.pdb (#78) relative to volume sum (#82)
    5936 coordinates: 
    5937 Matrix rotation and translation 
    5938 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5939 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5940 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5941 Axis 0.00411919 -0.00105802 -0.99999096 
    5942 Axis point 858.59572615 850.38260105 0.00000000 
    5943 Rotation angle (degrees) 134.50048976 
    5944 Shift along axis 3.56824331 
    5945  
    5946 Position of hNups_IRcyt_outer.pdb (#79) relative to volume sum (#82)
    5947 coordinates: 
    5948 Matrix rotation and translation 
    5949 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5950 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5951 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5952 Axis 0.00411919 -0.00105802 -0.99999096 
    5953 Axis point 858.59572615 850.38260105 0.00000000 
    5954 Rotation angle (degrees) 134.50048976 
    5955 Shift along axis 3.56824331 
    5956  
    5957 Position of hNups_IRnuc_inner.pdb (#80) relative to volume sum (#82)
    5958 coordinates: 
    5959 Matrix rotation and translation 
    5960 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5961 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5962 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5963 Axis 0.00411919 -0.00105802 -0.99999096 
    5964 Axis point 858.59572615 850.38260105 0.00000000 
    5965 Rotation angle (degrees) 134.50048976 
    5966 Shift along axis 3.56824331 
    5967  
    5968 Position of hNups_IRnuc_outer.pdb (#81) relative to volume sum (#82)
    5969 coordinates: 
    5970 Matrix rotation and translation 
    5971 -0.70088650 0.71323059 -0.00776097 853.86968998 
    5972 -0.71324542 -0.70091346 -0.00113840 2058.81290416 
    5973 -0.00625171 0.00473758 0.99996924 -2.22928043 
    5974 Axis 0.00411919 -0.00105802 -0.99999096 
    5975 Axis point 858.59572615 850.38260105 0.00000000 
    5976 Rotation angle (degrees) 134.50048976 
    5977 Shift along axis 3.56824331 
    5978  
    5979 
    5980 > show #!45 models
    5981 
    5982 > select clear
    5983 
    5984 > hide #!82 models
    5985 
    5986 > show #!33 models
    5987 
    5988 > hide #!33 models
    5989 
    5990 > show #!35 models
    5991 
    5992 > show #!26 models
    5993 
    5994 > hide #!26 models
    5995 
    5996 > hide #!35 models
    5997 
    5998 > hide #!45 models
    5999 
    6000 Drag select of 17624 residues, 2 pseudobonds 
    6001 
    6002 > select clear
    6003 
    6004 > hide #55-60,69-77#!61-68,78-81 target m
    6005 
    6006 > show #55-60,69-77#!61-68,78-81 target m
    6007 
    6008 > show #!82 models
    6009 
    6010 > volume #82 level 0.07815
    6011 
    6012 > combine #55-81 retainIds true
    6013 
    6014 'retainIds' requires residues number / insertion code combos be unique in each
    6015 chain with the same ID (duplicate: /R MET 1) 
    6016 
    6017 > combine #55-81
    6018 
    6019 Remapping chain ID 'K' in Nup133_propeller_CRouter.pdb #56 to 'L' 
    6020 Remapping chain ID 'R' in Nup133_propeller_CRouter.pdb #56 to 'T' 
    6021 Remapping chain ID 'S' in Nup133_propeller_CRouter.pdb #56 to 'U' 
    6022 Remapping chain ID 'K' in Nup133_propeller_NRinner.pdb #57 to 'M' 
    6023 Remapping chain ID 'R' in Nup133_propeller_NRinner.pdb #57 to 'V' 
    6024 Remapping chain ID 'S' in Nup133_propeller_NRinner.pdb #57 to 'W' 
    6025 Remapping chain ID 'T' in Nup133_propeller_NRinner.pdb #57 to 'X' 
    6026 Remapping chain ID 'K' in Nup133_propeller_NRouter.pdb #58 to 'N' 
    6027 Remapping chain ID 'R' in Nup133_propeller_NRouter.pdb #58 to 'Y' 
    6028 Remapping chain ID 'S' in Nup133_propeller_NRouter.pdb #58 to 'Z' 
    6029 Remapping chain ID 'T' in Nup133_propeller_NRouter.pdb #58 to 'a' 
    6030 Remapping chain ID 'U' in Nup98_CRconnector.pdb #59 to 'b' 
    6031 Remapping chain ID 'U' in Nup98_NRconnector.pdb #60 to 'c' 
    6032 Remapping chain ID 'K' in Y_CRinner.pdb #61 to 'd' 
    6033 Remapping chain ID 'L' in Y_CRinner.pdb #61 to 'e' 
    6034 Remapping chain ID 'M' in Y_CRinner.pdb #61 to 'f' 
    6035 Remapping chain ID 'N' in Y_CRinner.pdb #61 to 'g' 
    6036 Remapping chain ID 'R' in Y_CRinner.pdb #61 to 'h' 
    6037 Remapping chain ID 'S' in Y_CRinner.pdb #61 to 'i' 
    6038 Remapping chain ID 'A' in Y_CRouter.pdb #62 to 'B' 
    6039 Remapping chain ID 'C' in Y_CRouter.pdb #62 to 'D' 
    6040 Remapping chain ID 'K' in Y_CRouter.pdb #62 to 'j' 
    6041 Remapping chain ID 'L' in Y_CRouter.pdb #62 to 'k' 
    6042 Remapping chain ID 'M' in Y_CRouter.pdb #62 to 'l' 
    6043 Remapping chain ID 'N' in Y_CRouter.pdb #62 to 'm' 
    6044 Remapping chain ID 'O' in Y_CRouter.pdb #62 to 'n' 
    6045 Remapping chain ID 'P' in Y_CRouter.pdb #62 to 'o' 
    6046 Remapping chain ID 'Q' in Y_CRouter.pdb #62 to 'p' 
    6047 Remapping chain ID 'R' in Y_CRouter.pdb #62 to 'q' 
    6048 Remapping chain ID 'S' in Y_CRouter.pdb #62 to 'r' 
    6049 Remapping chain ID 'U' in Y_CRouter.pdb #62 to 's' 
    6050 Remapping chain ID 'V' in Y_CRouter.pdb #62 to 't' 
    6051 Remapping chain ID 'W' in Y_CRouter.pdb #62 to 'u' 
    6052 Remapping chain ID 'K' in Y_NRinner.pdb #63 to 'v' 
    6053 Remapping chain ID 'L' in Y_NRinner.pdb #63 to 'w' 
    6054 Remapping chain ID 'M' in Y_NRinner.pdb #63 to 'x' 
    6055 Remapping chain ID 'N' in Y_NRinner.pdb #63 to 'y' 
    6056 Remapping chain ID 'O' in Y_NRinner.pdb #63 to 'z' 
    6057 Remapping chain ID 'P' in Y_NRinner.pdb #63 to '1' 
    6058 Remapping chain ID 'Q' in Y_NRinner.pdb #63 to '2' 
    6059 Remapping chain ID 'R' in Y_NRinner.pdb #63 to '3' 
    6060 Remapping chain ID 'S' in Y_NRinner.pdb #63 to '4' 
    6061 Remapping chain ID 'T' in Y_NRinner.pdb #63 to '5' 
    6062 Remapping chain ID 'A' in Y_NRouter.pdb #64 to 'E' 
    6063 Remapping chain ID 'C' in Y_NRouter.pdb #64 to 'F' 
    6064 Remapping chain ID 'K' in Y_NRouter.pdb #64 to '6' 
    6065 Remapping chain ID 'L' in Y_NRouter.pdb #64 to '7' 
    6066 Remapping chain ID 'M' in Y_NRouter.pdb #64 to '8' 
    6067 Remapping chain ID 'N' in Y_NRouter.pdb #64 to '9' 
    6068 Remapping chain ID 'O' in Y_NRouter.pdb #64 to '0' 
    6069 Remapping chain ID 'P' in Y_NRouter.pdb #64 to 'AA' 
    6070 Remapping chain ID 'Q' in Y_NRouter.pdb #64 to 'AB' 
    6071 Remapping chain ID 'R' in Y_NRouter.pdb #64 to 'AC' 
    6072 Remapping chain ID 'S' in Y_NRouter.pdb #64 to 'AD' 
    6073 Remapping chain ID 'T' in Y_NRouter.pdb #64 to 'AE' 
    6074 Remapping chain ID 'D' in hNup155_CRconnector_CTD.pdb #65 to 'G' 
    6075 Remapping chain ID 'D' in hNup155_CRconnector_NTD.pdb #66 to 'H' 
    6076 Remapping chain ID 'D' in hNup155_NRconnector_CTD.pdb #67 to 'I' 
    6077 Remapping chain ID 'D' in hNup155_NRconnector_NTD.pdb #68 to 'AF' 
    6078 Remapping chain ID '0' in hNup358_1_CRinner.pdb #69 to 'AG' 
    6079 Remapping chain ID '0' in hNup358_1_CRouter.pdb #70 to 'AH' 
    6080 Remapping chain ID '0' in hNup358_2_CRinner.pdb #71 to 'AI' 
    6081 Remapping chain ID '0' in hNup358_2_CRouter.pdb #72 to 'AJ' 
    6082 Remapping chain ID '0' in hNup358_CRmiddle.pdb #73 to 'AK' 
    6083 Remapping chain ID 'F' in hNup53_dimer_IRcyt_innerF7.pdb #74 to 'AL' 
    6084 Remapping chain ID 'F' in hNup53_dimer_IRcyt_outerG7.pdb #75 to 'AM' 
    6085 Remapping chain ID 'F' in hNup53_dimer_IRnuc_innerF0.pdb #76 to 'AN' 
    6086 Remapping chain ID 'F' in hNup53_dimer_IRnuc_outerG0.pdb #77 to 'AO' 
    6087 Remapping chain ID '4' in hNups_IRcyt_inner.pdb #78 to 'AP' 
    6088 Remapping chain ID 'A' in hNups_IRcyt_inner.pdb #78 to 'AQ' 
    6089 Remapping chain ID 'C' in hNups_IRcyt_inner.pdb #78 to 'AR' 
    6090 Remapping chain ID 'D' in hNups_IRcyt_inner.pdb #78 to 'AS' 
    6091 Remapping chain ID 'E' in hNups_IRcyt_inner.pdb #78 to 'AT' 
    6092 Remapping chain ID 'F' in hNups_IRcyt_inner.pdb #78 to 'AU' 
    6093 Remapping chain ID 'H' in hNups_IRcyt_inner.pdb #78 to 'AV' 
    6094 Remapping chain ID 'I' in hNups_IRcyt_inner.pdb #78 to 'AW' 
    6095 Remapping chain ID 'J' in hNups_IRcyt_inner.pdb #78 to 'AX' 
    6096 Remapping chain ID 'U' in hNups_IRcyt_inner.pdb #78 to 'AY' 
    6097 Remapping chain ID 'A' in hNups_IRcyt_outer.pdb #79 to 'AZ' 
    6098 Remapping chain ID 'B' in hNups_IRcyt_outer.pdb #79 to 'Aa' 
    6099 Remapping chain ID 'D' in hNups_IRcyt_outer.pdb #79 to 'Ab' 
    6100 Remapping chain ID 'F' in hNups_IRcyt_outer.pdb #79 to 'Ac' 
    6101 Remapping chain ID 'H' in hNups_IRcyt_outer.pdb #79 to 'Ad' 
    6102 Remapping chain ID 'I' in hNups_IRcyt_outer.pdb #79 to 'Ae' 
    6103 Remapping chain ID 'J' in hNups_IRcyt_outer.pdb #79 to 'Af' 
    6104 Remapping chain ID 'U' in hNups_IRcyt_outer.pdb #79 to 'Ag' 
    6105 Remapping chain ID '4' in hNups_IRnuc_inner.pdb #80 to 'Ah' 
    6106 Remapping chain ID 'A' in hNups_IRnuc_inner.pdb #80 to 'Ai' 
    6107 Remapping chain ID 'C' in hNups_IRnuc_inner.pdb #80 to 'Aj' 
    6108 Remapping chain ID 'D' in hNups_IRnuc_inner.pdb #80 to 'Ak' 
    6109 Remapping chain ID 'E' in hNups_IRnuc_inner.pdb #80 to 'Al' 
    6110 Remapping chain ID 'F' in hNups_IRnuc_inner.pdb #80 to 'Am' 
    6111 Remapping chain ID 'H' in hNups_IRnuc_inner.pdb #80 to 'An' 
    6112 Remapping chain ID 'I' in hNups_IRnuc_inner.pdb #80 to 'Ao' 
    6113 Remapping chain ID 'J' in hNups_IRnuc_inner.pdb #80 to 'Ap' 
    6114 Remapping chain ID 'U' in hNups_IRnuc_inner.pdb #80 to 'Aq' 
    6115 Remapping chain ID 'A' in hNups_IRnuc_outer.pdb #81 to 'Ar' 
    6116 Remapping chain ID 'B' in hNups_IRnuc_outer.pdb #81 to 'As' 
    6117 Remapping chain ID 'D' in hNups_IRnuc_outer.pdb #81 to 'At' 
    6118 Remapping chain ID 'F' in hNups_IRnuc_outer.pdb #81 to 'Au' 
    6119 Remapping chain ID 'H' in hNups_IRnuc_outer.pdb #81 to 'Av' 
    6120 Remapping chain ID 'I' in hNups_IRnuc_outer.pdb #81 to 'Aw' 
    6121 Remapping chain ID 'J' in hNups_IRnuc_outer.pdb #81 to 'Ax' 
    6122 Remapping chain ID 'U' in hNups_IRnuc_outer.pdb #81 to 'Ay' 
    6123 
    6124 > combine #55-81
    6125 
    6126 Remapping chain ID 'K' in Nup133_propeller_CRouter.pdb #56 to 'L' 
    6127 Remapping chain ID 'R' in Nup133_propeller_CRouter.pdb #56 to 'T' 
    6128 Remapping chain ID 'S' in Nup133_propeller_CRouter.pdb #56 to 'U' 
    6129 Remapping chain ID 'K' in Nup133_propeller_NRinner.pdb #57 to 'M' 
    6130 Remapping chain ID 'R' in Nup133_propeller_NRinner.pdb #57 to 'V' 
    6131 Remapping chain ID 'S' in Nup133_propeller_NRinner.pdb #57 to 'W' 
    6132 Remapping chain ID 'T' in Nup133_propeller_NRinner.pdb #57 to 'X' 
    6133 Remapping chain ID 'K' in Nup133_propeller_NRouter.pdb #58 to 'N' 
    6134 Remapping chain ID 'R' in Nup133_propeller_NRouter.pdb #58 to 'Y' 
    6135 Remapping chain ID 'S' in Nup133_propeller_NRouter.pdb #58 to 'Z' 
    6136 Remapping chain ID 'T' in Nup133_propeller_NRouter.pdb #58 to 'a' 
    6137 Remapping chain ID 'U' in Nup98_CRconnector.pdb #59 to 'b' 
    6138 Remapping chain ID 'U' in Nup98_NRconnector.pdb #60 to 'c' 
    6139 Remapping chain ID 'K' in Y_CRinner.pdb #61 to 'd' 
    6140 Remapping chain ID 'L' in Y_CRinner.pdb #61 to 'e' 
    6141 Remapping chain ID 'M' in Y_CRinner.pdb #61 to 'f' 
    6142 Remapping chain ID 'N' in Y_CRinner.pdb #61 to 'g' 
    6143 Remapping chain ID 'R' in Y_CRinner.pdb #61 to 'h' 
    6144 Remapping chain ID 'S' in Y_CRinner.pdb #61 to 'i' 
    6145 Remapping chain ID 'A' in Y_CRouter.pdb #62 to 'B' 
    6146 Remapping chain ID 'C' in Y_CRouter.pdb #62 to 'D' 
    6147 Remapping chain ID 'K' in Y_CRouter.pdb #62 to 'j' 
    6148 Remapping chain ID 'L' in Y_CRouter.pdb #62 to 'k' 
    6149 Remapping chain ID 'M' in Y_CRouter.pdb #62 to 'l' 
    6150 Remapping chain ID 'N' in Y_CRouter.pdb #62 to 'm' 
    6151 Remapping chain ID 'O' in Y_CRouter.pdb #62 to 'n' 
    6152 Remapping chain ID 'P' in Y_CRouter.pdb #62 to 'o' 
    6153 Remapping chain ID 'Q' in Y_CRouter.pdb #62 to 'p' 
    6154 Remapping chain ID 'R' in Y_CRouter.pdb #62 to 'q' 
    6155 Remapping chain ID 'S' in Y_CRouter.pdb #62 to 'r' 
    6156 Remapping chain ID 'U' in Y_CRouter.pdb #62 to 's' 
    6157 Remapping chain ID 'V' in Y_CRouter.pdb #62 to 't' 
    6158 Remapping chain ID 'W' in Y_CRouter.pdb #62 to 'u' 
    6159 Remapping chain ID 'K' in Y_NRinner.pdb #63 to 'v' 
    6160 Remapping chain ID 'L' in Y_NRinner.pdb #63 to 'w' 
    6161 Remapping chain ID 'M' in Y_NRinner.pdb #63 to 'x' 
    6162 Remapping chain ID 'N' in Y_NRinner.pdb #63 to 'y' 
    6163 Remapping chain ID 'O' in Y_NRinner.pdb #63 to 'z' 
    6164 Remapping chain ID 'P' in Y_NRinner.pdb #63 to '1' 
    6165 Remapping chain ID 'Q' in Y_NRinner.pdb #63 to '2' 
    6166 Remapping chain ID 'R' in Y_NRinner.pdb #63 to '3' 
    6167 Remapping chain ID 'S' in Y_NRinner.pdb #63 to '4' 
    6168 Remapping chain ID 'T' in Y_NRinner.pdb #63 to '5' 
    6169 Remapping chain ID 'A' in Y_NRouter.pdb #64 to 'E' 
    6170 Remapping chain ID 'C' in Y_NRouter.pdb #64 to 'F' 
    6171 Remapping chain ID 'K' in Y_NRouter.pdb #64 to '6' 
    6172 Remapping chain ID 'L' in Y_NRouter.pdb #64 to '7' 
    6173 Remapping chain ID 'M' in Y_NRouter.pdb #64 to '8' 
    6174 Remapping chain ID 'N' in Y_NRouter.pdb #64 to '9' 
    6175 Remapping chain ID 'O' in Y_NRouter.pdb #64 to '0' 
    6176 Remapping chain ID 'P' in Y_NRouter.pdb #64 to 'AA' 
    6177 Remapping chain ID 'Q' in Y_NRouter.pdb #64 to 'AB' 
    6178 Remapping chain ID 'R' in Y_NRouter.pdb #64 to 'AC' 
    6179 Remapping chain ID 'S' in Y_NRouter.pdb #64 to 'AD' 
    6180 Remapping chain ID 'T' in Y_NRouter.pdb #64 to 'AE' 
    6181 Remapping chain ID 'D' in hNup155_CRconnector_CTD.pdb #65 to 'G' 
    6182 Remapping chain ID 'D' in hNup155_CRconnector_NTD.pdb #66 to 'H' 
    6183 Remapping chain ID 'D' in hNup155_NRconnector_CTD.pdb #67 to 'I' 
    6184 Remapping chain ID 'D' in hNup155_NRconnector_NTD.pdb #68 to 'AF' 
    6185 Remapping chain ID '0' in hNup358_1_CRinner.pdb #69 to 'AG' 
    6186 Remapping chain ID '0' in hNup358_1_CRouter.pdb #70 to 'AH' 
    6187 Remapping chain ID '0' in hNup358_2_CRinner.pdb #71 to 'AI' 
    6188 Remapping chain ID '0' in hNup358_2_CRouter.pdb #72 to 'AJ' 
    6189 Remapping chain ID '0' in hNup358_CRmiddle.pdb #73 to 'AK' 
    6190 Remapping chain ID 'F' in hNup53_dimer_IRcyt_innerF7.pdb #74 to 'AL' 
    6191 Remapping chain ID 'F' in hNup53_dimer_IRcyt_outerG7.pdb #75 to 'AM' 
    6192 Remapping chain ID 'F' in hNup53_dimer_IRnuc_innerF0.pdb #76 to 'AN' 
    6193 Remapping chain ID 'F' in hNup53_dimer_IRnuc_outerG0.pdb #77 to 'AO' 
    6194 Remapping chain ID '4' in hNups_IRcyt_inner.pdb #78 to 'AP' 
    6195 Remapping chain ID 'A' in hNups_IRcyt_inner.pdb #78 to 'AQ' 
    6196 Remapping chain ID 'C' in hNups_IRcyt_inner.pdb #78 to 'AR' 
    6197 Remapping chain ID 'D' in hNups_IRcyt_inner.pdb #78 to 'AS' 
    6198 Remapping chain ID 'E' in hNups_IRcyt_inner.pdb #78 to 'AT' 
    6199 Remapping chain ID 'F' in hNups_IRcyt_inner.pdb #78 to 'AU' 
    6200 Remapping chain ID 'H' in hNups_IRcyt_inner.pdb #78 to 'AV' 
    6201 Remapping chain ID 'I' in hNups_IRcyt_inner.pdb #78 to 'AW' 
    6202 Remapping chain ID 'J' in hNups_IRcyt_inner.pdb #78 to 'AX' 
    6203 Remapping chain ID 'U' in hNups_IRcyt_inner.pdb #78 to 'AY' 
    6204 Remapping chain ID 'A' in hNups_IRcyt_outer.pdb #79 to 'AZ' 
    6205 Remapping chain ID 'B' in hNups_IRcyt_outer.pdb #79 to 'Aa' 
    6206 Remapping chain ID 'D' in hNups_IRcyt_outer.pdb #79 to 'Ab' 
    6207 Remapping chain ID 'F' in hNups_IRcyt_outer.pdb #79 to 'Ac' 
    6208 Remapping chain ID 'H' in hNups_IRcyt_outer.pdb #79 to 'Ad' 
    6209 Remapping chain ID 'I' in hNups_IRcyt_outer.pdb #79 to 'Ae' 
    6210 Remapping chain ID 'J' in hNups_IRcyt_outer.pdb #79 to 'Af' 
    6211 Remapping chain ID 'U' in hNups_IRcyt_outer.pdb #79 to 'Ag' 
    6212 Remapping chain ID '4' in hNups_IRnuc_inner.pdb #80 to 'Ah' 
    6213 Remapping chain ID 'A' in hNups_IRnuc_inner.pdb #80 to 'Ai' 
    6214 Remapping chain ID 'C' in hNups_IRnuc_inner.pdb #80 to 'Aj' 
    6215 Remapping chain ID 'D' in hNups_IRnuc_inner.pdb #80 to 'Ak' 
    6216 Remapping chain ID 'E' in hNups_IRnuc_inner.pdb #80 to 'Al' 
    6217 Remapping chain ID 'F' in hNups_IRnuc_inner.pdb #80 to 'Am' 
    6218 Remapping chain ID 'H' in hNups_IRnuc_inner.pdb #80 to 'An' 
    6219 Remapping chain ID 'I' in hNups_IRnuc_inner.pdb #80 to 'Ao' 
    6220 Remapping chain ID 'J' in hNups_IRnuc_inner.pdb #80 to 'Ap' 
    6221 Remapping chain ID 'U' in hNups_IRnuc_inner.pdb #80 to 'Aq' 
    6222 Remapping chain ID 'A' in hNups_IRnuc_outer.pdb #81 to 'Ar' 
    6223 Remapping chain ID 'B' in hNups_IRnuc_outer.pdb #81 to 'As' 
    6224 Remapping chain ID 'D' in hNups_IRnuc_outer.pdb #81 to 'At' 
    6225 Remapping chain ID 'F' in hNups_IRnuc_outer.pdb #81 to 'Au' 
    6226 Remapping chain ID 'H' in hNups_IRnuc_outer.pdb #81 to 'Av' 
    6227 Remapping chain ID 'I' in hNups_IRnuc_outer.pdb #81 to 'Aw' 
    6228 Remapping chain ID 'J' in hNups_IRnuc_outer.pdb #81 to 'Ax' 
    6229 Remapping chain ID 'U' in hNups_IRnuc_outer.pdb #81 to 'Ay' 
    6230 
    6231 > select #83
    6232 
    6233 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 2 models selected 
    6234 
    6235 > view matrix models
    6236 > #83,-0.70089,0.71323,-0.007761,591.85,-0.71325,-0.70091,-0.0011384,2147.2,-0.0062517,0.0047376,0.99997,-25.19
    6237 
    6238 > view matrix models
    6239 > #83,-0.24609,0.96924,0.0020727,208.31,-0.95389,-0.24258,0.17676,1683.4,0.17183,0.041523,0.98425,-104.12
    6240 
    6241 > select #84
    6242 
    6243 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 2 models selected 
    6244 
    6245 > view matrix models
    6246 > #84,-0.83,0.48135,0.28177,844.62,0.16075,0.69019,-0.70554,1182.3,-0.53409,-0.54031,-0.65024,2079.8
    6247 
    6248 > undo
    6249 
    6250 > view matrix models
    6251 > #84,-0.70089,0.71323,-0.007761,933.74,-0.71325,-0.70091,-0.0011384,1748.5,-0.0062517,0.0047376,0.99997,16.327
    6252 
    6253 > view matrix models
    6254 > #84,-0.98031,0.19274,-0.042989,1505.2,-0.19151,-0.981,-0.031139,1834.8,-0.048174,-0.022293,0.99859,55.026
    6255 
    6256 > select clear
    6257 
    6258 > volume add #46-54
    6259 
    6260 Opened volume sum as #85, grid size 112,117,59, pixel 13.3, shown at step 1,
    6261 values float32 
    6262 
    6263 > volume #85 color #ffffb259
    6264 
    6265 > select #83
    6266 
    6267 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 2 models selected 
    6268 
    6269 > fitmap sel inMap #85
    6270 
    6271 Fit molecule combination (#83) to map volume sum (#85) using 615326 atoms 
    6272 average map value = 0.1161, steps = 100 
    6273 shifted from previous position = 112 
    6274 rotated from previous position = 18.5 degrees 
    6275 atoms outside contour = 97664, contour level = 0.043111 
    6276  
    6277 Position of combination (#83) relative to volume sum (#85) coordinates: 
    6278 Matrix rotation and translation 
    6279 0.01469287 0.99986579 -0.00724779 4.86255324 
    6280 -0.99985163 0.01462672 -0.00909823 1702.60226078 
    6281 -0.00899100 0.00738039 0.99993235 -3.64203038 
    6282 Axis 0.00824019 0.00087170 -0.99996567 
    6283 Axis point 866.28827825 848.85395730 0.00000000 
    6284 Rotation angle (degrees) 89.16196387 
    6285 Shift along axis 5.16613046 
    6286  
    6287 
    6288 > select #84
    6289 
    6290 615326 atoms, 628295 bonds, 20 pseudobonds, 77424 residues, 2 models selected 
    6291 
    6292 > fitmap sel inMap #85
    6293 
    6294 Fit molecule combination (#84) to map volume sum (#85) using 615326 atoms 
    6295 average map value = 0.1161, steps = 100 
    6296 shifted from previous position = 82.8 
    6297 rotated from previous position = 11.2 degrees 
    6298 atoms outside contour = 87266, contour level = 0.043111 
    6299  
    6300 Position of combination (#84) relative to volume sum (#85) coordinates: 
    6301 Matrix rotation and translation 
    6302 -0.99997563 0.00480187 -0.00506706 1708.34951623 
    6303 -0.00481660 -0.99998420 0.00289974 1708.41606284 
    6304 -0.00505305 0.00292408 0.99998296 -0.49897354 
    6305 Axis 0.00253010 -0.00145601 -0.99999574 
    6306 Axis point 856.22820429 852.15440846 0.00000000 
    6307 Rotation angle (degrees) 179.72444885 
    6308 Shift along axis 2.33380398 
    6309  
    6310 
    6311 > select clear
    6312 
    6313 > show #!48 models
    6314 
    6315 > show #!49 models
    6316 
    6317 > show #!50 models
    6318 
    6319 > hide #!48 models
    6320 
    6321 > show #!46 models
    6322 
    6323 > hide #74 models
    6324 
    6325 > show #74 models
    6326 
    6327 > hide #75 models
    6328 
    6329 > show #75 models
    6330 
    6331 > hide #76 models
    6332 
    6333 > show #76 models
    6334 
    6335 > hide #77 models
    6336 
    6337 > show #77 models
    6338 
    6339 > hide #!84 models
    6340 
    6341 > hide #!83 models
    6342 
    6343 > select /F
    6344 
    6345 69017 atoms, 70454 bonds, 8762 residues, 20 models selected 
    6346 
    6347 > select /H
    6348 
    6349 46074 atoms, 46882 bonds, 2 pseudobonds, 5793 residues, 13 models selected 
    6350 
    6351 > show #!83 models
    6352 
    6353 > show #!84 models
    6354 
    6355 > hide #77 models
    6356 
    6357 > show #77 models
    6358 
    6359 > hide #76 models
    6360 
    6361 > show #76 models
    6362 
    6363 > select #74-75
    6364 
    6365 1396 atoms, 1424 bonds, 178 residues, 2 models selected 
    6366 
    6367 > select #74,76
    6368 
    6369 1396 atoms, 1424 bonds, 178 residues, 2 models selected 
    6370 
    6371 > select #74,77
    6372 
    6373 1396 atoms, 1424 bonds, 178 residues, 2 models selected 
    6374 
    6375 > view matrix models
    6376 > #74,-0.70089,0.71323,-0.007761,830.43,-0.71325,-0.70091,-0.0011384,2037.5,-0.0062517,0.0047376,0.99997,14.318,#77,-0.70089,0.71323,-0.007761,830.43,-0.71325,-0.70091,-0.0011384,2037.5,-0.0062517,0.0047376,0.99997,14.318
    6377 
    6378 > view matrix models
    6379 > #74,-0.70089,0.71323,-0.007761,829.06,-0.71325,-0.70091,-0.0011384,2044.8,-0.0062517,0.0047376,0.99997,-3.0441,#77,-0.70089,0.71323,-0.007761,829.06,-0.71325,-0.70091,-0.0011384,2044.8,-0.0062517,0.0047376,0.99997,-3.0441
    6380 
    6381 > view matrix models
    6382 > #74,-0.70089,0.71323,-0.007761,819.5,-0.71325,-0.70091,-0.0011384,2032,-0.0062517,0.0047376,0.99997,-0.33531,#77,-0.70089,0.71323,-0.007761,819.5,-0.71325,-0.70091,-0.0011384,2032,-0.0062517,0.0047376,0.99997,-0.33531
    6383 
    6384 > view matrix models
    6385 > #74,-0.64789,0.68931,-0.32416,1072.6,-0.74831,-0.49645,0.43996,1540.1,0.14234,0.52762,0.83747,-302.68,#77,-0.64789,0.68931,-0.32416,1072.6,-0.74831,-0.49645,0.43996,1540.1,0.14234,0.52762,0.83747,-302.68
    6386 
    6387 > view matrix models
    6388 > #74,-0.64789,0.68931,-0.32416,1070.3,-0.74831,-0.49645,0.43996,1541.5,0.14234,0.52762,0.83747,-308.49,#77,-0.64789,0.68931,-0.32416,1070.3,-0.74831,-0.49645,0.43996,1541.5,0.14234,0.52762,0.83747,-308.49
    6389 
    6390 > select #75,76
    6391 
    6392 1396 atoms, 1424 bonds, 178 residues, 2 models selected 
    6393 
    6394 > view matrix models
    6395 > #75,-0.70089,0.71323,-0.007761,1052.9,-0.71325,-0.70091,-0.0011384,1755.7,-0.0062517,0.0047376,0.99997,3.8728,#76,-0.70089,0.71323,-0.007761,1052.9,-0.71325,-0.70091,-0.0011384,1755.7,-0.0062517,0.0047376,0.99997,3.8728
    6396 
    6397 > view matrix models
    6398 > #75,-0.98807,0.050195,0.14559,1478.5,-0.064673,-0.99323,-0.096475,1825.9,0.13977,-0.10474,0.98463,45.429,#76,-0.98807,0.050195,0.14559,1478.5,-0.064673,-0.99323,-0.096475,1825.9,0.13977,-0.10474,0.98463,45.429
    6399 
    6400 > view matrix models
    6401 > #75,-0.96518,-0.018581,0.26094,1418.7,-0.005224,-0.99591,-0.090238,1802.5,0.26155,-0.088459,0.96113,13.856,#76,-0.96518,-0.018581,0.26094,1418.7,-0.005224,-0.99591,-0.090238,1802.5,0.26155,-0.088459,0.96113,13.856
    6402 
    6403 > view matrix models
    6404 > #75,-0.96518,-0.018581,0.26094,1411.5,-0.005224,-0.99591,-0.090238,1799.8,0.26155,-0.088459,0.96113,21.781,#76,-0.96518,-0.018581,0.26094,1411.5,-0.005224,-0.99591,-0.090238,1799.8,0.26155,-0.088459,0.96113,21.781
    6405 
    6406 > view matrix models
    6407 > #75,-0.96518,-0.018581,0.26094,1412.8,-0.005224,-0.99591,-0.090238,1804.3,0.26155,-0.088459,0.96113,19.107,#76,-0.96518,-0.018581,0.26094,1412.8,-0.005224,-0.99591,-0.090238,1804.3,0.26155,-0.088459,0.96113,19.107
    6408 
    6409 > view matrix models
    6410 > #75,-0.96518,-0.018581,0.26094,1168.9,-0.005224,-0.99591,-0.090238,2052.5,0.26155,-0.088459,0.96113,30.38,#76,-0.96518,-0.018581,0.26094,1168.9,-0.005224,-0.99591,-0.090238,2052.5,0.26155,-0.088459,0.96113,30.38
    6411 
    6412 > view sel
    6413 
    6414 > view matrix models
    6415 > #75,-0.96518,-0.018581,0.26094,1156.3,-0.005224,-0.99591,-0.090238,2066.9,0.26155,-0.088459,0.96113,21.365,#76,-0.96518,-0.018581,0.26094,1156.3,-0.005224,-0.99591,-0.090238,2066.9,0.26155,-0.088459,0.96113,21.365
    6416 
    6417 > view matrix models
    6418 > #75,-0.54156,0.38208,0.74882,311.16,0.019679,-0.88474,0.46567,1498.4,0.84043,0.26692,0.47162,6.0024,#76,-0.54156,0.38208,0.74882,311.16,0.019679,-0.88474,0.46567,1498.4,0.84043,0.26692,0.47162,6.0024
    6419 
    6420 > view matrix models
    6421 > #75,-0.54156,0.38208,0.74882,315.33,0.019679,-0.88474,0.46567,1502.4,0.84043,0.26692,0.47162,5.7292,#76,-0.54156,0.38208,0.74882,315.33,0.019679,-0.88474,0.46567,1502.4,0.84043,0.26692,0.47162,5.7292
    6422 
    6423 > view matrix models
    6424 > #75,-0.41864,0.34742,0.83907,219.83,0.10623,-0.89885,0.42518,1518.7,0.90192,0.26714,0.33939,100.06,#76,-0.41864,0.34742,0.83907,219.83,0.10623,-0.89885,0.42518,1518.7,0.90192,0.26714,0.33939,100.06
    6425 
    6426 > view
    6427 
    6428 > select clear
    6429 
    6430 > hide #74 models
    6431 
    6432 > show #74 models
    6433 
    6434 > hide #76 models
    6435 
    6436 > show #76 models
    6437 
    6438 > hide #77 models
    6439 
    6440 > show #77 models
    6441 
    6442 > hide #76 models
    6443 
    6444 > show #76 models
    6445 
    6446 > hide #75 models
    6447 
    6448 > show #75 models
    6449 
    6450 > hide #74 models
    6451 
    6452 > show #74 models
    6453 
    6454 > volume #46 level 0.0236
    6455 
    6456 > volume #46 level 0.01898
    6457 
    6458 > hide #!84 models
    6459 
    6460 > hide #!83 models
    6461 
    6462 > view
    6463 
    6464 > hide #!78 models
    6465 
    6466 > show #!78 models
    6467 
    6468 > hide #55-60,69-77#!61-68 target m
    6469 
    6470 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies.cxs
    6471 > includeMaps true
    6472 
    6473 > show #74-77 target m
    6474 
    6475 > select #74-77/F
    6476 
    6477 2792 atoms, 2848 bonds, 356 residues, 4 models selected 
    6478 
    6479 > select #74-77/F/G
    6480 
    6481 2792 atoms, 2848 bonds, 356 residues, 4 models selected 
    6482 
    6483 > select #78-81/F
    6484 
    6485 7348 atoms, 7528 bonds, 964 residues, 4 models selected 
    6486 
    6487 > select ~sel & ##selected
    6488 
    6489 166300 atoms, 169546 bonds, 8 pseudobonds, 20920 residues, 8 models selected 
    6490 
    6491 > select ~sel & ##selected
    6492 
    6493 7348 atoms, 7528 bonds, 964 residues, 4 models selected 
    6494 
    6495 > hide #!50 models
    6496 
    6497 > show #!50 models
    6498 
    6499 > hide #!46 models
    6500 
    6501 > hide #!49 models
    6502 
    6503 > show #!49 models
    6504 
    6505 > hide #!50 models
    6506 
    6507 > select #78-81/F:101-285
    6508 
    6509 5588 atoms, 5724 bonds, 740 residues, 4 models selected 
    6510 
    6511 > show sel atoms
    6512 
    6513 > hide sel atoms
    6514 
    6515 > select #78-81/F:101-326\
    6516 
    6517 6912 atoms, 7080 bonds, 904 residues, 4 models selected 
    6518 
    6519 > select #78-81/F:101-326
    6520 
    6521 6912 atoms, 7080 bonds, 904 residues, 4 models selected 
    6522 
    6523 > select #78-81/F:101-286
    6524 
    6525 5620 atoms, 5756 bonds, 744 residues, 4 models selected 
    6526 
    6527 > show sel atoms
    6528 
    6529 > hide sel atoms
    6530 
    6531 > select #78-81/F:101-285
    6532 
    6533 5588 atoms, 5724 bonds, 740 residues, 4 models selected 
    6534 
    6535 > show sel atoms
    6536 
    6537 > select ~sel & ##selected
    6538 
    6539 168060 atoms, 171350 bonds, 8 pseudobonds, 21144 residues, 8 models selected 
    6540 
    6541 > select ~sel & ##selected
    6542 
    6543 5588 atoms, 5724 bonds, 740 residues, 4 models selected 
    6544 
    6545 > hide sel atoms
    6546 
    6547 > select ~sel & ##selected
    6548 
    6549 168060 atoms, 171350 bonds, 8 pseudobonds, 21144 residues, 8 models selected 
    6550 
    6551 > show sel atoms
    6552 
    6553 > hide sel atoms
    6554 
    6555 > cd /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies
    6556 
    6557 Current working directory is:
    6558 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies 
    6559 
    6560 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    6561 > models #74-81 selectedOnly true relModel #82
    6562 
    6563 > open /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/*.pdb
    6564 
    6565 Summary of feedback from opening
    6566 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRcyt_inner.pdb.pdb 
    6567 --- 
    6568 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    6569 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    6570 225 1 6 
    6571 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    6572 250 1 4 
    6573 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    6574 179 0 
    6575 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    6576 204 0 
    6577 3 messages similar to the above omitted 
    6578  
    6579 Summary of feedback from opening
    6580 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRcyt_outer.pdb.pdb 
    6581 --- 
    6582 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    6583 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    6584 227 1 10 
    6585 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    6586 250 1 5 
    6587 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    6588 179 0 
    6589 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    6590 204 0 
    6591 2 messages similar to the above omitted 
    6592  
    6593 Summary of feedback from opening
    6594 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRnuc_inner.pdb.pdb 
    6595 --- 
    6596 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    6597 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    6598 225 1 6 
    6599 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    6600 250 1 5 
    6601 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    6602 179 0 
    6603 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    6604 204 0 
    6605 3 messages similar to the above omitted 
    6606  
    6607 Summary of feedback from opening
    6608 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRnuc_outer.pdb.pdb 
    6609 --- 
    6610 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    6611 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    6612 227 1 10 
    6613 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    6614 250 1 5 
    6615 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    6616 179 0 
    6617 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    6618 204 0 
    6619 2 messages similar to the above omitted 
    6620  
    6621 Chain information for hNups_IRcyt_inner.pdb.pdb #86 
    6622 --- 
    6623 Chain | Description 
    6624 4 | No description available 
    6625 A | No description available 
    6626 C | No description available 
    6627 D | No description available 
    6628 E | No description available 
    6629 F | No description available 
    6630 H | No description available 
    6631 I | No description available 
    6632 J | No description available 
    6633 U | No description available 
    6634  
    6635 Chain information for hNups_IRcyt_outer.pdb.pdb #87 
    6636 --- 
    6637 Chain | Description 
    6638 A | No description available 
    6639 B | No description available 
    6640 D | No description available 
    6641 F | No description available 
    6642 H | No description available 
    6643 I | No description available 
    6644 J | No description available 
    6645 U | No description available 
    6646  
    6647 Chain information for hNups_IRnuc_inner.pdb.pdb #88 
    6648 --- 
    6649 Chain | Description 
    6650 4 | No description available 
    6651 A | No description available 
    6652 C | No description available 
    6653 D | No description available 
    6654 E | No description available 
    6655 F | No description available 
    6656 H | No description available 
    6657 I | No description available 
    6658 J | No description available 
    6659 U | No description available 
    6660  
    6661 Chain information for hNups_IRnuc_outer.pdb.pdb #89 
    6662 --- 
    6663 Chain | Description 
    6664 A | No description available 
    6665 B | No description available 
    6666 D | No description available 
    6667 F | No description available 
    6668 H | No description available 
    6669 I | No description available 
    6670 J | No description available 
    6671 U | No description available 
    6672  
    6673 
    6674 > close #86-89
    6675 
    6676 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    6677 > models #74-77 selectedOnly false relModel #82
    6678 
    6679 > open /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/*.pdb
    6680 
    6681 Summary of feedback from opening
    6682 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRcyt_inner.pdb.pdb 
    6683 --- 
    6684 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    6685 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    6686 225 1 6 
    6687 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    6688 250 1 4 
    6689 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    6690 179 0 
    6691 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    6692 204 0 
    6693 3 messages similar to the above omitted 
    6694  
    6695 Summary of feedback from opening
    6696 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRcyt_outer.pdb.pdb 
    6697 --- 
    6698 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    6699 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    6700 227 1 10 
    6701 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    6702 250 1 5 
    6703 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    6704 179 0 
    6705 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    6706 204 0 
    6707 2 messages similar to the above omitted 
    6708  
    6709 Summary of feedback from opening
    6710 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRnuc_inner.pdb.pdb 
    6711 --- 
    6712 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    6713 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    6714 225 1 6 
    6715 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    6716 250 1 5 
    6717 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    6718 179 0 
    6719 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    6720 204 0 
    6721 3 messages similar to the above omitted 
    6722  
    6723 Summary of feedback from opening
    6724 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNups_IRnuc_outer.pdb.pdb 
    6725 --- 
    6726 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    6727 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    6728 227 1 10 
    6729 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    6730 250 1 5 
    6731 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    6732 179 0 
    6733 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    6734 204 0 
    6735 2 messages similar to the above omitted 
    6736  
    6737 Chain information for hNup53_dimer_IRcyt_innerF7.pdb.pdb #86 
    6738 --- 
    6739 Chain | Description 
    6740 F | No description available 
    6741  
    6742 Chain information for hNup53_dimer_IRcyt_outerG7.pdb.pdb #87 
    6743 --- 
    6744 Chain | Description 
    6745 F | No description available 
    6746  
    6747 Chain information for hNup53_dimer_IRnuc_innerF0.pdb.pdb #88 
    6748 --- 
    6749 Chain | Description 
    6750 F | No description available 
    6751  
    6752 Chain information for hNup53_dimer_IRnuc_outerG0.pdb.pdb #89 
    6753 --- 
    6754 Chain | Description 
    6755 F | No description available 
    6756  
    6757 Chain information for hNups_IRcyt_inner.pdb.pdb #90 
    6758 --- 
    6759 Chain | Description 
    6760 4 | No description available 
    6761 A | No description available 
    6762 C | No description available 
    6763 D | No description available 
    6764 E | No description available 
    6765 F | No description available 
    6766 H | No description available 
    6767 I | No description available 
    6768 J | No description available 
    6769 U | No description available 
    6770  
    6771 Chain information for hNups_IRcyt_outer.pdb.pdb #91 
    6772 --- 
    6773 Chain | Description 
    6774 A | No description available 
    6775 B | No description available 
    6776 D | No description available 
    6777 F | No description available 
    6778 H | No description available 
    6779 I | No description available 
    6780 J | No description available 
    6781 U | No description available 
    6782  
    6783 Chain information for hNups_IRnuc_inner.pdb.pdb #92 
    6784 --- 
    6785 Chain | Description 
    6786 4 | No description available 
    6787 A | No description available 
    6788 C | No description available 
    6789 D | No description available 
    6790 E | No description available 
    6791 F | No description available 
    6792 H | No description available 
    6793 I | No description available 
    6794 J | No description available 
    6795 U | No description available 
    6796  
    6797 Chain information for hNups_IRnuc_outer.pdb.pdb #93 
    6798 --- 
    6799 Chain | Description 
    6800 A | No description available 
    6801 B | No description available 
    6802 D | No description available 
    6803 F | No description available 
    6804 H | No description available 
    6805 I | No description available 
    6806 J | No description available 
    6807 U | No description available 
    6808  
    6809 
    6810 > select #90-93
    6811 
    6812 168060 atoms, 171342 bonds, 12 pseudobonds, 21144 residues, 8 models selected 
    6813 
    6814 > show sel atoms
    6815 
    6816 [Repeated 1 time(s)]
    6817 
    6818 > select #86-89
    6819 
    6820 2792 atoms, 2848 bonds, 356 residues, 4 models selected 
    6821 
    6822 > show sel atoms
    6823 
    6824 > hide sel atoms
    6825 
    6826 > show sel cartoons
    6827 
    6828 > hide sel atoms
    6829 
    6830 [Repeated 1 time(s)]
    6831 
    6832 > show sel cartoons
    6833 
    6834 > hide #74-77#!78-81 target m
    6835 
    6836 > select clear
    6837 
    6838 > hide #86-89#!90-93 atoms
    6839 
    6840 > show #86-89#!90-93 cartoons
    6841 
    6842 > show #!85 models
    6843 
    6844 > volume #85 level 0.09874
    6845 
    6846 > select #90-93
    6847 
    6848 168060 atoms, 171342 bonds, 12 pseudobonds, 21144 residues, 8 models selected 
    6849 
    6850 > fitmap sel inMap #85
    6851 
    6852 Fit molecules hNups_IRcyt_inner.pdb.pdb (#90), hNups_IRcyt_outer.pdb.pdb
    6853 (#91), hNups_IRnuc_inner.pdb.pdb (#92), hNups_IRnuc_outer.pdb.pdb (#93) to map
    6854 volume sum (#85) using 168060 atoms 
    6855 average map value = 0.1773, steps = 64 
    6856 shifted from previous position = 2.77 
    6857 rotated from previous position = 1.84 degrees 
    6858 atoms outside contour = 23247, contour level = 0.098742 
    6859  
    6860 Position of hNups_IRcyt_inner.pdb.pdb (#90) relative to volume sum (#85)
    6861 coordinates: 
    6862 Matrix rotation and translation 
    6863 0.99985504 0.01596025 0.00593121 -21.69409987 
    6864 -0.01611554 0.99950209 0.02712675 -0.78476903 
    6865 -0.00549530 -0.02721840 0.99961441 39.11279950 
    6866 Axis -0.84740518 0.17817377 -0.50015854 
    6867 Axis point 0.00000000 1412.11127299 46.18721422 
    6868 Rotation angle (degrees) 1.83754000 
    6869 Shift along axis -1.31873314 
    6870  
    6871 Position of hNups_IRcyt_outer.pdb.pdb (#91) relative to volume sum (#85)
    6872 coordinates: 
    6873 Matrix rotation and translation 
    6874 0.99985504 0.01596025 0.00593121 -21.69409987 
    6875 -0.01611554 0.99950209 0.02712675 -0.78476903 
    6876 -0.00549530 -0.02721840 0.99961441 39.11279950 
    6877 Axis -0.84740518 0.17817377 -0.50015854 
    6878 Axis point 0.00000000 1412.11127299 46.18721422 
    6879 Rotation angle (degrees) 1.83754000 
    6880 Shift along axis -1.31873314 
    6881  
    6882 Position of hNups_IRnuc_inner.pdb.pdb (#92) relative to volume sum (#85)
    6883 coordinates: 
    6884 Matrix rotation and translation 
    6885 0.99985504 0.01596025 0.00593121 -21.69409987 
    6886 -0.01611554 0.99950209 0.02712675 -0.78476903 
    6887 -0.00549530 -0.02721840 0.99961441 39.11279950 
    6888 Axis -0.84740518 0.17817377 -0.50015854 
    6889 Axis point 0.00000000 1412.11127299 46.18721422 
    6890 Rotation angle (degrees) 1.83754000 
    6891 Shift along axis -1.31873314 
    6892  
    6893 Position of hNups_IRnuc_outer.pdb.pdb (#93) relative to volume sum (#85)
    6894 coordinates: 
    6895 Matrix rotation and translation 
    6896 0.99985504 0.01596025 0.00593121 -21.69409987 
    6897 -0.01611554 0.99950209 0.02712675 -0.78476903 
    6898 -0.00549530 -0.02721840 0.99961441 39.11279950 
    6899 Axis -0.84740518 0.17817377 -0.50015854 
    6900 Axis point 0.00000000 1412.11127299 46.18721422 
    6901 Rotation angle (degrees) 1.83754000 
    6902 Shift along axis -1.31873314 
    6903  
    6904 
    6905 > select clear
    6906 
    6907 > show #!5 models
    6908 
    6909 > hide #!5 models
    6910 
    6911 > show #!5 models
    6912 
    6913 > hide #!5 models
    6914 
    6915 > close #86-89#90-93
    6916 
    6917 > show #!28 models
    6918 
    6919 > show #!28 atoms
    6920 
    6921 > hide #!28 atoms
    6922 
    6923 > show #!28 cartoons
    6924 
    6925 > hide #!49 models
    6926 
    6927 > show #!49 models
    6928 
    6929 > hide #!28 models
    6930 
    6931 > show #!66 models
    6932 
    6933 > show #!68 models
    6934 
    6935 > show #74-77#!78-81 target m
    6936 
    6937 > select #66,68:1-862
    6938 
    6939 12208 atoms, 12454 bonds, 2 pseudobonds, 1566 residues, 4 models selected 
    6940 
    6941 > show sel atoms
    6942 
    6943 > style sel sphere
    6944 
    6945 Changed 12208 atom styles 
    6946 
    6947 > hide sel atoms
    6948 
    6949 > volume #85 level 0.1636
    6950 
    6951 > volume #85 level 0.1335
    6952 
    6953 > show #!65 models
    6954 
    6955 > open 7R5J
    6956 
    6957 7r5j title: 
    6958 Human nuclear pore complex (dilated) [more info...] 
    6959  
    6960 Chain information for 7r5j #86 
    6961 --- 
    6962 Chain | Description | UniProt 
    6963 00 01 02 03 04 | E3 SUMO-protein ligase RanBP2 | RBP2_HUMAN 1-3224 
    6964 10 11 12 13 14 15 16 17 | Nuclear pore membrane glycoprotein 210 | PO210_HUMAN 1-1887 
    6965 40 41 | Aladin | AAAS_HUMAN 1-546 
    6966 A0 A1 A2 A3 A4 A5 A6 | Nuclear pore complex protein Nup93 | NUP93_HUMAN 1-819 
    6967 B0 B1 | Nucleoporin NUP188 homolog | NU188_HUMAN 1-1749 
    6968 C0 C1 C2 C3 C4 | Nuclear pore complex protein Nup205 | NU205_HUMAN 1-2012 
    6969 D0 D1 D2 D3 D4 D5 | Nuclear pore complex protein Nup155 | NU155_HUMAN 1-1391 
    6970 E0 E1 | Nucleoporin NDC1 | NDC1_HUMAN 1-674 
    6971 F0 F1 F2 F3 | Nucleoporin NUP35 | NUP35_HUMAN 1-326 
    6972 H0 H1 H2 H3 | Nucleoporin p54 | NUP54_HUMAN 1-507 
    6973 I0 I1 I2 I3 | Nucleoporin p58/p45 | NUP58_HUMAN 1-599 
    6974 J0 J1 J2 J3 J4 | Nuclear pore glycoprotein p62 | NUP62_HUMAN 1-522 
    6975 K0 K1 K2 K3 | Nuclear pore complex protein Nup133 | NU133_HUMAN 1-1156 
    6976 L0 L1 L2 L3 | Nuclear pore complex protein Nup107 | NU107_HUMAN 1-925 
    6977 M0 M1 M2 M3 | Nuclear pore complex protein Nup96 | NUP98_HUMAN 1-937 
    6978 N0 N1 N2 N3 | Protein SEC13 homolog | SEC13_HUMAN 1-322 
    6979 O0 O1 O2 O3 | Nucleoporin SEH1 | SEH1_HUMAN 1-360 
    6980 P0 P1 P2 P3 | Nuclear pore complex protein Nup85 | NUP85_HUMAN 1-656 
    6981 Q0 Q1 Q2 Q3 | Nucleoporin Nup43 | NUP43_HUMAN 1-380 
    6982 R0 R1 R2 R3 | Nuclear pore complex protein Nup160 | NU160_HUMAN 1-1436 
    6983 S0 S1 S2 S3 | Nucleoporin Nup37 | NUP37_HUMAN 1-326 
    6984 T0 T1 | Protein ELYS | ELYS_HUMAN 1-2266 
    6985 U0 U1 U2 U3 U4 U5 U6 | Nuclear pore complex protein Nup98 | NUP98_HUMAN 1-880 
    6986 V0 | Nuclear pore complex protein Nup214 | NU214_HUMAN 1-2090 
    6987 W0 | Nuclear pore complex protein Nup88 | NUP88_HUMAN 1-741 
    6988  
    6989 7r5j mmCIF Assemblies 
    6990 --- 
    6991 1| author_and_software_defined_assembly 
    6992  
    6993 
    6994 > select clear
    6995 
    6996 > hide #74-77#!65-66,68,78-81,86 atoms
    6997 
    6998 > show #74-77#!65-66,68,78-81,86 cartoons
    6999 
    7000 > select #86
    7001 
    7002 617133 atoms, 630097 bonds, 18 pseudobonds, 78030 residues, 2 models selected 
    7003 
    7004 > view matrix models
    7005 > #86,-0.38582,0.91584,-0.11124,-282.41,-0.91597,-0.39466,-0.072418,2098.8,-0.11023,0.073955,0.99115,-23.73
    7006 
    7007 > view matrix models
    7008 > #86,-0.38582,0.91584,-0.11124,528.9,-0.91597,-0.39466,-0.072418,2191.3,-0.11023,0.073955,0.99115,-17.369
    7009 
    7010 > view matrix models
    7011 > #86,-0.38582,0.91584,-0.11124,455.87,-0.91597,-0.39466,-0.072418,2122.8,-0.11023,0.073955,0.99115,-118.67
    7012 
    7013 > fitmap sel inMap #85
    7014 
    7015 Fit molecule 7r5j (#86) to map volume sum (#85) using 617133 atoms 
    7016 average map value = 0.06963, steps = 108 
    7017 shifted from previous position = 104 
    7018 rotated from previous position = 11 degrees 
    7019 atoms outside contour = 431670, contour level = 0.13351 
    7020  
    7021 Position of 7r5j (#86) relative to volume sum (#85) coordinates: 
    7022 Matrix rotation and translation 
    7023 -0.34313373 0.93864088 0.03482166 334.39503325 
    7024 -0.92486201 -0.33115991 -0.18698499 2244.32948006 
    7025 -0.16398021 -0.09636608 0.98174542 86.93675277 
    7026 Axis 0.04829745 0.10595608 -0.99319719 
    7027 Axis point 950.40314592 1012.33435420 0.00000000 
    7028 Rotation angle (degrees) 110.25959152 
    7029 Shift along axis 167.60544045 
    7030  
    7031 
    7032 > select clear
    7033 
    7034 > hide #!85 models
    7035 
    7036 > hide #!86 models
    7037 
    7038 > show #!86 models
    7039 
    7040 > mmaker #86/B0 to #79/B
    7041 
    7042 Parameters 
    7043 --- 
    7044 Chain pairing | bb 
    7045 Alignment algorithm | Needleman-Wunsch 
    7046 Similarity matrix | BLOSUM-62 
    7047 SS fraction | 0.3 
    7048 Gap open (HH/SS/other) | 18/18/6 
    7049 Gap extend | 1 
    7050 SS matrix |  |  | H | S | O 
    7051 ---|---|---|--- 
    7052 H | 6 | -9 | -6 
    7053 S |  | 6 | -6 
    7054 O |  |  | 4 
    7055 Iteration cutoff | 2 
    7056  
    7057 Matchmaker hNups_IRcyt_outer.pdb, chain B (#79) with 7r5j, chain B0 (#86),
    7058 sequence alignment score = 9105.5 
    7059 RMSD between 1748 pruned atom pairs is 0.000 angstroms; (across all 1748
    7060 pairs: 0.000) 
    7061  
    7062 
    7063 > hide #!86 models
    7064 
    7065 > show #!86 models
    7066 
    7067 > hide #!86 models
    7068 
    7069 > show #!86 models
    7070 
    7071 > hide #!86 models
    7072 
    7073 > show #!86 models
    7074 
    7075 > close #86
    7076 
    7077 > show #!85 models
    7078 
    7079 > volume #85 level 0.1579
    7080 
    7081 > select #66/D:1-862
    7082 
    7083 6104 atoms, 6227 bonds, 1 pseudobond, 783 residues, 2 models selected 
    7084 
    7085 > show sel atoms
    7086 
    7087 > select #66,68/D:1-862
    7088 
    7089 12208 atoms, 12454 bonds, 2 pseudobonds, 1566 residues, 4 models selected 
    7090 
    7091 > hide sel atoms
    7092 
    7093 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    7094 > models #66,68 selectedOnly true relModel #82
    7095 
    7096 > select #65,67/D:869-10000
    7097 
    7098 8426 atoms, 8584 bonds, 1046 residues, 2 models selected 
    7099 
    7100 > show #!67 models
    7101 
    7102 > show sel atoms
    7103 
    7104 > style sel sphere
    7105 
    7106 Changed 8426 atom styles 
    7107 
    7108 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    7109 > models #65,67 selectedOnly true relModel #82
    7110 
    7111 > hide sel atoms
    7112 
    7113 > select clear
    7114 
    7115 > open *pdb
    7116 
    7117 Summary of feedback from opening hNup155_CRconnector_CTD.pdb.pdb 
    7118 --- 
    7119 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    7120 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    7121 4 
    7122 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    7123 3 
    7124 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    7125 8 
    7126 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    7127 1 3 
    7128 52 messages similar to the above omitted 
    7129  
    7130 Summary of feedback from opening hNup155_CRconnector_NTD.pdb.pdb 
    7131 --- 
    7132 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    7133 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    7134 910 1 21 
    7135 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    7136 923 1 11 
    7137 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    7138 938 1 13 
    7139 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    7140 952 1 8 
    7141 23 messages similar to the above omitted 
    7142  
    7143 Summary of feedback from opening hNup155_NRconnector_CTD.pdb.pdb 
    7144 --- 
    7145 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    7146 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    7147 4 
    7148 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    7149 3 
    7150 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    7151 8 
    7152 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    7153 1 3 
    7154 52 messages similar to the above omitted 
    7155  
    7156 Summary of feedback from opening hNup155_NRconnector_NTD.pdb.pdb 
    7157 --- 
    7158 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    7159 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    7160 910 1 21 
    7161 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    7162 923 1 11 
    7163 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    7164 938 1 13 
    7165 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    7166 952 1 8 
    7167 23 messages similar to the above omitted 
    7168  
    7169 Summary of feedback from opening hNups_IRcyt_inner.pdb.pdb 
    7170 --- 
    7171 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    7172 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    7173 225 1 6 
    7174 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    7175 250 1 4 
    7176 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    7177 179 0 
    7178 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    7179 204 0 
    7180 3 messages similar to the above omitted 
    7181  
    7182 Summary of feedback from opening hNups_IRcyt_outer.pdb.pdb 
    7183 --- 
    7184 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    7185 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    7186 227 1 10 
    7187 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    7188 250 1 5 
    7189 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    7190 179 0 
    7191 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    7192 204 0 
    7193 2 messages similar to the above omitted 
    7194  
    7195 Summary of feedback from opening hNups_IRnuc_inner.pdb.pdb 
    7196 --- 
    7197 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    7198 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    7199 225 1 6 
    7200 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    7201 250 1 5 
    7202 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    7203 179 0 
    7204 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    7205 204 0 
    7206 3 messages similar to the above omitted 
    7207  
    7208 Summary of feedback from opening hNups_IRnuc_outer.pdb.pdb 
    7209 --- 
    7210 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    7211 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    7212 227 1 10 
    7213 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    7214 250 1 5 
    7215 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    7216 179 0 
    7217 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    7218 204 0 
    7219 2 messages similar to the above omitted 
    7220  
    7221 Chain information for hNup155_CRconnector_CTD.pdb.pdb #86 
    7222 --- 
    7223 Chain | Description 
    7224 D | No description available 
    7225  
    7226 Chain information for hNup155_CRconnector_NTD.pdb.pdb #87 
    7227 --- 
    7228 Chain | Description 
    7229 D | No description available 
    7230  
    7231 Chain information for hNup155_NRconnector_CTD.pdb.pdb #88 
    7232 --- 
    7233 Chain | Description 
    7234 D | No description available 
    7235  
    7236 Chain information for hNup155_NRconnector_NTD.pdb.pdb #89 
    7237 --- 
    7238 Chain | Description 
    7239 D | No description available 
    7240  
    7241 Chain information for hNup53_dimer_IRcyt_innerF7.pdb.pdb #90 
    7242 --- 
    7243 Chain | Description 
    7244 F | No description available 
    7245  
    7246 Chain information for hNup53_dimer_IRcyt_outerG7.pdb.pdb #91 
    7247 --- 
    7248 Chain | Description 
    7249 F | No description available 
    7250  
    7251 Chain information for hNup53_dimer_IRnuc_innerF0.pdb.pdb #92 
    7252 --- 
    7253 Chain | Description 
    7254 F | No description available 
    7255  
    7256 Chain information for hNup53_dimer_IRnuc_outerG0.pdb.pdb #93 
    7257 --- 
    7258 Chain | Description 
    7259 F | No description available 
    7260  
    7261 Chain information for hNups_IRcyt_inner.pdb.pdb #94 
    7262 --- 
    7263 Chain | Description 
    7264 4 | No description available 
    7265 A | No description available 
    7266 C | No description available 
    7267 D | No description available 
    7268 E | No description available 
    7269 F | No description available 
    7270 H | No description available 
    7271 I | No description available 
    7272 J | No description available 
    7273 U | No description available 
    7274  
    7275 Chain information for hNups_IRcyt_outer.pdb.pdb #95 
    7276 --- 
    7277 Chain | Description 
    7278 A | No description available 
    7279 B | No description available 
    7280 D | No description available 
    7281 F | No description available 
    7282 H | No description available 
    7283 I | No description available 
    7284 J | No description available 
    7285 U | No description available 
    7286  
    7287 Chain information for hNups_IRnuc_inner.pdb.pdb #96 
    7288 --- 
    7289 Chain | Description 
    7290 4 | No description available 
    7291 A | No description available 
    7292 C | No description available 
    7293 D | No description available 
    7294 E | No description available 
    7295 F | No description available 
    7296 H | No description available 
    7297 I | No description available 
    7298 J | No description available 
    7299 U | No description available 
    7300  
    7301 Chain information for hNups_IRnuc_outer.pdb.pdb #97 
    7302 --- 
    7303 Chain | Description 
    7304 A | No description available 
    7305 B | No description available 
    7306 D | No description available 
    7307 F | No description available 
    7308 H | No description available 
    7309 I | No description available 
    7310 J | No description available 
    7311 U | No description available 
    7312  
    7313 
    7314 > hide #74-77#!78-81 target m
    7315 
    7316 > hide #!65-68 target m
    7317 
    7318 > hide #!49 models
    7319 
    7320 > show #!50 models
    7321 
    7322 > hide #86,88,90-93#!87,89,94-97 atoms
    7323 
    7324 > show #86,88,90-93#!87,89,94-97 cartoons
    7325 
    7326 > volume #85 level 0.1138
    7327 
    7328 > show #!63 models
    7329 
    7330 > show #!64 models
    7331 
    7332 > hide #88 models
    7333 
    7334 > show #88 models
    7335 
    7336 > select #88/D:1174
    7337 
    7338 5 atoms, 4 bonds, 1 residue, 1 model selected 
    7339 
    7340 > fitmap #88 inMap #85
    7341 
    7342 Fit molecule hNup155_NRconnector_CTD.pdb.pdb (#88) to map volume sum (#85)
    7343 using 4213 atoms 
    7344 average map value = 0.2133, steps = 240 
    7345 shifted from previous position = 101 
    7346 rotated from previous position = 116 degrees 
    7347 atoms outside contour = 27, contour level = 0.11381 
    7348  
    7349 Position of hNup155_NRconnector_CTD.pdb.pdb (#88) relative to volume sum (#85)
    7350 coordinates: 
    7351 Matrix rotation and translation 
    7352 0.85872693 -0.07234201 -0.50730138 621.45076389 
    7353 0.43730034 -0.41261424 0.79907316 590.07654579 
    7354 -0.26712633 -0.90802870 -0.32268777 2258.79375565 
    7355 Axis -0.94961934 -0.13360356 0.28350167 
    7356 Axis point 0.00000000 997.23394979 1029.25772482 
    7357 Rotation angle (degrees) 115.99467040 
    7358 Shift along axis -28.60619092 
    7359  
    7360 
    7361 > select clear
    7362 
    7363 > hide #88 models
    7364 
    7365 > show #88 models
    7366 
    7367 > show #!62 models
    7368 
    7369 > show #!61 models
    7370 
    7371 > open 7R5J
    7372 
    7373 7r5j title: 
    7374 Human nuclear pore complex (dilated) [more info...] 
    7375  
    7376 Chain information for 7r5j #98 
    7377 --- 
    7378 Chain | Description | UniProt 
    7379 00 01 02 03 04 | E3 SUMO-protein ligase RanBP2 | RBP2_HUMAN 1-3224 
    7380 10 11 12 13 14 15 16 17 | Nuclear pore membrane glycoprotein 210 | PO210_HUMAN 1-1887 
    7381 40 41 | Aladin | AAAS_HUMAN 1-546 
    7382 A0 A1 A2 A3 A4 A5 A6 | Nuclear pore complex protein Nup93 | NUP93_HUMAN 1-819 
    7383 B0 B1 | Nucleoporin NUP188 homolog | NU188_HUMAN 1-1749 
    7384 C0 C1 C2 C3 C4 | Nuclear pore complex protein Nup205 | NU205_HUMAN 1-2012 
    7385 D0 D1 D2 D3 D4 D5 | Nuclear pore complex protein Nup155 | NU155_HUMAN 1-1391 
    7386 E0 E1 | Nucleoporin NDC1 | NDC1_HUMAN 1-674 
    7387 F0 F1 F2 F3 | Nucleoporin NUP35 | NUP35_HUMAN 1-326 
    7388 H0 H1 H2 H3 | Nucleoporin p54 | NUP54_HUMAN 1-507 
    7389 I0 I1 I2 I3 | Nucleoporin p58/p45 | NUP58_HUMAN 1-599 
    7390 J0 J1 J2 J3 J4 | Nuclear pore glycoprotein p62 | NUP62_HUMAN 1-522 
    7391 K0 K1 K2 K3 | Nuclear pore complex protein Nup133 | NU133_HUMAN 1-1156 
    7392 L0 L1 L2 L3 | Nuclear pore complex protein Nup107 | NU107_HUMAN 1-925 
    7393 M0 M1 M2 M3 | Nuclear pore complex protein Nup96 | NUP98_HUMAN 1-937 
    7394 N0 N1 N2 N3 | Protein SEC13 homolog | SEC13_HUMAN 1-322 
    7395 O0 O1 O2 O3 | Nucleoporin SEH1 | SEH1_HUMAN 1-360 
    7396 P0 P1 P2 P3 | Nuclear pore complex protein Nup85 | NUP85_HUMAN 1-656 
    7397 Q0 Q1 Q2 Q3 | Nucleoporin Nup43 | NUP43_HUMAN 1-380 
    7398 R0 R1 R2 R3 | Nuclear pore complex protein Nup160 | NU160_HUMAN 1-1436 
    7399 S0 S1 S2 S3 | Nucleoporin Nup37 | NUP37_HUMAN 1-326 
    7400 T0 T1 | Protein ELYS | ELYS_HUMAN 1-2266 
    7401 U0 U1 U2 U3 U4 U5 U6 | Nuclear pore complex protein Nup98 | NUP98_HUMAN 1-880 
    7402 V0 | Nuclear pore complex protein Nup214 | NU214_HUMAN 1-2090 
    7403 W0 | Nuclear pore complex protein Nup88 | NUP88_HUMAN 1-741 
    7404  
    7405 7r5j mmCIF Assemblies 
    7406 --- 
    7407 1| author_and_software_defined_assembly 
    7408  
    7409 
    7410 > hide #86,88,90-93#!61-64,87,89,94-98 atoms
    7411 
    7412 > show #86,88,90-93#!61-64,87,89,94-98 cartoons
    7413 
    7414 > select #98
    7415 
    7416 617133 atoms, 630097 bonds, 18 pseudobonds, 78030 residues, 2 models selected 
    7417 
    7418 > select clear
    7419 
    7420 > select #98/D5 to #88/D
    7421 
    7422 Expected a keyword 
    7423 
    7424 > mmaker #98/D5 to #88/D
    7425 
    7426 Parameters 
    7427 --- 
    7428 Chain pairing | bb 
    7429 Alignment algorithm | Needleman-Wunsch 
    7430 Similarity matrix | BLOSUM-62 
    7431 SS fraction | 0.3 
    7432 Gap open (HH/SS/other) | 18/18/6 
    7433 Gap extend | 1 
    7434 SS matrix |  |  | H | S | O 
    7435 ---|---|---|--- 
    7436 H | 6 | -9 | -6 
    7437 S |  | 6 | -6 
    7438 O |  |  | 4 
    7439 Iteration cutoff | 2 
    7440  
    7441 Matchmaker hNup155_NRconnector_CTD.pdb.pdb, chain D (#88) with 7r5j, chain D5
    7442 (#98), sequence alignment score = 5505 
    7443 RMSD between 523 pruned atom pairs is 0.001 angstroms; (across all 523 pairs:
    7444 0.001) 
    7445  
    7446 
    7447 > close #98
    7448 
    7449 > close #86,88,90-93#87,89,94-97
    7450 
    7451 > show #59 models
    7452 
    7453 > hide #59 models
    7454 
    7455 > show #55-58 target m
    7456 
    7457 > hide #55-58 target m
    7458 
    7459 > select #61-64/K:70-480
    7460 
    7461 12548 atoms, 12812 bonds, 1640 residues, 4 models selected 
    7462 
    7463 > show sel atoms
    7464 
    7465 > hide sel atoms
    7466 
    7467 > select #61-64/K:70-608
    7468 
    7469 16508 atoms, 16840 bonds, 2152 residues, 4 models selected 
    7470 
    7471 > select #61-64/K:70-508
    7472 
    7473 13344 atoms, 13616 bonds, 1752 residues, 4 models selected 
    7474 
    7475 > select ~sel & ##selected
    7476 
    7477 266683 atoms, 272475 bonds, 8 pseudobonds, 33349 residues, 8 models selected 
    7478 
    7479 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    7480 > models #61-64 selectedOnly true relModel #82
    7481 
    7482 > show #59 models
    7483 
    7484 > hide #59 models
    7485 
    7486 > select clear
    7487 
    7488 > show #55-58 target m
    7489 
    7490 > select #55-58/K:70-508
    7491 
    7492 12588 atoms, 12856 bonds, 1644 residues, 4 models selected 
    7493 
    7494 > show sel atoms
    7495 
    7496 > style sel sphere
    7497 
    7498 Changed 12588 atom styles 
    7499 
    7500 > hide sel atoms
    7501 
    7502 > select ~sel & ##selected
    7503 
    7504 74036 atoms, 75734 bonds, 9364 residues, 4 models selected 
    7505 
    7506 > select #55-58/K:70-480
    7507 
    7508 12588 atoms, 12856 bonds, 1644 residues, 4 models selected 
    7509 
    7510 > show sel atoms
    7511 
    7512 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    7513 > models #55-58 selectedOnly true relModel #82
    7514 
    7515 > hide sel atoms
    7516 
    7517 > select #98
    7518 
    7519 Nothing selected 
    7520 
    7521 > open *pdb
    7522 
    7523 Summary of feedback from opening Nup133_propeller_CRinner.pdb.pdb 
    7524 --- 
    7525 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    7526 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    7527 4 
    7528 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    7529 1 4 
    7530 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    7531 1 7 
    7532 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    7533 1 7 
    7534 120 messages similar to the above omitted 
    7535  
    7536 Summary of feedback from opening Nup133_propeller_CRouter.pdb.pdb 
    7537 --- 
    7538 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    7539 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    7540 4 
    7541 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    7542 1 4 
    7543 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    7544 1 7 
    7545 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    7546 1 7 
    7547 120 messages similar to the above omitted 
    7548  
    7549 Summary of feedback from opening Nup133_propeller_NRinner.pdb.pdb 
    7550 --- 
    7551 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    7552 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    7553 4 
    7554 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    7555 1 4 
    7556 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    7557 1 7 
    7558 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    7559 1 7 
    7560 197 messages similar to the above omitted 
    7561  
    7562 Summary of feedback from opening Nup133_propeller_NRouter.pdb.pdb 
    7563 --- 
    7564 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    7565 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    7566 4 
    7567 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    7568 1 4 
    7569 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    7570 1 7 
    7571 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    7572 1 7 
    7573 197 messages similar to the above omitted 
    7574  
    7575 Summary of feedback from opening Y_CRinner.pdb.pdb 
    7576 --- 
    7577 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    7578 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    7579 136 1 3 
    7580 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    7581 155 1 3 
    7582 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    7583 260 1 11 
    7584 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    7585 272 1 3 
    7586 32 messages similar to the above omitted 
    7587  
    7588 Summary of feedback from opening Y_CRouter.pdb.pdb 
    7589 --- 
    7590 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    7591 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    7592 136 1 3 
    7593 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    7594 155 1 3 
    7595 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    7596 260 1 11 
    7597 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    7598 272 1 3 
    7599 32 messages similar to the above omitted 
    7600  
    7601 Summary of feedback from opening Y_NRinner.pdb.pdb 
    7602 --- 
    7603 warnings | Start residue of secondary structure not found: HELIX 1 1 VAL K 90 THR K 97 1 8 
    7604 Start residue of secondary structure not found: HELIX 2 2 THR K 134 LEU K 136
    7605 1 3 
    7606 Start residue of secondary structure not found: HELIX 3 3 ALA K 153 LEU K 155
    7607 1 3 
    7608 Start residue of secondary structure not found: HELIX 4 4 GLY K 250 SER K 260
    7609 1 11 
    7610 Start residue of secondary structure not found: HELIX 5 5 SER K 270 LEU K 272
    7611 1 3 
    7612 32 messages similar to the above omitted 
    7613  
    7614 Summary of feedback from opening Y_NRouter.pdb.pdb 
    7615 --- 
    7616 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    7617 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    7618 136 1 3 
    7619 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    7620 155 1 3 
    7621 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    7622 260 1 11 
    7623 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    7624 272 1 3 
    7625 32 messages similar to the above omitted 
    7626  
    7627 Summary of feedback from opening hNup155_CRconnector_CTD.pdb.pdb 
    7628 --- 
    7629 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    7630 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    7631 4 
    7632 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    7633 3 
    7634 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    7635 8 
    7636 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    7637 1 3 
    7638 52 messages similar to the above omitted 
    7639  
    7640 Summary of feedback from opening hNup155_CRconnector_NTD.pdb.pdb 
    7641 --- 
    7642 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    7643 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    7644 910 1 21 
    7645 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    7646 923 1 11 
    7647 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    7648 938 1 13 
    7649 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    7650 952 1 8 
    7651 23 messages similar to the above omitted 
    7652  
    7653 Summary of feedback from opening hNup155_NRconnector_CTD.pdb.pdb 
    7654 --- 
    7655 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    7656 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    7657 4 
    7658 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    7659 3 
    7660 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    7661 8 
    7662 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    7663 1 3 
    7664 52 messages similar to the above omitted 
    7665  
    7666 Summary of feedback from opening hNup155_NRconnector_NTD.pdb.pdb 
    7667 --- 
    7668 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    7669 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    7670 910 1 21 
    7671 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    7672 923 1 11 
    7673 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    7674 938 1 13 
    7675 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    7676 952 1 8 
    7677 23 messages similar to the above omitted 
    7678  
    7679 Summary of feedback from opening hNups_IRcyt_inner.pdb.pdb 
    7680 --- 
    7681 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    7682 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    7683 225 1 6 
    7684 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    7685 250 1 4 
    7686 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    7687 179 0 
    7688 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    7689 204 0 
    7690 3 messages similar to the above omitted 
    7691  
    7692 Summary of feedback from opening hNups_IRcyt_outer.pdb.pdb 
    7693 --- 
    7694 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    7695 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    7696 227 1 10 
    7697 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    7698 250 1 5 
    7699 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    7700 179 0 
    7701 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    7702 204 0 
    7703 2 messages similar to the above omitted 
    7704  
    7705 Summary of feedback from opening hNups_IRnuc_inner.pdb.pdb 
    7706 --- 
    7707 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    7708 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    7709 225 1 6 
    7710 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    7711 250 1 5 
    7712 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    7713 179 0 
    7714 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    7715 204 0 
    7716 3 messages similar to the above omitted 
    7717  
    7718 Summary of feedback from opening hNups_IRnuc_outer.pdb.pdb 
    7719 --- 
    7720 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    7721 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    7722 227 1 10 
    7723 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    7724 250 1 5 
    7725 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    7726 179 0 
    7727 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    7728 204 0 
    7729 2 messages similar to the above omitted 
    7730  
    7731 Chain information for Nup133_propeller_CRinner.pdb.pdb #86 
    7732 --- 
    7733 Chain | Description 
    7734 K | No description available 
    7735  
    7736 Chain information for Nup133_propeller_CRouter.pdb.pdb #87 
    7737 --- 
    7738 Chain | Description 
    7739 K | No description available 
    7740  
    7741 Chain information for Nup133_propeller_NRinner.pdb.pdb #88 
    7742 --- 
    7743 Chain | Description 
    7744 K | No description available 
    7745  
    7746 Chain information for Nup133_propeller_NRouter.pdb.pdb #89 
    7747 --- 
    7748 Chain | Description 
    7749 K | No description available 
    7750  
    7751 Chain information for Y_CRinner.pdb.pdb #90 
    7752 --- 
    7753 Chain | Description 
    7754 A | No description available 
    7755 C | No description available 
    7756 K | No description available 
    7757 L | No description available 
    7758 M | No description available 
    7759 N | No description available 
    7760 O | No description available 
    7761 P | No description available 
    7762 Q | No description available 
    7763 R | No description available 
    7764 S | No description available 
    7765  
    7766 Chain information for Y_CRouter.pdb.pdb #91 
    7767 --- 
    7768 Chain | Description 
    7769 A | No description available 
    7770 C | No description available 
    7771 J | No description available 
    7772 K | No description available 
    7773 L | No description available 
    7774 M | No description available 
    7775 N | No description available 
    7776 O | No description available 
    7777 P | No description available 
    7778 Q | No description available 
    7779 R | No description available 
    7780 S | No description available 
    7781 U | No description available 
    7782 V | No description available 
    7783 W | No description available 
    7784  
    7785 Chain information for Y_NRinner.pdb.pdb #92 
    7786 --- 
    7787 Chain | Description 
    7788 K | No description available 
    7789 L | No description available 
    7790 M | No description available 
    7791 N | No description available 
    7792 O | No description available 
    7793 P | No description available 
    7794 Q | No description available 
    7795 R | No description available 
    7796 S | No description available 
    7797 T | No description available 
    7798  
    7799 Chain information for Y_NRouter.pdb.pdb #93 
    7800 --- 
    7801 Chain | Description 
    7802 A | No description available 
    7803 C | No description available 
    7804 K | No description available 
    7805 L | No description available 
    7806 M | No description available 
    7807 N | No description available 
    7808 O | No description available 
    7809 P | No description available 
    7810 Q | No description available 
    7811 R | No description available 
    7812 S | No description available 
    7813 T | No description available 
    7814  
    7815 Chain information for hNup155_CRconnector_CTD.pdb.pdb #94 
    7816 --- 
    7817 Chain | Description 
    7818 D | No description available 
    7819  
    7820 Chain information for hNup155_CRconnector_NTD.pdb.pdb #95 
    7821 --- 
    7822 Chain | Description 
    7823 D | No description available 
    7824  
    7825 Chain information for hNup155_NRconnector_CTD.pdb.pdb #96 
    7826 --- 
    7827 Chain | Description 
    7828 D | No description available 
    7829  
    7830 Chain information for hNup155_NRconnector_NTD.pdb.pdb #97 
    7831 --- 
    7832 Chain | Description 
    7833 D | No description available 
    7834  
    7835 Chain information for hNup53_dimer_IRcyt_innerF7.pdb.pdb #98 
    7836 --- 
    7837 Chain | Description 
    7838 F | No description available 
    7839  
    7840 Chain information for hNup53_dimer_IRcyt_outerG7.pdb.pdb #99 
    7841 --- 
    7842 Chain | Description 
    7843 F | No description available 
    7844  
    7845 Chain information for hNup53_dimer_IRnuc_innerF0.pdb.pdb #100 
    7846 --- 
    7847 Chain | Description 
    7848 F | No description available 
    7849  
    7850 Chain information for hNup53_dimer_IRnuc_outerG0.pdb.pdb #101 
    7851 --- 
    7852 Chain | Description 
    7853 F | No description available 
    7854  
    7855 Chain information for hNups_IRcyt_inner.pdb.pdb #102 
    7856 --- 
    7857 Chain | Description 
    7858 4 | No description available 
    7859 A | No description available 
    7860 C | No description available 
    7861 D | No description available 
    7862 E | No description available 
    7863 F | No description available 
    7864 H | No description available 
    7865 I | No description available 
    7866 J | No description available 
    7867 U | No description available 
    7868  
    7869 Chain information for hNups_IRcyt_outer.pdb.pdb #103 
    7870 --- 
    7871 Chain | Description 
    7872 A | No description available 
    7873 B | No description available 
    7874 D | No description available 
    7875 F | No description available 
    7876 H | No description available 
    7877 I | No description available 
    7878 J | No description available 
    7879 U | No description available 
    7880  
    7881 Chain information for hNups_IRnuc_inner.pdb.pdb #104 
    7882 --- 
    7883 Chain | Description 
    7884 4 | No description available 
    7885 A | No description available 
    7886 C | No description available 
    7887 D | No description available 
    7888 E | No description available 
    7889 F | No description available 
    7890 H | No description available 
    7891 I | No description available 
    7892 J | No description available 
    7893 U | No description available 
    7894  
    7895 Chain information for hNups_IRnuc_outer.pdb.pdb #105 
    7896 --- 
    7897 Chain | Description 
    7898 A | No description available 
    7899 B | No description available 
    7900 D | No description available 
    7901 F | No description available 
    7902 H | No description available 
    7903 I | No description available 
    7904 J | No description available 
    7905 U | No description available 
    7906  
    7907 
    7908 > hide #55-58,86-89,94,96,98-101#!61-64,90-93,95,97,102-105 atoms
    7909 
    7910 > show #55-58,86-89,94,96,98-101#!61-64,90-93,95,97,102-105 cartoons
    7911 
    7912 > hide #55-58 target m
    7913 
    7914 > hide #!61-64 target m
    7915 
    7916 > show #15-19 target m
    7917 
    7918 > hide #15-19 target m
    7919 
    7920 > close #86-89,94,96,98-101#90-93,95,97,102-105
    7921 
    7922 > show #69-73 target m
    7923 
    7924 > show #!61 models
    7925 
    7926 > show #!62 models
    7927 
    7928 > open 7R5J
    7929 
    7930 7r5j title: 
    7931 Human nuclear pore complex (dilated) [more info...] 
    7932  
    7933 Chain information for 7r5j #86 
    7934 --- 
    7935 Chain | Description | UniProt 
    7936 00 01 02 03 04 | E3 SUMO-protein ligase RanBP2 | RBP2_HUMAN 1-3224 
    7937 10 11 12 13 14 15 16 17 | Nuclear pore membrane glycoprotein 210 | PO210_HUMAN 1-1887 
    7938 40 41 | Aladin | AAAS_HUMAN 1-546 
    7939 A0 A1 A2 A3 A4 A5 A6 | Nuclear pore complex protein Nup93 | NUP93_HUMAN 1-819 
    7940 B0 B1 | Nucleoporin NUP188 homolog | NU188_HUMAN 1-1749 
    7941 C0 C1 C2 C3 C4 | Nuclear pore complex protein Nup205 | NU205_HUMAN 1-2012 
    7942 D0 D1 D2 D3 D4 D5 | Nuclear pore complex protein Nup155 | NU155_HUMAN 1-1391 
    7943 E0 E1 | Nucleoporin NDC1 | NDC1_HUMAN 1-674 
    7944 F0 F1 F2 F3 | Nucleoporin NUP35 | NUP35_HUMAN 1-326 
    7945 H0 H1 H2 H3 | Nucleoporin p54 | NUP54_HUMAN 1-507 
    7946 I0 I1 I2 I3 | Nucleoporin p58/p45 | NUP58_HUMAN 1-599 
    7947 J0 J1 J2 J3 J4 | Nuclear pore glycoprotein p62 | NUP62_HUMAN 1-522 
    7948 K0 K1 K2 K3 | Nuclear pore complex protein Nup133 | NU133_HUMAN 1-1156 
    7949 L0 L1 L2 L3 | Nuclear pore complex protein Nup107 | NU107_HUMAN 1-925 
    7950 M0 M1 M2 M3 | Nuclear pore complex protein Nup96 | NUP98_HUMAN 1-937 
    7951 N0 N1 N2 N3 | Protein SEC13 homolog | SEC13_HUMAN 1-322 
    7952 O0 O1 O2 O3 | Nucleoporin SEH1 | SEH1_HUMAN 1-360 
    7953 P0 P1 P2 P3 | Nuclear pore complex protein Nup85 | NUP85_HUMAN 1-656 
    7954 Q0 Q1 Q2 Q3 | Nucleoporin Nup43 | NUP43_HUMAN 1-380 
    7955 R0 R1 R2 R3 | Nuclear pore complex protein Nup160 | NU160_HUMAN 1-1436 
    7956 S0 S1 S2 S3 | Nucleoporin Nup37 | NUP37_HUMAN 1-326 
    7957 T0 T1 | Protein ELYS | ELYS_HUMAN 1-2266 
    7958 U0 U1 U2 U3 U4 U5 U6 | Nuclear pore complex protein Nup98 | NUP98_HUMAN 1-880 
    7959 V0 | Nuclear pore complex protein Nup214 | NU214_HUMAN 1-2090 
    7960 W0 | Nuclear pore complex protein Nup88 | NUP88_HUMAN 1-741 
    7961  
    7962 7r5j mmCIF Assemblies 
    7963 --- 
    7964 1| author_and_software_defined_assembly 
    7965  
    7966 
    7967 > select clear
    7968 
    7969 > hide #69-73#!61-62,86 atoms
    7970 
    7971 > show #69-73#!61-62,86 cartoons
    7972 
    7973 > close #86
    7974 
    7975 > open /Users/kosinski/Downloads/Nup93_Nup358_renamed.pdb
    7976 
    7977 [Repeated 2 time(s)] Chain information for Nup93_Nup358_renamed.pdb #86 
    7978 --- 
    7979 Chain | Description 
    7980 02 | No description available 
    7981 A | No description available 
    7982  
    7983 
    7984 > mmaker #85/O2
    7985 
    7986 > matchmaker #85/O2
    7987 
    7988 Missing required "to" argument 
    7989 
    7990 > mmaker #85/02 to #730
    7991 
    7992 No 'to' model specified 
    7993 
    7994 > mmaker #85/02 to #73/0
    7995 
    7996 No molecules/chains to match specified 
    7997 
    7998 > mmaker #86/02 to #73/0
    7999 
    8000 Parameters 
    8001 --- 
    8002 Chain pairing | bb 
    8003 Alignment algorithm | Needleman-Wunsch 
    8004 Similarity matrix | BLOSUM-62 
    8005 SS fraction | 0.3 
    8006 Gap open (HH/SS/other) | 18/18/6 
    8007 Gap extend | 1 
    8008 SS matrix |  |  | H | S | O 
    8009 ---|---|---|--- 
    8010 H | 6 | -9 | -6 
    8011 S |  | 6 | -6 
    8012 O |  |  | 4 
    8013 Iteration cutoff | 2 
    8014  
    8015 Matchmaker hNup358_CRmiddle.pdb, chain 0 (#73) with Nup93_Nup358_renamed.pdb,
    8016 chain 02 (#86), sequence alignment score = 3961.3 
    8017 RMSD between 592 pruned atom pairs is 0.212 angstroms; (across all 756 pairs:
    8018 3.437) 
    8019  
    8020 
    8021 > hide #!85 models
    8022 
    8023 > show #!85 models
    8024 
    8025 > hide #86 models
    8026 
    8027 > show #86 models
    8028 
    8029 > hide #86 models
    8030 
    8031 > show #86 models
    8032 
    8033 > hide #86 models
    8034 
    8035 > show #86 models
    8036 
    8037 > mmaker #86/02 to #71/0
    8038 
    8039 Parameters 
    8040 --- 
    8041 Chain pairing | bb 
    8042 Alignment algorithm | Needleman-Wunsch 
    8043 Similarity matrix | BLOSUM-62 
    8044 SS fraction | 0.3 
    8045 Gap open (HH/SS/other) | 18/18/6 
    8046 Gap extend | 1 
    8047 SS matrix |  |  | H | S | O 
    8048 ---|---|---|--- 
    8049 H | 6 | -9 | -6 
    8050 S |  | 6 | -6 
    8051 O |  |  | 4 
    8052 Iteration cutoff | 2 
    8053  
    8054 Matchmaker hNup358_2_CRinner.pdb, chain 0 (#71) with Nup93_Nup358_renamed.pdb,
    8055 chain 02 (#86), sequence alignment score = 3984.1 
    8056 RMSD between 756 pruned atom pairs is 0.009 angstroms; (across all 756 pairs:
    8057 0.009) 
    8058  
    8059 
    8060 > hide #73 models
    8061 
    8062 > show #73 models
    8063 
    8064 > hide #!62 models
    8065 
    8066 > hide #!61 models
    8067 
    8068 > hide #73 models
    8069 
    8070 > hide #72 models
    8071 
    8072 > hide #71 models
    8073 
    8074 > hide #70 models
    8075 
    8076 > hide #69 models
    8077 
    8078 > show #69 models
    8079 
    8080 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies.cxs
    8081 > includeMaps true
    8082 
    8083 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    8084 > models #69-73 relModel #82
    8085 
    8086 > hide #69 models
    8087 
    8088 > show #69 models
    8089 
    8090 > hide #69 models
    8091 
    8092 > select #86/A
    8093 
    8094 5241 atoms, 5343 bonds, 650 residues, 1 model selected 
    8095 
    8096 > save
    8097 > /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNup93_CR_outer.pdb
    8098 > models #86 selectedOnly true relModel #82
    8099 
    8100 > hide #86 models
    8101 
    8102 > show #!62 models
    8103 
    8104 > hide #!85 models
    8105 
    8106 > select #62/K:70-508/A:150-10000
    8107 
    8108 8728 atoms, 8901 bonds, 1108 residues, 1 model selected 
    8109 
    8110 > select ~sel & ##selected
    8111 
    8112 70793 atoms, 72314 bonds, 2 pseudobonds, 8853 residues, 2 models selected 
    8113 
    8114 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    8115 > models #62 selectedOnly true relModel #82
    8116 
    8117 > open *pdb
    8118 
    8119 Summary of feedback from opening Nup133_propeller_CRinner.pdb.pdb 
    8120 --- 
    8121 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8122 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8123 4 
    8124 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8125 1 4 
    8126 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8127 1 7 
    8128 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8129 1 7 
    8130 120 messages similar to the above omitted 
    8131  
    8132 Summary of feedback from opening Nup133_propeller_CRouter.pdb.pdb 
    8133 --- 
    8134 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8135 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8136 4 
    8137 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8138 1 4 
    8139 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8140 1 7 
    8141 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8142 1 7 
    8143 120 messages similar to the above omitted 
    8144  
    8145 Summary of feedback from opening Nup133_propeller_NRinner.pdb.pdb 
    8146 --- 
    8147 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8148 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8149 4 
    8150 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8151 1 4 
    8152 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8153 1 7 
    8154 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8155 1 7 
    8156 197 messages similar to the above omitted 
    8157  
    8158 Summary of feedback from opening Nup133_propeller_NRouter.pdb.pdb 
    8159 --- 
    8160 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8161 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8162 4 
    8163 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8164 1 4 
    8165 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8166 1 7 
    8167 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8168 1 7 
    8169 197 messages similar to the above omitted 
    8170  
    8171 Summary of feedback from opening Y_CRinner.pdb.pdb 
    8172 --- 
    8173 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    8174 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    8175 136 1 3 
    8176 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    8177 155 1 3 
    8178 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    8179 260 1 11 
    8180 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    8181 272 1 3 
    8182 32 messages similar to the above omitted 
    8183  
    8184 Summary of feedback from opening Y_CRouter.pdb.pdb 
    8185 --- 
    8186 warnings | Start residue of secondary structure not found: HELIX 2 2 ASN A 180 VAL A 197 1 18 
    8187 Start residue of secondary structure not found: HELIX 3 3 LEU A 205 VAL A 212
    8188 1 8 
    8189 Start residue of secondary structure not found: HELIX 4 4 LYS A 218 THR A 231
    8190 1 14 
    8191 Start residue of secondary structure not found: HELIX 5 5 ALA A 241 SER A 246
    8192 1 6 
    8193 Start residue of secondary structure not found: HELIX 6 6 VAL A 248 ALA A 281
    8194 1 34 
    8195 64 messages similar to the above omitted 
    8196  
    8197 Summary of feedback from opening Y_NRinner.pdb.pdb 
    8198 --- 
    8199 warnings | Start residue of secondary structure not found: HELIX 1 1 VAL K 90 THR K 97 1 8 
    8200 Start residue of secondary structure not found: HELIX 2 2 THR K 134 LEU K 136
    8201 1 3 
    8202 Start residue of secondary structure not found: HELIX 3 3 ALA K 153 LEU K 155
    8203 1 3 
    8204 Start residue of secondary structure not found: HELIX 4 4 GLY K 250 SER K 260
    8205 1 11 
    8206 Start residue of secondary structure not found: HELIX 5 5 SER K 270 LEU K 272
    8207 1 3 
    8208 32 messages similar to the above omitted 
    8209  
    8210 Summary of feedback from opening Y_NRouter.pdb.pdb 
    8211 --- 
    8212 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    8213 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    8214 136 1 3 
    8215 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    8216 155 1 3 
    8217 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    8218 260 1 11 
    8219 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    8220 272 1 3 
    8221 32 messages similar to the above omitted 
    8222  
    8223 Summary of feedback from opening hNup155_CRconnector_CTD.pdb.pdb 
    8224 --- 
    8225 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    8226 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    8227 4 
    8228 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    8229 3 
    8230 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    8231 8 
    8232 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    8233 1 3 
    8234 52 messages similar to the above omitted 
    8235  
    8236 Summary of feedback from opening hNup155_CRconnector_NTD.pdb.pdb 
    8237 --- 
    8238 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    8239 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    8240 910 1 21 
    8241 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    8242 923 1 11 
    8243 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    8244 938 1 13 
    8245 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    8246 952 1 8 
    8247 23 messages similar to the above omitted 
    8248  
    8249 Summary of feedback from opening hNup155_NRconnector_CTD.pdb.pdb 
    8250 --- 
    8251 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    8252 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    8253 4 
    8254 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    8255 3 
    8256 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    8257 8 
    8258 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    8259 1 3 
    8260 52 messages similar to the above omitted 
    8261  
    8262 Summary of feedback from opening hNup155_NRconnector_NTD.pdb.pdb 
    8263 --- 
    8264 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    8265 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    8266 910 1 21 
    8267 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    8268 923 1 11 
    8269 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    8270 938 1 13 
    8271 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    8272 952 1 8 
    8273 23 messages similar to the above omitted 
    8274  
    8275 Summary of feedback from opening hNup93_CR_outer.pdb 
    8276 --- 
    8277 warnings | Start residue of secondary structure not found: HELIX 1 1 LYS02 5 GLY02 17 1 13 
    8278 Start residue of secondary structure not found: HELIX 2 2 PRO02 22 LYS02 25 1
    8279 4 
    8280 Start residue of secondary structure not found: HELIX 3 3 SER02 26 LYS02 28 1
    8281 3 
    8282 Start residue of secondary structure not found: HELIX 4 4 GLY02 29 TYR02 36 1
    8283 8 
    8284 Start residue of secondary structure not found: HELIX 5 5 TYR02 37 ALA02 39 1
    8285 3 
    8286 46 messages similar to the above omitted 
    8287  
    8288 Summary of feedback from opening hNups_IRcyt_inner.pdb.pdb 
    8289 --- 
    8290 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    8291 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    8292 225 1 6 
    8293 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    8294 250 1 4 
    8295 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    8296 179 0 
    8297 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    8298 204 0 
    8299 3 messages similar to the above omitted 
    8300  
    8301 Summary of feedback from opening hNups_IRcyt_outer.pdb.pdb 
    8302 --- 
    8303 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    8304 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    8305 227 1 10 
    8306 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    8307 250 1 5 
    8308 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    8309 179 0 
    8310 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    8311 204 0 
    8312 2 messages similar to the above omitted 
    8313  
    8314 Summary of feedback from opening hNups_IRnuc_inner.pdb.pdb 
    8315 --- 
    8316 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    8317 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    8318 225 1 6 
    8319 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    8320 250 1 5 
    8321 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    8322 179 0 
    8323 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    8324 204 0 
    8325 3 messages similar to the above omitted 
    8326  
    8327 Summary of feedback from opening hNups_IRnuc_outer.pdb.pdb 
    8328 --- 
    8329 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    8330 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    8331 227 1 10 
    8332 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    8333 250 1 5 
    8334 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    8335 179 0 
    8336 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    8337 204 0 
    8338 2 messages similar to the above omitted 
    8339  
    8340 Chain information for Nup133_propeller_CRinner.pdb.pdb #87 
    8341 --- 
    8342 Chain | Description 
    8343 K | No description available 
    8344  
    8345 Chain information for Nup133_propeller_CRouter.pdb.pdb #88 
    8346 --- 
    8347 Chain | Description 
    8348 K | No description available 
    8349  
    8350 Chain information for Nup133_propeller_NRinner.pdb.pdb #89 
    8351 --- 
    8352 Chain | Description 
    8353 K | No description available 
    8354  
    8355 Chain information for Nup133_propeller_NRouter.pdb.pdb #90 
    8356 --- 
    8357 Chain | Description 
    8358 K | No description available 
    8359  
    8360 Chain information for Y_CRinner.pdb.pdb #91 
    8361 --- 
    8362 Chain | Description 
    8363 A | No description available 
    8364 C | No description available 
    8365 K | No description available 
    8366 L | No description available 
    8367 M | No description available 
    8368 N | No description available 
    8369 O | No description available 
    8370 P | No description available 
    8371 Q | No description available 
    8372 R | No description available 
    8373 S | No description available 
    8374  
    8375 Chain information for Y_CRouter.pdb.pdb #92 
    8376 --- 
    8377 Chain | Description 
    8378 A | No description available 
    8379 C | No description available 
    8380 J | No description available 
    8381 K | No description available 
    8382 L | No description available 
    8383 M | No description available 
    8384 N | No description available 
    8385 O | No description available 
    8386 P | No description available 
    8387 Q | No description available 
    8388 R | No description available 
    8389 S | No description available 
    8390 U | No description available 
    8391 V | No description available 
    8392 W | No description available 
    8393  
    8394 Chain information for Y_NRinner.pdb.pdb #93 
    8395 --- 
    8396 Chain | Description 
    8397 K | No description available 
    8398 L | No description available 
    8399 M | No description available 
    8400 N | No description available 
    8401 O | No description available 
    8402 P | No description available 
    8403 Q | No description available 
    8404 R | No description available 
    8405 S | No description available 
    8406 T | No description available 
    8407  
    8408 Chain information for Y_NRouter.pdb.pdb #94 
    8409 --- 
    8410 Chain | Description 
    8411 A | No description available 
    8412 C | No description available 
    8413 K | No description available 
    8414 L | No description available 
    8415 M | No description available 
    8416 N | No description available 
    8417 O | No description available 
    8418 P | No description available 
    8419 Q | No description available 
    8420 R | No description available 
    8421 S | No description available 
    8422 T | No description available 
    8423  
    8424 Chain information for hNup155_CRconnector_CTD.pdb.pdb #95 
    8425 --- 
    8426 Chain | Description 
    8427 D | No description available 
    8428  
    8429 Chain information for hNup155_CRconnector_NTD.pdb.pdb #96 
    8430 --- 
    8431 Chain | Description 
    8432 D | No description available 
    8433  
    8434 Chain information for hNup155_NRconnector_CTD.pdb.pdb #97 
    8435 --- 
    8436 Chain | Description 
    8437 D | No description available 
    8438  
    8439 Chain information for hNup155_NRconnector_NTD.pdb.pdb #98 
    8440 --- 
    8441 Chain | Description 
    8442 D | No description available 
    8443  
    8444 Chain information for hNup358_1_CRinner.pdb.pdb #99 
    8445 --- 
    8446 Chain | Description 
    8447 0 | No description available 
    8448  
    8449 Chain information for hNup358_1_CRouter.pdb.pdb #100 
    8450 --- 
    8451 Chain | Description 
    8452 0 | No description available 
    8453  
    8454 Chain information for hNup358_2_CRinner.pdb.pdb #101 
    8455 --- 
    8456 Chain | Description 
    8457 0 | No description available 
    8458  
    8459 Chain information for hNup358_2_CRouter.pdb.pdb #102 
    8460 --- 
    8461 Chain | Description 
    8462 0 | No description available 
    8463  
    8464 Chain information for hNup358_CRmiddle.pdb.pdb #103 
    8465 --- 
    8466 Chain | Description 
    8467 0 | No description available 
    8468  
    8469 Chain information for hNup53_dimer_IRcyt_innerF7.pdb.pdb #104 
    8470 --- 
    8471 Chain | Description 
    8472 F | No description available 
    8473  
    8474 Chain information for hNup53_dimer_IRcyt_outerG7.pdb.pdb #105 
    8475 --- 
    8476 Chain | Description 
    8477 F | No description available 
    8478  
    8479 Chain information for hNup53_dimer_IRnuc_innerF0.pdb.pdb #106 
    8480 --- 
    8481 Chain | Description 
    8482 F | No description available 
    8483  
    8484 Chain information for hNup53_dimer_IRnuc_outerG0.pdb.pdb #107 
    8485 --- 
    8486 Chain | Description 
    8487 F | No description available 
    8488  
    8489 Chain information for hNup93_CR_outer.pdb #108 
    8490 --- 
    8491 Chain | Description 
    8492 A | No description available 
    8493  
    8494 Chain information for hNups_IRcyt_inner.pdb.pdb #109 
    8495 --- 
    8496 Chain | Description 
    8497 4 | No description available 
    8498 A | No description available 
    8499 C | No description available 
    8500 D | No description available 
    8501 E | No description available 
    8502 F | No description available 
    8503 H | No description available 
    8504 I | No description available 
    8505 J | No description available 
    8506 U | No description available 
    8507  
    8508 Chain information for hNups_IRcyt_outer.pdb.pdb #110 
    8509 --- 
    8510 Chain | Description 
    8511 A | No description available 
    8512 B | No description available 
    8513 D | No description available 
    8514 F | No description available 
    8515 H | No description available 
    8516 I | No description available 
    8517 J | No description available 
    8518 U | No description available 
    8519  
    8520 Chain information for hNups_IRnuc_inner.pdb.pdb #111 
    8521 --- 
    8522 Chain | Description 
    8523 4 | No description available 
    8524 A | No description available 
    8525 C | No description available 
    8526 D | No description available 
    8527 E | No description available 
    8528 F | No description available 
    8529 H | No description available 
    8530 I | No description available 
    8531 J | No description available 
    8532 U | No description available 
    8533  
    8534 Chain information for hNups_IRnuc_outer.pdb.pdb #112 
    8535 --- 
    8536 Chain | Description 
    8537 A | No description available 
    8538 B | No description available 
    8539 D | No description available 
    8540 F | No description available 
    8541 H | No description available 
    8542 I | No description available 
    8543 J | No description available 
    8544 U | No description available 
    8545  
    8546 
    8547 > hide sel atoms
    8548 
    8549 > select clear
    8550 
    8551 > hide #87-90,95,97,99-108#!62,91-94,96,98,109-112 atoms
    8552 
    8553 > show #87-90,95,97,99-108#!62,91-94,96,98,109-112 cartoons
    8554 
    8555 > hide #!62 models
    8556 
    8557 > hide #!50 models
    8558 
    8559 > show #!85 models
    8560 
    8561 > color /A* #FF004A
    8562 
    8563 > color /0* #104a8e
    8564 
    8565 > color /L* #FF8853
    8566 
    8567 > color /P* #FF5851
    8568 
    8569 > color /R* #45f248
    8570 
    8571 > color /M* #533c8c
    8572 
    8573 > color /B* #5F84A2
    8574 
    8575 > color /C* #1b3e5c
    8576 
    8577 > color /R* #1b6970
    8578 
    8579 > color /T* #8df245
    8580 
    8581 > color /N* #8df245
    8582 
    8583 > color /O* #104a8e
    8584 
    8585 > color /Q* cyan
    8586 
    8587 > color /D* #ff8c69
    8588 
    8589 > color /F* #b4e400
    8590 
    8591 > color /I* #195d6b
    8592 
    8593 > color /J* #aeff00
    8594 
    8595 > color /D* #FA8072
    8596 
    8597 > color /F* #8df245
    8598 
    8599 > color /4* #45f248
    8600 
    8601 > color /K* purple
    8602 
    8603 > color /E* #159493
    8604 
    8605 > color /H* #00C9CA
    8606 
    8607 > color /W* #1d5a8f
    8608 
    8609 > color /U* magenta
    8610 
    8611 > color /V #00d948
    8612 
    8613 > color /1* #002a45
    8614 
    8615 > color /W* #1787e8
    8616 
    8617 > color /D* #FA8072
    8618 
    8619 > color /F* #b4e400
    8620 
    8621 > color /S* magenta
    8622 
    8623 > color /O* #FFE800
    8624 
    8625 > color /U* magenta
    8626 
    8627 > close #87-90,95,97,99-108#91-94,96,98,109-112
    8628 
    8629 > open /Users/kosinski/Downloads/Nup93_Nup107_NR.pdb
    8630 
    8631 Summary of feedback from opening /Users/kosinski/Downloads/Nup93_Nup107_NR.pdb 
    8632 --- 
    8633 warnings | Start residue of secondary structure not found: HELIX 1 1 LYS00 5 GLY00 17 1 13 
    8634 Start residue of secondary structure not found: HELIX 2 2 PRO00 22 LYS00 25 1
    8635 4 
    8636 Start residue of secondary structure not found: HELIX 3 3 SER00 26 LYS00 28 1
    8637 3 
    8638 Start residue of secondary structure not found: HELIX 4 4 GLY00 29 TYR00 36 1
    8639 8 
    8640 Start residue of secondary structure not found: HELIX 5 5 TYR00 37 ALA00 39 1
    8641 3 
    8642 11957 messages similar to the above omitted 
    8643  
    8644 Chain information for Nup93_Nup107_NR.pdb 
    8645 --- 
    8646 Chain | Description 
    8647 87.2/A6 | No description available 
    8648 87.1/L3 | No description available 
    8649  
    8650 
    8651 > show #!64 models
    8652 
    8653 > close #87
    8654 
    8655 > open /Users/kosinski/Downloads/Nup93_Nup107_NR_renamed.pdb
    8656 
    8657 Chain information for Nup93_Nup107_NR_renamed.pdb #87 
    8658 --- 
    8659 Chain | Description 
    8660 A | No description available 
    8661 L | No description available 
    8662  
    8663 
    8664 > mmaker #87/L to #64/L
    8665 
    8666 Parameters 
    8667 --- 
    8668 Chain pairing | bb 
    8669 Alignment algorithm | Needleman-Wunsch 
    8670 Similarity matrix | BLOSUM-62 
    8671 SS fraction | 0.3 
    8672 Gap open (HH/SS/other) | 18/18/6 
    8673 Gap extend | 1 
    8674 SS matrix |  |  | H | S | O 
    8675 ---|---|---|--- 
    8676 H | 6 | -9 | -6 
    8677 S |  | 6 | -6 
    8678 O |  |  | 4 
    8679 Iteration cutoff | 2 
    8680  
    8681 Matchmaker Y_NRouter.pdb, chain L (#64) with Nup93_Nup107_NR_renamed.pdb,
    8682 chain L (#87), sequence alignment score = 4110.4 
    8683 RMSD between 782 pruned atom pairs is 0.001 angstroms; (across all 782 pairs:
    8684 0.001) 
    8685  
    8686 
    8687 > volume #85 level 0.09642
    8688 
    8689 > show #!61-64 target m
    8690 
    8691 > hide #87 models
    8692 
    8693 > show #87 models
    8694 
    8695 > save
    8696 > /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNup93_NR_outer.pdb
    8697 > models #87 relModel #82
    8698 
    8699 > select #87/A
    8700 
    8701 5860 atoms, 5972 bonds, 726 residues, 1 model selected 
    8702 
    8703 > select #86/A
    8704 
    8705 5241 atoms, 5343 bonds, 650 residues, 1 model selected 
    8706 
    8707 > save
    8708 > /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNup93_CR_outer.pdb
    8709 > models #86 selectedOnly true relModel #82
    8710 
    8711 > select #87/A
    8712 
    8713 5860 atoms, 5972 bonds, 726 residues, 1 model selected 
    8714 
    8715 > save
    8716 > /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNup93_NR_outer.pdb
    8717 > models #87 selectedOnly true relModel #82
    8718 
    8719 > select #64/K:70-508/A:150-10000
    8720 
    8721 8728 atoms, 8901 bonds, 1108 residues, 1 model selected 
    8722 
    8723 > show sel atoms
    8724 
    8725 > hide sel atoms
    8726 
    8727 > select ~sel & ##selected
    8728 
    8729 68052 atoms, 69539 bonds, 2 pseudobonds, 8519 residues, 2 models selected 
    8730 
    8731 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/[NAME].pdb
    8732 > models #64 selectedOnly true relModel #82
    8733 
    8734 > select clear
    8735 
    8736 > color /A* #FF004A
    8737 
    8738 > color /0* #104a8e
    8739 
    8740 > color /L* #FF8853
    8741 
    8742 > color /P* #FF5851
    8743 
    8744 > color /R* #45f248
    8745 
    8746 > color /M* #533c8c
    8747 
    8748 > color /B* #5F84A2
    8749 
    8750 > color /C* #1b3e5c
    8751 
    8752 > color /R* #1b6970
    8753 
    8754 > color /T* #8df245
    8755 
    8756 > color /N* #8df245
    8757 
    8758 > color /O* #104a8e
    8759 
    8760 > color /Q* cyan
    8761 
    8762 > color /D* #ff8c69
    8763 
    8764 > color /F* #b4e400
    8765 
    8766 > color /I* #195d6b
    8767 
    8768 > color /J* #aeff00
    8769 
    8770 > color /D* #FA8072
    8771 
    8772 > color /F* #8df245
    8773 
    8774 > color /4* #45f248
    8775 
    8776 > color /K* purple
    8777 
    8778 > color /E* #159493
    8779 
    8780 > color /H* #00C9CA
    8781 
    8782 > color /W* #1d5a8f
    8783 
    8784 > color /U* magenta
    8785 
    8786 > color /V #00d948
    8787 
    8788 > color /1* #002a45
    8789 
    8790 > color /W* #1787e8
    8791 
    8792 > color /D* #FA8072
    8793 
    8794 > color /F* #b4e400
    8795 
    8796 > color /S* magenta
    8797 
    8798 > color /O* #FFE800
    8799 
    8800 > color /U* magenta
    8801 
    8802 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies.cxs
    8803 > includeMaps true
    8804 
    8805 ——— End of log from Sat Nov 16 19:30:18 2024 ———
    8806 
    8807 opened ChimeraX session 
    8808 
    8809 > close #87
    8810 
    8811 > open /Users/kosinski/Downloads/Nup93_Nup107_NR_renamed.pdb
    8812 
    8813 Chain information for Nup93_Nup107_NR_renamed.pdb #87 
    8814 --- 
    8815 Chain | Description 
    8816 A | No description available 
    8817 L | No description available 
    8818  
    8819 
    8820 > mmaker #87/L to #64/L
    8821 
    8822 Parameters 
    8823 --- 
    8824 Chain pairing | bb 
    8825 Alignment algorithm | Needleman-Wunsch 
    8826 Similarity matrix | BLOSUM-62 
    8827 SS fraction | 0.3 
    8828 Gap open (HH/SS/other) | 18/18/6 
    8829 Gap extend | 1 
    8830 SS matrix |  |  | H | S | O 
    8831 ---|---|---|--- 
    8832 H | 6 | -9 | -6 
    8833 S |  | 6 | -6 
    8834 O |  |  | 4 
    8835 Iteration cutoff | 2 
    8836  
    8837 Matchmaker Y_NRouter.pdb, chain L (#64) with Nup93_Nup107_NR_renamed.pdb,
    8838 chain L (#87), sequence alignment score = 4110.4 
    8839 RMSD between 782 pruned atom pairs is 0.001 angstroms; (across all 782 pairs:
    8840 0.001) 
    8841  
    8842 
    8843 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies.cxs
    8844 
    8845 > select #87/A
    8846 
    8847 5241 atoms, 5343 bonds, 650 residues, 1 model selected 
    8848 
    8849 > save
    8850 > /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies/hNup93_NR_outer.pdb
    8851 > models #87 selectedOnly true relModel #82
    8852 
    8853 > open *pdb
    8854 
    8855 '*pdb' has no suffix 
    8856 
    8857 > cd /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies
    8858 
    8859 Current working directory is:
    8860 /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies 
    8861 
    8862 > open *pdb
    8863 
    8864 Summary of feedback from opening Nup133_propeller_CRinner.pdb.pdb 
    8865 --- 
    8866 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8867 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8868 4 
    8869 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8870 1 4 
    8871 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8872 1 7 
    8873 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8874 1 7 
    8875 120 messages similar to the above omitted 
    8876  
    8877 Summary of feedback from opening Nup133_propeller_CRouter.pdb.pdb 
    8878 --- 
    8879 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8880 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8881 4 
    8882 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8883 1 4 
    8884 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8885 1 7 
    8886 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8887 1 7 
    8888 120 messages similar to the above omitted 
    8889  
    8890 Summary of feedback from opening Nup133_propeller_NRinner.pdb.pdb 
    8891 --- 
    8892 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8893 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8894 4 
    8895 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8896 1 4 
    8897 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8898 1 7 
    8899 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8900 1 7 
    8901 197 messages similar to the above omitted 
    8902  
    8903 Summary of feedback from opening Nup133_propeller_NRouter.pdb.pdb 
    8904 --- 
    8905 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    8906 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    8907 4 
    8908 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    8909 1 4 
    8910 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    8911 1 7 
    8912 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    8913 1 7 
    8914 197 messages similar to the above omitted 
    8915  
    8916 Summary of feedback from opening Y_CRinner.pdb.pdb 
    8917 --- 
    8918 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    8919 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    8920 136 1 3 
    8921 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    8922 155 1 3 
    8923 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    8924 260 1 11 
    8925 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    8926 272 1 3 
    8927 32 messages similar to the above omitted 
    8928  
    8929 Summary of feedback from opening Y_CRouter.pdb.pdb 
    8930 --- 
    8931 warnings | Start residue of secondary structure not found: HELIX 2 2 ASN A 180 VAL A 197 1 18 
    8932 Start residue of secondary structure not found: HELIX 3 3 LEU A 205 VAL A 212
    8933 1 8 
    8934 Start residue of secondary structure not found: HELIX 4 4 LYS A 218 THR A 231
    8935 1 14 
    8936 Start residue of secondary structure not found: HELIX 5 5 ALA A 241 SER A 246
    8937 1 6 
    8938 Start residue of secondary structure not found: HELIX 6 6 VAL A 248 ALA A 281
    8939 1 34 
    8940 64 messages similar to the above omitted 
    8941  
    8942 Summary of feedback from opening Y_NRinner.pdb.pdb 
    8943 --- 
    8944 warnings | Start residue of secondary structure not found: HELIX 1 1 VAL K 90 THR K 97 1 8 
    8945 Start residue of secondary structure not found: HELIX 2 2 THR K 134 LEU K 136
    8946 1 3 
    8947 Start residue of secondary structure not found: HELIX 3 3 ALA K 153 LEU K 155
    8948 1 3 
    8949 Start residue of secondary structure not found: HELIX 4 4 GLY K 250 SER K 260
    8950 1 11 
    8951 Start residue of secondary structure not found: HELIX 5 5 SER K 270 LEU K 272
    8952 1 3 
    8953 32 messages similar to the above omitted 
    8954  
    8955 Summary of feedback from opening Y_NRouter.pdb.pdb 
    8956 --- 
    8957 warnings | Start residue of secondary structure not found: HELIX 2 2 ASN A 180 VAL A 197 1 18 
    8958 Start residue of secondary structure not found: HELIX 3 3 LEU A 205 VAL A 212
    8959 1 8 
    8960 Start residue of secondary structure not found: HELIX 4 4 LYS A 218 THR A 231
    8961 1 14 
    8962 Start residue of secondary structure not found: HELIX 5 5 ALA A 241 SER A 246
    8963 1 6 
    8964 Start residue of secondary structure not found: HELIX 6 6 VAL A 248 ALA A 281
    8965 1 34 
    8966 64 messages similar to the above omitted 
    8967  
    8968 Summary of feedback from opening hNup155_CRconnector_CTD.pdb.pdb 
    8969 --- 
    8970 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    8971 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    8972 4 
    8973 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    8974 3 
    8975 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    8976 8 
    8977 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    8978 1 3 
    8979 52 messages similar to the above omitted 
    8980  
    8981 Summary of feedback from opening hNup155_CRconnector_NTD.pdb.pdb 
    8982 --- 
    8983 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    8984 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    8985 910 1 21 
    8986 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    8987 923 1 11 
    8988 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    8989 938 1 13 
    8990 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    8991 952 1 8 
    8992 23 messages similar to the above omitted 
    8993  
    8994 Summary of feedback from opening hNup155_NRconnector_CTD.pdb.pdb 
    8995 --- 
    8996 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    8997 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    8998 4 
    8999 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    9000 3 
    9001 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    9002 8 
    9003 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    9004 1 3 
    9005 52 messages similar to the above omitted 
    9006  
    9007 Summary of feedback from opening hNup155_NRconnector_NTD.pdb.pdb 
    9008 --- 
    9009 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    9010 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    9011 910 1 21 
    9012 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    9013 923 1 11 
    9014 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    9015 938 1 13 
    9016 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    9017 952 1 8 
    9018 23 messages similar to the above omitted 
    9019  
    9020 Summary of feedback from opening hNup93_CR_outer.pdb 
    9021 --- 
    9022 warnings | Start residue of secondary structure not found: HELIX 1 1 LYS02 5 GLY02 17 1 13 
    9023 Start residue of secondary structure not found: HELIX 2 2 PRO02 22 LYS02 25 1
    9024 4 
    9025 Start residue of secondary structure not found: HELIX 3 3 SER02 26 LYS02 28 1
    9026 3 
    9027 Start residue of secondary structure not found: HELIX 4 4 GLY02 29 TYR02 36 1
    9028 8 
    9029 Start residue of secondary structure not found: HELIX 5 5 TYR02 37 ALA02 39 1
    9030 3 
    9031 46 messages similar to the above omitted 
    9032  
    9033 Summary of feedback from opening hNup93_NR_outer.pdb 
    9034 --- 
    9035 warnings | Start residue of secondary structure not found: HELIX 1 1 GLY L 147 ALA L 150 1 4 
    9036 Start residue of secondary structure not found: HELIX 2 2 SER L 151 SER L 153
    9037 1 3 
    9038 Start residue of secondary structure not found: HELIX 3 3 MET L 154 SER L 161
    9039 1 8 
    9040 Start residue of secondary structure not found: HELIX 4 4 PHE L 162 LYS L 164
    9041 1 3 
    9042 Start residue of secondary structure not found: HELIX 5 5 VAL L 170 ILE L 191
    9043 1 22 
    9044 52 messages similar to the above omitted 
    9045  
    9046 Summary of feedback from opening hNups_IRcyt_inner.pdb.pdb 
    9047 --- 
    9048 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    9049 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    9050 225 1 6 
    9051 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    9052 250 1 4 
    9053 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    9054 179 0 
    9055 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    9056 204 0 
    9057 3 messages similar to the above omitted 
    9058  
    9059 Summary of feedback from opening hNups_IRcyt_outer.pdb.pdb 
    9060 --- 
    9061 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    9062 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    9063 227 1 10 
    9064 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    9065 250 1 5 
    9066 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    9067 179 0 
    9068 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    9069 204 0 
    9070 2 messages similar to the above omitted 
    9071  
    9072 Summary of feedback from opening hNups_IRnuc_inner.pdb.pdb 
    9073 --- 
    9074 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    9075 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    9076 225 1 6 
    9077 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    9078 250 1 5 
    9079 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    9080 179 0 
    9081 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    9082 204 0 
    9083 3 messages similar to the above omitted 
    9084  
    9085 Summary of feedback from opening hNups_IRnuc_outer.pdb.pdb 
    9086 --- 
    9087 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    9088 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    9089 227 1 10 
    9090 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    9091 250 1 5 
    9092 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    9093 179 0 
    9094 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    9095 204 0 
    9096 2 messages similar to the above omitted 
    9097  
    9098 Chain information for Nup133_propeller_CRinner.pdb.pdb #88 
    9099 --- 
    9100 Chain | Description 
    9101 K | No description available 
    9102  
    9103 Chain information for Nup133_propeller_CRouter.pdb.pdb #89 
    9104 --- 
    9105 Chain | Description 
    9106 K | No description available 
    9107  
    9108 Chain information for Nup133_propeller_NRinner.pdb.pdb #90 
    9109 --- 
    9110 Chain | Description 
    9111 K | No description available 
    9112  
    9113 Chain information for Nup133_propeller_NRouter.pdb.pdb #91 
    9114 --- 
    9115 Chain | Description 
    9116 K | No description available 
    9117  
    9118 Chain information for Y_CRinner.pdb.pdb #92 
    9119 --- 
    9120 Chain | Description 
    9121 A | No description available 
    9122 C | No description available 
    9123 K | No description available 
    9124 L | No description available 
    9125 M | No description available 
    9126 N | No description available 
    9127 O | No description available 
    9128 P | No description available 
    9129 Q | No description available 
    9130 R | No description available 
    9131 S | No description available 
    9132  
    9133 Chain information for Y_CRouter.pdb.pdb #93 
    9134 --- 
    9135 Chain | Description 
    9136 A | No description available 
    9137 C | No description available 
    9138 J | No description available 
    9139 K | No description available 
    9140 L | No description available 
    9141 M | No description available 
    9142 N | No description available 
    9143 O | No description available 
    9144 P | No description available 
    9145 Q | No description available 
    9146 R | No description available 
    9147 S | No description available 
    9148 U | No description available 
    9149 V | No description available 
    9150 W | No description available 
    9151  
    9152 Chain information for Y_NRinner.pdb.pdb #94 
    9153 --- 
    9154 Chain | Description 
    9155 K | No description available 
    9156 L | No description available 
    9157 M | No description available 
    9158 N | No description available 
    9159 O | No description available 
    9160 P | No description available 
    9161 Q | No description available 
    9162 R | No description available 
    9163 S | No description available 
    9164 T | No description available 
    9165  
    9166 Chain information for Y_NRouter.pdb.pdb #95 
    9167 --- 
    9168 Chain | Description 
    9169 A | No description available 
    9170 C | No description available 
    9171 K | No description available 
    9172 L | No description available 
    9173 M | No description available 
    9174 N | No description available 
    9175 O | No description available 
    9176 P | No description available 
    9177 Q | No description available 
    9178 R | No description available 
    9179 S | No description available 
    9180 T | No description available 
    9181  
    9182 Chain information for hNup155_CRconnector_CTD.pdb.pdb #96 
    9183 --- 
    9184 Chain | Description 
    9185 D | No description available 
    9186  
    9187 Chain information for hNup155_CRconnector_NTD.pdb.pdb #97 
    9188 --- 
    9189 Chain | Description 
    9190 D | No description available 
    9191  
    9192 Chain information for hNup155_NRconnector_CTD.pdb.pdb #98 
    9193 --- 
    9194 Chain | Description 
    9195 D | No description available 
    9196  
    9197 Chain information for hNup155_NRconnector_NTD.pdb.pdb #99 
    9198 --- 
    9199 Chain | Description 
    9200 D | No description available 
    9201  
    9202 Chain information for hNup358_1_CRinner.pdb.pdb #100 
    9203 --- 
    9204 Chain | Description 
    9205 0 | No description available 
    9206  
    9207 Chain information for hNup358_1_CRouter.pdb.pdb #101 
    9208 --- 
    9209 Chain | Description 
    9210 0 | No description available 
    9211  
    9212 Chain information for hNup358_2_CRinner.pdb.pdb #102 
    9213 --- 
    9214 Chain | Description 
    9215 0 | No description available 
    9216  
    9217 Chain information for hNup358_2_CRouter.pdb.pdb #103 
    9218 --- 
    9219 Chain | Description 
    9220 0 | No description available 
    9221  
    9222 Chain information for hNup358_CRmiddle.pdb.pdb #104 
    9223 --- 
    9224 Chain | Description 
    9225 0 | No description available 
    9226  
    9227 Chain information for hNup53_dimer_IRcyt_innerF7.pdb.pdb #105 
    9228 --- 
    9229 Chain | Description 
    9230 F | No description available 
    9231  
    9232 Chain information for hNup53_dimer_IRcyt_outerG7.pdb.pdb #106 
    9233 --- 
    9234 Chain | Description 
    9235 F | No description available 
    9236  
    9237 Chain information for hNup53_dimer_IRnuc_innerF0.pdb.pdb #107 
    9238 --- 
    9239 Chain | Description 
    9240 F | No description available 
    9241  
    9242 Chain information for hNup53_dimer_IRnuc_outerG0.pdb.pdb #108 
    9243 --- 
    9244 Chain | Description 
    9245 F | No description available 
    9246  
    9247 Chain information for hNup93_CR_outer.pdb #109 
    9248 --- 
    9249 Chain | Description 
    9250 A | No description available 
    9251  
    9252 Chain information for hNup93_NR_outer.pdb #110 
    9253 --- 
    9254 Chain | Description 
    9255 A | No description available 
    9256  
    9257 Chain information for hNups_IRcyt_inner.pdb.pdb #111 
    9258 --- 
    9259 Chain | Description 
    9260 4 | No description available 
    9261 A | No description available 
    9262 C | No description available 
    9263 D | No description available 
    9264 E | No description available 
    9265 F | No description available 
    9266 H | No description available 
    9267 I | No description available 
    9268 J | No description available 
    9269 U | No description available 
    9270  
    9271 Chain information for hNups_IRcyt_outer.pdb.pdb #112 
    9272 --- 
    9273 Chain | Description 
    9274 A | No description available 
    9275 B | No description available 
    9276 D | No description available 
    9277 F | No description available 
    9278 H | No description available 
    9279 I | No description available 
    9280 J | No description available 
    9281 U | No description available 
    9282  
    9283 Chain information for hNups_IRnuc_inner.pdb.pdb #113 
    9284 --- 
    9285 Chain | Description 
    9286 4 | No description available 
    9287 A | No description available 
    9288 C | No description available 
    9289 D | No description available 
    9290 E | No description available 
    9291 F | No description available 
    9292 H | No description available 
    9293 I | No description available 
    9294 J | No description available 
    9295 U | No description available 
    9296  
    9297 Chain information for hNups_IRnuc_outer.pdb.pdb #114 
    9298 --- 
    9299 Chain | Description 
    9300 A | No description available 
    9301 B | No description available 
    9302 D | No description available 
    9303 F | No description available 
    9304 H | No description available 
    9305 I | No description available 
    9306 J | No description available 
    9307 U | No description available 
    9308  
    9309 
    9310 > hide sel atoms
    9311 
    9312 > select clear
    9313 
    9314 > hide #87-91,96,98,100-110#!61-64,92-95,97,99,111-114 atoms
    9315 
    9316 > show #87-91,96,98,100-110#!61-64,92-95,97,99,111-114 cartoons
    9317 
    9318 > color /A* #FF004A
    9319 
    9320 > color /0* #104a8e
    9321 
    9322 > color /L* #FF8853
    9323 
    9324 > color /P* #FF5851
    9325 
    9326 > color /R* #45f248
    9327 
    9328 > color /M* #533c8c
    9329 
    9330 > color /B* #5F84A2
    9331 
    9332 > color /C* #1b3e5c
    9333 
    9334 > color /R* #1b6970
    9335 
    9336 > color /T* #8df245
    9337 
    9338 > color /N* #8df245
    9339 
    9340 > color /O* #104a8e
    9341 
    9342 > color /Q* cyan
    9343 
    9344 > color /D* #ff8c69
    9345 
    9346 > color /F* #b4e400
    9347 
    9348 > color /I* #195d6b
    9349 
    9350 > color /J* #aeff00
    9351 
    9352 > color /D* #FA8072
    9353 
    9354 > color /F* #8df245
    9355 
    9356 > color /4* #45f248
    9357 
    9358 > color /K* purple
    9359 
    9360 > color /E* #159493
    9361 
    9362 > color /H* #00C9CA
    9363 
    9364 > color /W* #1d5a8f
    9365 
    9366 > color /U* magenta
    9367 
    9368 > color /V #00d948
    9369 
    9370 > color /1* #002a45
    9371 
    9372 > color /W* #1787e8
    9373 
    9374 > color /D* #FA8072
    9375 
    9376 > color /F* #b4e400
    9377 
    9378 > color /S* magenta
    9379 
    9380 > color /O* #FFE800
    9381 
    9382 > color /U* magenta
    9383 
    9384 > hide #36-38,43,55-60,69-77,86-87#!34-35,39-42,44-54,61-68,78-85 target m
    9385 
    9386 > show #!85 models
    9387 
    9388 > show #!5 models
    9389 
    9390 > measure symmetry #5
    9391 
    9392 Symmetry full.mrc: C8, center 64 64 65 
    9393 
    9394 > sym #88-114 #5 copies false
    9395 
    9396 Nup133_propeller_CRinner.pdb.pdb mmCIF Assemblies 
    9397 --- 
    9398  
    9399 Nup133_propeller_CRouter.pdb.pdb mmCIF Assemblies 
    9400 --- 
    9401  
    9402 Nup133_propeller_NRinner.pdb.pdb mmCIF Assemblies 
    9403 --- 
    9404  
    9405 Nup133_propeller_NRouter.pdb.pdb mmCIF Assemblies 
    9406 --- 
    9407  
    9408 Y_CRinner.pdb.pdb mmCIF Assemblies 
    9409 --- 
    9410  
    9411 Y_CRouter.pdb.pdb mmCIF Assemblies 
    9412 --- 
    9413  
    9414 Y_NRinner.pdb.pdb mmCIF Assemblies 
    9415 --- 
    9416  
    9417 Y_NRouter.pdb.pdb mmCIF Assemblies 
    9418 --- 
    9419  
    9420 hNup155_CRconnector_CTD.pdb.pdb mmCIF Assemblies 
    9421 --- 
    9422  
    9423 hNup155_CRconnector_NTD.pdb.pdb mmCIF Assemblies 
    9424 --- 
    9425  
    9426 hNup155_NRconnector_CTD.pdb.pdb mmCIF Assemblies 
    9427 --- 
    9428  
    9429 hNup155_NRconnector_NTD.pdb.pdb mmCIF Assemblies 
    9430 --- 
    9431  
    9432 hNup358_1_CRinner.pdb.pdb mmCIF Assemblies 
    9433 --- 
    9434  
    9435 hNup358_1_CRouter.pdb.pdb mmCIF Assemblies 
    9436 --- 
    9437  
    9438 hNup358_2_CRinner.pdb.pdb mmCIF Assemblies 
    9439 --- 
    9440  
    9441 hNup358_2_CRouter.pdb.pdb mmCIF Assemblies 
    9442 --- 
    9443  
    9444 hNup358_CRmiddle.pdb.pdb mmCIF Assemblies 
    9445 --- 
    9446  
    9447 hNup53_dimer_IRcyt_innerF7.pdb.pdb mmCIF Assemblies 
    9448 --- 
    9449  
    9450 hNup53_dimer_IRcyt_outerG7.pdb.pdb mmCIF Assemblies 
    9451 --- 
    9452  
    9453 hNup53_dimer_IRnuc_innerF0.pdb.pdb mmCIF Assemblies 
    9454 --- 
    9455  
    9456 hNup53_dimer_IRnuc_outerG0.pdb.pdb mmCIF Assemblies 
    9457 --- 
    9458  
    9459 hNup93_CR_outer.pdb mmCIF Assemblies 
    9460 --- 
    9461  
    9462 hNup93_NR_outer.pdb mmCIF Assemblies 
    9463 --- 
    9464  
    9465 hNups_IRcyt_inner.pdb.pdb mmCIF Assemblies 
    9466 --- 
    9467  
    9468 hNups_IRcyt_outer.pdb.pdb mmCIF Assemblies 
    9469 --- 
    9470  
    9471 hNups_IRnuc_inner.pdb.pdb mmCIF Assemblies 
    9472 --- 
    9473  
    9474 hNups_IRnuc_outer.pdb.pdb mmCIF Assemblies 
    9475 --- 
    9476  
    9477 
    9478 Cell requested for row 87 is out of bounds for table with 115 rows! Resizing
    9479 table model. 
    9480 
    9481 > sym #88-114 symmetry #5 copies false
    9482 
    9483 Made 8 graphical clones for Nup133_propeller_CRinner.pdb.pdb,
    9484 Nup133_propeller_CRouter.pdb.pdb, Nup133_propeller_NRinner.pdb.pdb,
    9485 Nup133_propeller_NRouter.pdb.pdb, Y_CRinner.pdb.pdb, Y_CRouter.pdb.pdb,
    9486 Y_NRinner.pdb.pdb, Y_NRouter.pdb.pdb, hNup155_CRconnector_CTD.pdb.pdb,
    9487 hNup155_CRconnector_NTD.pdb.pdb, hNup155_NRconnector_CTD.pdb.pdb,
    9488 hNup155_NRconnector_NTD.pdb.pdb, hNup358_1_CRinner.pdb.pdb,
    9489 hNup358_1_CRouter.pdb.pdb, hNup358_2_CRinner.pdb.pdb,
    9490 hNup358_2_CRouter.pdb.pdb, hNup358_CRmiddle.pdb.pdb,
    9491 hNup53_dimer_IRcyt_innerF7.pdb.pdb, hNup53_dimer_IRcyt_outerG7.pdb.pdb,
    9492 hNup53_dimer_IRnuc_innerF0.pdb.pdb, hNup53_dimer_IRnuc_outerG0.pdb.pdb,
    9493 hNup93_CR_outer.pdb, hNup93_NR_outer.pdb, hNups_IRcyt_inner.pdb.pdb,
    9494 hNups_IRcyt_outer.pdb.pdb, hNups_IRnuc_inner.pdb.pdb,
    9495 hNups_IRnuc_outer.pdb.pdb symmetry #5 
    9496 
    9497 > hide #!85 models
    9498 
    9499 > view
    9500 
    9501 > volume #5 level 0.05507
    9502 
    9503 > show #!85 models
    9504 
    9505 > hide #!5 models
    9506 
    9507 > hide #!85 models
    9508 
    9509 > show #!5 models
    9510 
    9511 > hide #114.1 models
    9512 
    9513 > show #114.1 models
    9514 
    9515 > close #88-91,96,98,100-110,114#92-95,97,99,111-113
    9516 
    9517 > open *pdb
    9518 
    9519 Summary of feedback from opening Nup133_propeller_CRinner.pdb.pdb 
    9520 --- 
    9521 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    9522 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    9523 4 
    9524 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    9525 1 4 
    9526 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    9527 1 7 
    9528 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    9529 1 7 
    9530 120 messages similar to the above omitted 
    9531  
    9532 Summary of feedback from opening Nup133_propeller_CRouter.pdb.pdb 
    9533 --- 
    9534 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    9535 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    9536 4 
    9537 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    9538 1 4 
    9539 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    9540 1 7 
    9541 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    9542 1 7 
    9543 120 messages similar to the above omitted 
    9544  
    9545 Summary of feedback from opening Nup133_propeller_NRinner.pdb.pdb 
    9546 --- 
    9547 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    9548 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    9549 4 
    9550 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    9551 1 4 
    9552 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    9553 1 7 
    9554 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    9555 1 7 
    9556 197 messages similar to the above omitted 
    9557  
    9558 Summary of feedback from opening Nup133_propeller_NRouter.pdb.pdb 
    9559 --- 
    9560 warnings | Start residue of secondary structure not found: HELIX 1 1 ILE R 67 ASN R 71 1 5 
    9561 Start residue of secondary structure not found: HELIX 2 2 VAL R 89 GLY R 92 1
    9562 4 
    9563 Start residue of secondary structure not found: HELIX 3 3 PRO R 169 MET R 172
    9564 1 4 
    9565 Start residue of secondary structure not found: HELIX 4 4 ILE R 186 LYS R 192
    9566 1 7 
    9567 Start residue of secondary structure not found: HELIX 5 5 VAL R 262 THR R 268
    9568 1 7 
    9569 197 messages similar to the above omitted 
    9570  
    9571 Summary of feedback from opening Y_CRinner.pdb.pdb 
    9572 --- 
    9573 warnings | Start residue of secondary structure not found: HELIX 136 136 VAL K 90 THR K 97 1 8 
    9574 Start residue of secondary structure not found: HELIX 137 137 THR K 134 LEU K
    9575 136 1 3 
    9576 Start residue of secondary structure not found: HELIX 138 138 ALA K 153 LEU K
    9577 155 1 3 
    9578 Start residue of secondary structure not found: HELIX 139 139 GLY K 250 SER K
    9579 260 1 11 
    9580 Start residue of secondary structure not found: HELIX 140 140 SER K 270 LEU K
    9581 272 1 3 
    9582 32 messages similar to the above omitted 
    9583  
    9584 Summary of feedback from opening Y_CRouter.pdb.pdb 
    9585 --- 
    9586 warnings | Start residue of secondary structure not found: HELIX 2 2 ASN A 180 VAL A 197 1 18 
    9587 Start residue of secondary structure not found: HELIX 3 3 LEU A 205 VAL A 212
    9588 1 8 
    9589 Start residue of secondary structure not found: HELIX 4 4 LYS A 218 THR A 231
    9590 1 14 
    9591 Start residue of secondary structure not found: HELIX 5 5 ALA A 241 SER A 246
    9592 1 6 
    9593 Start residue of secondary structure not found: HELIX 6 6 VAL A 248 ALA A 281
    9594 1 34 
    9595 64 messages similar to the above omitted 
    9596  
    9597 Summary of feedback from opening Y_NRinner.pdb.pdb 
    9598 --- 
    9599 warnings | Start residue of secondary structure not found: HELIX 1 1 VAL K 90 THR K 97 1 8 
    9600 Start residue of secondary structure not found: HELIX 2 2 THR K 134 LEU K 136
    9601 1 3 
    9602 Start residue of secondary structure not found: HELIX 3 3 ALA K 153 LEU K 155
    9603 1 3 
    9604 Start residue of secondary structure not found: HELIX 4 4 GLY K 250 SER K 260
    9605 1 11 
    9606 Start residue of secondary structure not found: HELIX 5 5 SER K 270 LEU K 272
    9607 1 3 
    9608 32 messages similar to the above omitted 
    9609  
    9610 Summary of feedback from opening Y_NRouter.pdb.pdb 
    9611 --- 
    9612 warnings | Start residue of secondary structure not found: HELIX 2 2 ASN A 180 VAL A 197 1 18 
    9613 Start residue of secondary structure not found: HELIX 3 3 LEU A 205 VAL A 212
    9614 1 8 
    9615 Start residue of secondary structure not found: HELIX 4 4 LYS A 218 THR A 231
    9616 1 14 
    9617 Start residue of secondary structure not found: HELIX 5 5 ALA A 241 SER A 246
    9618 1 6 
    9619 Start residue of secondary structure not found: HELIX 6 6 VAL A 248 ALA A 281
    9620 1 34 
    9621 64 messages similar to the above omitted 
    9622  
    9623 Summary of feedback from opening hNup155_CRconnector_CTD.pdb.pdb 
    9624 --- 
    9625 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    9626 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    9627 4 
    9628 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    9629 3 
    9630 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    9631 8 
    9632 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    9633 1 3 
    9634 52 messages similar to the above omitted 
    9635  
    9636 Summary of feedback from opening hNup155_CRconnector_NTD.pdb.pdb 
    9637 --- 
    9638 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    9639 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    9640 910 1 21 
    9641 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    9642 923 1 11 
    9643 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    9644 938 1 13 
    9645 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    9646 952 1 8 
    9647 23 messages similar to the above omitted 
    9648  
    9649 Summary of feedback from opening hNup155_NRconnector_CTD.pdb.pdb 
    9650 --- 
    9651 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA D 12 MET D 39 1 28 
    9652 Start residue of secondary structure not found: HELIX 2 2 LEU D 43 LEU D 46 1
    9653 4 
    9654 Start residue of secondary structure not found: HELIX 3 3 ASP D 62 ASP D 64 1
    9655 3 
    9656 Start residue of secondary structure not found: HELIX 4 4 PRO D 91 GLY D 98 1
    9657 8 
    9658 Start residue of secondary structure not found: HELIX 5 5 PRO D 110 ILE D 112
    9659 1 3 
    9660 52 messages similar to the above omitted 
    9661  
    9662 Summary of feedback from opening hNup155_NRconnector_NTD.pdb.pdb 
    9663 --- 
    9664 warnings | Start residue of secondary structure not found: HELIX 24 24 THR D 869 GLN D 886 1 18 
    9665 Start residue of secondary structure not found: HELIX 25 25 LYS D 890 GLN D
    9666 910 1 21 
    9667 Start residue of secondary structure not found: HELIX 26 26 LEU D 913 VAL D
    9668 923 1 11 
    9669 Start residue of secondary structure not found: HELIX 27 27 TYR D 926 GLU D
    9670 938 1 13 
    9671 Start residue of secondary structure not found: HELIX 28 28 LEU D 945 HIS D
    9672 952 1 8 
    9673 23 messages similar to the above omitted 
    9674  
    9675 Summary of feedback from opening hNup93_CR_outer.pdb 
    9676 --- 
    9677 warnings | Start residue of secondary structure not found: HELIX 1 1 LYS02 5 GLY02 17 1 13 
    9678 Start residue of secondary structure not found: HELIX 2 2 PRO02 22 LYS02 25 1
    9679 4 
    9680 Start residue of secondary structure not found: HELIX 3 3 SER02 26 LYS02 28 1
    9681 3 
    9682 Start residue of secondary structure not found: HELIX 4 4 GLY02 29 TYR02 36 1
    9683 8 
    9684 Start residue of secondary structure not found: HELIX 5 5 TYR02 37 ALA02 39 1
    9685 3 
    9686 46 messages similar to the above omitted 
    9687  
    9688 Summary of feedback from opening hNup93_NR_outer.pdb 
    9689 --- 
    9690 warnings | Start residue of secondary structure not found: HELIX 1 1 GLY L 147 ALA L 150 1 4 
    9691 Start residue of secondary structure not found: HELIX 2 2 SER L 151 SER L 153
    9692 1 3 
    9693 Start residue of secondary structure not found: HELIX 3 3 MET L 154 SER L 161
    9694 1 8 
    9695 Start residue of secondary structure not found: HELIX 4 4 PHE L 162 LYS L 164
    9696 1 3 
    9697 Start residue of secondary structure not found: HELIX 5 5 VAL L 170 ILE L 191
    9698 1 22 
    9699 52 messages similar to the above omitted 
    9700  
    9701 Summary of feedback from opening hNups_IRcyt_inner.pdb.pdb 
    9702 --- 
    9703 warnings | Start residue of secondary structure not found: HELIX 209 209 GLN F 183 ALA F 194 1 12 
    9704 Start residue of secondary structure not found: HELIX 210 210 GLN F 220 LEU F
    9705 225 1 6 
    9706 Start residue of secondary structure not found: HELIX 211 211 SER F 247 GLU F
    9707 250 1 4 
    9708 Start residue of secondary structure not found: SHEET 79 79 1 TRP F 175 PHE F
    9709 179 0 
    9710 Start residue of secondary structure not found: SHEET 80 80 1 ILE F 199 MET F
    9711 204 0 
    9712 3 messages similar to the above omitted 
    9713  
    9714 Summary of feedback from opening hNups_IRcyt_outer.pdb.pdb 
    9715 --- 
    9716 warnings | Start residue of secondary structure not found: HELIX 158 158 GLN F 183 TYR F 196 1 14 
    9717 Start residue of secondary structure not found: HELIX 159 159 LYS F 218 LYS F
    9718 227 1 10 
    9719 Start residue of secondary structure not found: HELIX 160 160 LYS F 246 GLU F
    9720 250 1 5 
    9721 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    9722 179 0 
    9723 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    9724 204 0 
    9725 2 messages similar to the above omitted 
    9726  
    9727 Summary of feedback from opening hNups_IRnuc_inner.pdb.pdb 
    9728 --- 
    9729 warnings | Start residue of secondary structure not found: HELIX 204 204 GLN F 183 ALA F 194 1 12 
    9730 Start residue of secondary structure not found: HELIX 205 205 GLN F 220 LEU F
    9731 225 1 6 
    9732 Start residue of secondary structure not found: HELIX 206 206 LYS F 246 GLU F
    9733 250 1 5 
    9734 Start residue of secondary structure not found: SHEET 77 77 1 TRP F 175 PHE F
    9735 179 0 
    9736 Start residue of secondary structure not found: SHEET 78 78 1 ILE F 199 MET F
    9737 204 0 
    9738 3 messages similar to the above omitted 
    9739  
    9740 Summary of feedback from opening hNups_IRnuc_outer.pdb.pdb 
    9741 --- 
    9742 warnings | Start residue of secondary structure not found: HELIX 159 159 GLN F 183 TYR F 196 1 14 
    9743 Start residue of secondary structure not found: HELIX 160 160 LYS F 218 LYS F
    9744 227 1 10 
    9745 Start residue of secondary structure not found: HELIX 161 161 LYS F 246 GLU F
    9746 250 1 5 
    9747 Start residue of secondary structure not found: SHEET 51 51 1 TRP F 175 PHE F
    9748 179 0 
    9749 Start residue of secondary structure not found: SHEET 52 52 1 ILE F 199 MET F
    9750 204 0 
    9751 2 messages similar to the above omitted 
    9752  
    9753 Chain information for Nup133_propeller_CRinner.pdb.pdb #88 
    9754 --- 
    9755 Chain | Description 
    9756 K | No description available 
    9757  
    9758 Chain information for Nup133_propeller_CRouter.pdb.pdb #89 
    9759 --- 
    9760 Chain | Description 
    9761 K | No description available 
    9762  
    9763 Chain information for Nup133_propeller_NRinner.pdb.pdb #90 
    9764 --- 
    9765 Chain | Description 
    9766 K | No description available 
    9767  
    9768 Chain information for Nup133_propeller_NRouter.pdb.pdb #91 
    9769 --- 
    9770 Chain | Description 
    9771 K | No description available 
    9772  
    9773 Chain information for Y_CRinner.pdb.pdb #92 
    9774 --- 
    9775 Chain | Description 
    9776 A | No description available 
    9777 C | No description available 
    9778 K | No description available 
    9779 L | No description available 
    9780 M | No description available 
    9781 N | No description available 
    9782 O | No description available 
    9783 P | No description available 
    9784 Q | No description available 
    9785 R | No description available 
    9786 S | No description available 
    9787  
    9788 Chain information for Y_CRouter.pdb.pdb #93 
    9789 --- 
    9790 Chain | Description 
    9791 A | No description available 
    9792 C | No description available 
    9793 J | No description available 
    9794 K | No description available 
    9795 L | No description available 
    9796 M | No description available 
    9797 N | No description available 
    9798 O | No description available 
    9799 P | No description available 
    9800 Q | No description available 
    9801 R | No description available 
    9802 S | No description available 
    9803 U | No description available 
    9804 V | No description available 
    9805 W | No description available 
    9806  
    9807 Chain information for Y_NRinner.pdb.pdb #94 
    9808 --- 
    9809 Chain | Description 
    9810 K | No description available 
    9811 L | No description available 
    9812 M | No description available 
    9813 N | No description available 
    9814 O | No description available 
    9815 P | No description available 
    9816 Q | No description available 
    9817 R | No description available 
    9818 S | No description available 
    9819 T | No description available 
    9820  
    9821 Chain information for Y_NRouter.pdb.pdb #95 
    9822 --- 
    9823 Chain | Description 
    9824 A | No description available 
    9825 C | No description available 
    9826 K | No description available 
    9827 L | No description available 
    9828 M | No description available 
    9829 N | No description available 
    9830 O | No description available 
    9831 P | No description available 
    9832 Q | No description available 
    9833 R | No description available 
    9834 S | No description available 
    9835 T | No description available 
    9836  
    9837 Chain information for hNup155_CRconnector_CTD.pdb.pdb #96 
    9838 --- 
    9839 Chain | Description 
    9840 D | No description available 
    9841  
    9842 Chain information for hNup155_CRconnector_NTD.pdb.pdb #97 
    9843 --- 
    9844 Chain | Description 
    9845 D | No description available 
    9846  
    9847 Chain information for hNup155_NRconnector_CTD.pdb.pdb #98 
    9848 --- 
    9849 Chain | Description 
    9850 D | No description available 
    9851  
    9852 Chain information for hNup155_NRconnector_NTD.pdb.pdb #99 
    9853 --- 
    9854 Chain | Description 
    9855 D | No description available 
    9856  
    9857 Chain information for hNup358_1_CRinner.pdb.pdb #100 
    9858 --- 
    9859 Chain | Description 
    9860 0 | No description available 
    9861  
    9862 Chain information for hNup358_1_CRouter.pdb.pdb #101 
    9863 --- 
    9864 Chain | Description 
    9865 0 | No description available 
    9866  
    9867 Chain information for hNup358_2_CRinner.pdb.pdb #102 
    9868 --- 
    9869 Chain | Description 
    9870 0 | No description available 
    9871  
    9872 Chain information for hNup358_2_CRouter.pdb.pdb #103 
    9873 --- 
    9874 Chain | Description 
    9875 0 | No description available 
    9876  
    9877 Chain information for hNup358_CRmiddle.pdb.pdb #104 
    9878 --- 
    9879 Chain | Description 
    9880 0 | No description available 
    9881  
    9882 Chain information for hNup53_dimer_IRcyt_innerF7.pdb.pdb #105 
    9883 --- 
    9884 Chain | Description 
    9885 F | No description available 
    9886  
    9887 Chain information for hNup53_dimer_IRcyt_outerG7.pdb.pdb #106 
    9888 --- 
    9889 Chain | Description 
    9890 F | No description available 
    9891  
    9892 Chain information for hNup53_dimer_IRnuc_innerF0.pdb.pdb #107 
    9893 --- 
    9894 Chain | Description 
    9895 F | No description available 
    9896  
    9897 Chain information for hNup53_dimer_IRnuc_outerG0.pdb.pdb #108 
    9898 --- 
    9899 Chain | Description 
    9900 F | No description available 
    9901  
    9902 Chain information for hNup93_CR_outer.pdb #109 
    9903 --- 
    9904 Chain | Description 
    9905 A | No description available 
    9906  
    9907 Chain information for hNup93_NR_outer.pdb #110 
    9908 --- 
    9909 Chain | Description 
    9910 A | No description available 
    9911  
    9912 Chain information for hNups_IRcyt_inner.pdb.pdb #111 
    9913 --- 
    9914 Chain | Description 
    9915 4 | No description available 
    9916 A | No description available 
    9917 C | No description available 
    9918 D | No description available 
    9919 E | No description available 
    9920 F | No description available 
    9921 H | No description available 
    9922 I | No description available 
    9923 J | No description available 
    9924 U | No description available 
    9925  
    9926 Chain information for hNups_IRcyt_outer.pdb.pdb #112 
    9927 --- 
    9928 Chain | Description 
    9929 A | No description available 
    9930 B | No description available 
    9931 D | No description available 
    9932 F | No description available 
    9933 H | No description available 
    9934 I | No description available 
    9935 J | No description available 
    9936 U | No description available 
    9937  
    9938 Chain information for hNups_IRnuc_inner.pdb.pdb #113 
    9939 --- 
    9940 Chain | Description 
    9941 4 | No description available 
    9942 A | No description available 
    9943 C | No description available 
    9944 D | No description available 
    9945 E | No description available 
    9946 F | No description available 
    9947 H | No description available 
    9948 I | No description available 
    9949 J | No description available 
    9950 U | No description available 
    9951  
    9952 Chain information for hNups_IRnuc_outer.pdb.pdb #114 
    9953 --- 
    9954 Chain | Description 
    9955 A | No description available 
    9956 B | No description available 
    9957 D | No description available 
    9958 F | No description available 
    9959 H | No description available 
    9960 I | No description available 
    9961 J | No description available 
    9962 U | No description available 
    9963  
    9964 
    9965 > hide #88-91,96,98,100-110#!92-95,97,99,111-114 atoms
    9966 
    9967 > show #88-91,96,98,100-110#!92-95,97,99,111-114 cartoons
    9968 
    9969 > color /A* #FF004A
    9970 
    9971 > color /0* #104a8e
    9972 
    9973 > color /L* #FF8853
    9974 
    9975 > color /P* #FF5851
    9976 
    9977 > color /R* #45f248
    9978 
    9979 > color /M* #533c8c
    9980 
    9981 > color /B* #5F84A2
    9982 
    9983 > color /C* #1b3e5c
    9984 
    9985 > color /R* #1b6970
    9986 
    9987 > color /T* #8df245
    9988 
    9989 > color /N* #8df245
    9990 
    9991 > color /O* #104a8e
    9992 
    9993 > color /Q* cyan
    9994 
    9995 > color /D* #ff8c69
    9996 
    9997 > color /F* #b4e400
    9998 
    9999 > color /I* #195d6b
    10000 
    10001 > color /J* #aeff00
    10002 
    10003 > color /D* #FA8072
    10004 
    10005 > color /F* #8df245
    10006 
    10007 > color /4* #45f248
    10008 
    10009 > color /K* purple
    10010 
    10011 > color /E* #159493
    10012 
    10013 > color /H* #00C9CA
    10014 
    10015 > color /W* #1d5a8f
    10016 
    10017 > color /U* magenta
    10018 
    10019 > color /V #00d948
    10020 
    10021 > color /1* #002a45
    10022 
    10023 > color /W* #1787e8
    10024 
    10025 > color /D* #FA8072
    10026 
    10027 > color /F* #b4e400
    10028 
    10029 > color /S* magenta
    10030 
    10031 > color /O* #FFE800
    10032 
    10033 > color /U* magenta
    10034 
    10035 > view
    10036 
    10037 > volume #5 level 0.04263
    10038 
    10039 > volume #5 level 0.02872
    10040 
    10041 > volume #5 level 0.05141
    10042 
    10043 > volume #5 level 0.02652
    10044 
    10045 > volume #5 level 0.04116
    10046 
    10047 > hide #!5 models
    10048 
    10049 > show #!47 models
    10050 
    10051 > volume #47 level 0.01916
    10052 
    10053 > volume #47 level 0.01189
    10054 
    10055 > hide #!47 models
    10056 
    10057 > show #!46 models
    10058 
    10059 > volume #46 level 0.01128
    10060 
    10061 > show #!5 models
    10062 
    10063 > volume #5 level 0.02652
    10064 
    10065 > open 7r5j
    10066 
    10067 7r5j title: 
    10068 Human nuclear pore complex (dilated) [more info...] 
    10069  
    10070 Chain information for 7r5j #115 
    10071 --- 
    10072 Chain | Description | UniProt 
    10073 00 01 02 03 04 | E3 SUMO-protein ligase RanBP2 | RBP2_HUMAN 1-3224 
    10074 10 11 12 13 14 15 16 17 | Nuclear pore membrane glycoprotein 210 | PO210_HUMAN 1-1887 
    10075 40 41 | Aladin | AAAS_HUMAN 1-546 
    10076 A0 A1 A2 A3 A4 A5 A6 | Nuclear pore complex protein Nup93 | NUP93_HUMAN 1-819 
    10077 B0 B1 | Nucleoporin NUP188 homolog | NU188_HUMAN 1-1749 
    10078 C0 C1 C2 C3 C4 | Nuclear pore complex protein Nup205 | NU205_HUMAN 1-2012 
    10079 D0 D1 D2 D3 D4 D5 | Nuclear pore complex protein Nup155 | NU155_HUMAN 1-1391 
    10080 E0 E1 | Nucleoporin NDC1 | NDC1_HUMAN 1-674 
    10081 F0 F1 F2 F3 | Nucleoporin NUP35 | NUP35_HUMAN 1-326 
    10082 H0 H1 H2 H3 | Nucleoporin p54 | NUP54_HUMAN 1-507 
    10083 I0 I1 I2 I3 | Nucleoporin p58/p45 | NUP58_HUMAN 1-599 
    10084 J0 J1 J2 J3 J4 | Nuclear pore glycoprotein p62 | NUP62_HUMAN 1-522 
    10085 K0 K1 K2 K3 | Nuclear pore complex protein Nup133 | NU133_HUMAN 1-1156 
    10086 L0 L1 L2 L3 | Nuclear pore complex protein Nup107 | NU107_HUMAN 1-925 
    10087 M0 M1 M2 M3 | Nuclear pore complex protein Nup96 | NUP98_HUMAN 1-937 
    10088 N0 N1 N2 N3 | Protein SEC13 homolog | SEC13_HUMAN 1-322 
    10089 O0 O1 O2 O3 | Nucleoporin SEH1 | SEH1_HUMAN 1-360 
    10090 P0 P1 P2 P3 | Nuclear pore complex protein Nup85 | NUP85_HUMAN 1-656 
    10091 Q0 Q1 Q2 Q3 | Nucleoporin Nup43 | NUP43_HUMAN 1-380 
    10092 R0 R1 R2 R3 | Nuclear pore complex protein Nup160 | NU160_HUMAN 1-1436 
    10093 S0 S1 S2 S3 | Nucleoporin Nup37 | NUP37_HUMAN 1-326 
    10094 T0 T1 | Protein ELYS | ELYS_HUMAN 1-2266 
    10095 U0 U1 U2 U3 U4 U5 U6 | Nuclear pore complex protein Nup98 | NUP98_HUMAN 1-880 
    10096 V0 | Nuclear pore complex protein Nup214 | NU214_HUMAN 1-2090 
    10097 W0 | Nuclear pore complex protein Nup88 | NUP88_HUMAN 1-741 
    10098  
    10099 7r5j mmCIF Assemblies 
    10100 --- 
    10101 1| author_and_software_defined_assembly 
    10102  
    10103 
    10104 > select #115
    10105 
    10106 617133 atoms, 630097 bonds, 18 pseudobonds, 78030 residues, 2 models selected 
    10107 
    10108 > ui mousemode right "translate selected models"
    10109 
    10110 > view matrix models #115,1,0,0,-244.52,0,1,0,835.64,0,0,1,-355.88
    10111 
    10112 > view matrix models
    10113 > #115,0.50322,0.77396,0.38438,-1277.1,-0.85786,0.50103,0.11423,1698.6,-0.10417,-0.38723,0.91608,219.8
    10114 
    10115 > select clear
    10116 
    10117 [Repeated 1 time(s)]Drag select of 183089 atoms, 4 pseudobonds 
    10118 
    10119 > delete atoms (#!115 & sel)
    10120 
    10121 > delete bonds (#!115 & sel)
    10122 
    10123 Drag select of 135456 atoms, 4 pseudobonds 
    10124 
    10125 > delete atoms (#!115 & sel)
    10126 
    10127 > delete bonds (#!115 & sel)
    10128 
    10129 > select #115
    10130 
    10131 298588 atoms, 304677 bonds, 23 pseudobonds, 38158 residues, 2 models selected 
    10132 
    10133 > view matrix models
    10134 > #115,0.50322,0.77396,0.38438,-436.68,-0.85786,0.50103,0.11423,1188.9,-0.10417,-0.38723,0.91608,128.15
    10135 
    10136 > view matrix models
    10137 > #115,0.50322,0.77396,0.38438,-873.48,-0.85786,0.50103,0.11423,1953.1,-0.10417,-0.38723,0.91608,217.55
    10138 
    10139 > view matrix models
    10140 > #115,0.50322,0.77396,0.38438,108.52,-0.85786,0.50103,0.11423,1902.6,-0.10417,-0.38723,0.91608,314.7
    10141 
    10142 > view matrix models
    10143 > #115,-0.13218,0.97086,-0.19991,742.95,-0.98018,-0.097998,0.17215,2610.8,0.14754,0.2187,0.96457,-565.94
    10144 
    10145 > view matrix models
    10146 > #115,-0.17035,0.97982,-0.10457,657.98,-0.98326,-0.16206,0.083257,2774,0.064629,0.11701,0.99103,-432.46
    10147 
    10148 > view matrix models
    10149 > #115,-0.17035,0.97982,-0.10457,399.57,-0.98326,-0.16206,0.083257,1863.7,0.064629,0.11701,0.99103,-506.43
    10150 
    10151 > view matrix models
    10152 > #115,-0.17035,0.97982,-0.10457,375.28,-0.98326,-0.16206,0.083257,1840.2,0.064629,0.11701,0.99103,-277.22
    10153 
    10154 > ui tool show "Fit in Map"
    10155 
    10156 > fitmap sel inMap #85
    10157 
    10158 Fit molecule 7r5j (#115) to map volume sum (#85) using 298588 atoms 
    10159 average map value = 0.1078, steps = 140 
    10160 shifted from previous position = 41.5 
    10161 rotated from previous position = 23.5 degrees 
    10162 atoms outside contour = 143320, contour level = 0.096424 
    10163  
    10164 Position of 7r5j (#115) relative to volume sum (#85) coordinates: 
    10165 Matrix rotation and translation 
    10166 -0.51975144 0.85352115 0.03687935 547.80360711 
    10167 -0.83535043 -0.51678423 0.18741321 2048.98769178 
    10168 0.17901981 0.06660110 0.98158861 -308.11437663 
    10169 Axis -0.07110179 -0.08365421 -0.99395498 
    10170 Axis point 860.44937607 882.28303709 0.00000000 
    10171 Rotation angle (degrees) 121.83491013 
    10172 Shift along axis 95.89556419 
    10173  
    10174 
    10175 > hide #!5 models
    10176 
    10177 > show #!85 models
    10178 
    10179 > hide #!46 models
    10180 
    10181 > hide sel atoms
    10182 
    10183 > show sel cartoons
    10184 
    10185 > select sel & ~/1*
    10186 
    10187 186220 atoms, 189877 bonds, 23 pseudobonds, 23510 residues, 2 models selected 
    10188 
    10189 > fitmap sel inMap #85
    10190 
    10191 Fit molecule 7r5j (#115) to map volume sum (#85) using 186220 atoms 
    10192 average map value = 0.1719, steps = 68 
    10193 shifted from previous position = 4.16 
    10194 rotated from previous position = 10.6 degrees 
    10195 atoms outside contour = 30279, contour level = 0.096424 
    10196  
    10197 Position of 7r5j (#115) relative to volume sum (#85) coordinates: 
    10198 Matrix rotation and translation 
    10199 -0.55493095 0.82927747 -0.06595837 696.33392283 
    10200 -0.83189504 -0.55332700 0.04218860 2229.11007739 
    10201 -0.00151049 0.07828220 0.99693009 -220.18442636 
    10202 Axis 0.02170634 -0.03875832 -0.99901283 
    10203 Axis point 943.56629507 933.43175904 0.00000000 
    10204 Rotation angle (degrees) 123.75645675 
    10205 Shift along axis 148.68536500 
    10206  
    10207 
    10208 > volume #85 level 0.004864
    10209 
    10210 > volume #85 level 0.0744
    10211 
    10212 > select clear
    10213 
    10214 > select /1*
    10215 
    10216 122882 atoms, 125530 bonds, 15958 residues, 3 models selected 
    10217 
    10218 > close #88-91,96,98,100-110#92-95,97,99,111-114
    10219 
    10220 > rename #115 id #88
    10221 
    10222 > save /Users/kosinski/Desktop/FluNPC_paper/cutting_rigid_bodies.cxs
    10223 
    10224 ——— End of log from Sat Nov 16 20:51:36 2024 ———
    10225 
    10226 opened ChimeraX session 
    10227 
    10228 > close #55-60,69-77,86-87#61-68,78-85,88
    10229 
    10230 > show #!45 models
    10231 
    10232 > show #!44 models
    10233 
    10234 > close #15-22,29-31,36-38,43#13-14,23-28,32-35,39-42,44-45
    10235 
    10236 > show #12 models
    10237 
    10238 > hide #12 models
    10239 
    10240 > rename #46 id #13
    10241 
    10242 > rename #47 id #14
    10243 
    10244 > rename #48 id #15
    10245 
    10246 > rename #49 id #16
    10247 
    10248 > rename #50 id #17
    10249 
    10250 > rename #51 id #18
    10251 
    10252 > rename #52 id #19
    10253 
    10254 > rename #53 id #20
    10255 
    10256 > rename #54 id #21
    10257 
    10258 > show #!13-21 target m
    10259 
    10260 > hide #!13-21 target m
    10261 
    10262 > show #!11 models
    10263 
    10264 > hide #!11 models
    10265 
    10266 > show #!10 models
    10267 
    10268 > hide #!10 models
    10269 
    10270 > show #!9-11 target m
    10271 
    10272 > hide #!9-11 target m
    10273 
    10274 > show #!6-8 target m
    10275 
    10276 > volume #7 level 0.06482
    10277 
    10278 > hide #!6-8 target m
    10279 
    10280 > show #!5 models
    10281 
    10282 > hide #!5 models
    10283 
    10284 > show #1 models
    10285 
    10286 > hide #1 models
    10287 
    10288 > save /Users/kosinski/Desktop/FluNPC_paper/mock_maps.cxs includeMaps true
    10289 
    10290 ——— End of log from Sat Dec 7 09:38:15 2024 ———
    10291 
    10292 opened ChimeraX session 
    10293 
    10294 > cd s127_fits
    10295 
    10296 Current working directory is: /Users/kosinski/Desktop/FluNPC_paper/s127_fits 
    10297 
    10298 > open Y_CRinner.pdb
    10299 
    10300 No such file/path: Y_CRinner.pdb 
    10301 
    10302 > open Y_CRouter.pdb
    10303 
    10304 No such file/path: Y_CRouter.pdb 
    10305 
    10306 > open Y_NRinner.pdb
    10307 
    10308 No such file/path: Y_NRinner.pdb 
    10309 
    10310 > open Y_NRouter.pdb
    10311 
    10312 No such file/path: Y_NRouter.pdb 
    10313 
    10314 > open Nup133_propeller_CRinner.pdb
    10315 
    10316 No such file/path: Nup133_propeller_CRinner.pdb 
    10317 
    10318 > open Nup133_propeller_CRouter.pdb
    10319 
    10320 No such file/path: Nup133_propeller_CRouter.pdb 
    10321 
    10322 > open Nup133_propeller_NRinner.pdb
    10323 
    10324 No such file/path: Nup133_propeller_NRinner.pdb 
    10325 
    10326 > open Nup133_propeller_NRouter.pdb
    10327 
    10328 No such file/path: Nup133_propeller_NRouter.pdb 
    10329 
    10330 > open hNup155_CRconnector_CTD.pdb
    10331 
    10332 No such file/path: hNup155_CRconnector_CTD.pdb 
    10333 
    10334 > open hNup155_CRconnector_NTD.pdb
    10335 
    10336 No such file/path: hNup155_CRconnector_NTD.pdb 
    10337 
    10338 > open hNup155_NRconnector_CTD.pdb
    10339 
    10340 No such file/path: hNup155_NRconnector_CTD.pdb 
    10341 
    10342 > open hNup155_NRconnector_NTD.pdb
    10343 
    10344 No such file/path: hNup155_NRconnector_NTD.pdb 
    10345 
    10346 > open hNup358_1_CRinner.pdb
    10347 
    10348 No such file/path: hNup358_1_CRinner.pdb 
    10349 
    10350 > open hNup358_1_CRouter.pdb
    10351 
    10352 No such file/path: hNup358_1_CRouter.pdb 
    10353 
    10354 > open hNup358_2_CRinner.pdb
    10355 
    10356 No such file/path: hNup358_2_CRinner.pdb 
    10357 
    10358 > open hNup358_2_CRouter.pdb
    10359 
    10360 No such file/path: hNup358_2_CRouter.pdb 
    10361 
    10362 > open hNup358_CRmiddle.pdb
    10363 
    10364 No such file/path: hNup358_CRmiddle.pdb 
    10365 
    10366 > open hNup93_CR_outer.pdb
    10367 
    10368 No such file/path: hNup93_CR_outer.pdb 
    10369 
    10370 > open hNup93_NR_outer.pdb
    10371 
    10372 No such file/path: hNup93_NR_outer.pdb 
    10373 
    10374 > open hNups_IRcyt_inner.pdb
    10375 
    10376 No such file/path: hNups_IRcyt_inner.pdb 
    10377 
    10378 > open hNups_IRcyt_outer.pdb
    10379 
    10380 No such file/path: hNups_IRcyt_outer.pdb 
    10381 
    10382 > open hNups_IRnuc_inner.pdb
    10383 
    10384 No such file/path: hNups_IRnuc_inner.pdb 
    10385 
    10386 > open hNups_IRnuc_outer.pdb
    10387 
    10388 No such file/path: hNups_IRnuc_outer.pdb 
    10389 
    10390 > open hNup53_dimer_IRcyt_innerF7.pdb
    10391 
    10392 No such file/path: hNup53_dimer_IRcyt_innerF7.pdb 
    10393 
    10394 > open hNup53_dimer_IRcyt_outerG7.pdb
    10395 
    10396 No such file/path: hNup53_dimer_IRcyt_outerG7.pdb 
    10397 
    10398 > open hNup53_dimer_IRnuc_innerF0.pdb
    10399 
    10400 No such file/path: hNup53_dimer_IRnuc_innerF0.pdb 
    10401 
    10402 > open hNup53_dimer_IRnuc_outerG0.pdb
    10403 
    10404 No such file/path: hNup53_dimer_IRnuc_outerG0.pdb 
    10405 
    10406 > open hGp210.pdb
    10407 
    10408 No such file/path: hGp210.pdb 
    10409 
    10410 > open Y_CRinner.pdb
    10411 
    10412 Chain information for Y_CRinner.pdb #22 
    10413 --- 
    10414 Chain | Description 
    10415 A | No description available 
    10416 C | No description available 
    10417 K | No description available 
    10418 L | No description available 
    10419 M | No description available 
    10420 N | No description available 
    10421 O | No description available 
    10422 P | No description available 
    10423 Q | No description available 
    10424 R | No description available 
    10425 S | No description available 
    10426  
    10427 
    10428 > open Y_CRouter.pdb
    10429 
    10430 Chain information for Y_CRouter.pdb #23 
    10431 --- 
    10432 Chain | Description 
    10433 A | No description available 
    10434 C | No description available 
    10435 J | No description available 
    10436 K | No description available 
    10437 L | No description available 
    10438 M | No description available 
    10439 N | No description available 
    10440 O | No description available 
    10441 P | No description available 
    10442 Q | No description available 
    10443 R | No description available 
    10444 S | No description available 
    10445 U | No description available 
    10446 V | No description available 
    10447 W | No description available 
    10448  
    10449 
    10450 > open Y_NRinner.pdb
    10451 
    10452 Chain information for Y_NRinner.pdb #24 
    10453 --- 
    10454 Chain | Description 
    10455 K | No description available 
    10456 L | No description available 
    10457 M | No description available 
    10458 N | No description available 
    10459 O | No description available 
    10460 P | No description available 
    10461 Q | No description available 
    10462 R | No description available 
    10463 S | No description available 
    10464 T | No description available 
    10465  
    10466 
    10467 > open Y_NRouter.pdb
    10468 
    10469 Chain information for Y_NRouter.pdb #25 
    10470 --- 
    10471 Chain | Description 
    10472 A | No description available 
    10473 C | No description available 
    10474 K | No description available 
    10475 L | No description available 
    10476 M | No description available 
    10477 N | No description available 
    10478 O | No description available 
    10479 P | No description available 
    10480 Q | No description available 
    10481 R | No description available 
    10482 S | No description available 
    10483 T | No description available 
    10484  
    10485 
    10486 > open Nup133_propeller_CRinner.pdb
    10487 
    10488 Chain information for Nup133_propeller_CRinner.pdb #26 
    10489 --- 
    10490 Chain | Description 
    10491 K | No description available 
    10492  
    10493 
    10494 > open Nup133_propeller_CRouter.pdb
    10495 
    10496 Chain information for Nup133_propeller_CRouter.pdb #27 
    10497 --- 
    10498 Chain | Description 
    10499 K | No description available 
    10500  
    10501 
    10502 > open Nup133_propeller_NRinner.pdb
    10503 
    10504 Chain information for Nup133_propeller_NRinner.pdb #28 
    10505 --- 
    10506 Chain | Description 
    10507 K | No description available 
    10508  
    10509 
    10510 > open Nup133_propeller_NRouter.pdb
    10511 
    10512 Chain information for Nup133_propeller_NRouter.pdb #29 
    10513 --- 
    10514 Chain | Description 
    10515 K | No description available 
    10516  
    10517 
    10518 > open hNup155_CRconnector_CTD.pdb
    10519 
    10520 Chain information for hNup155_CRconnector_CTD.pdb #30 
    10521 --- 
    10522 Chain | Description 
    10523 D | No description available 
    10524  
    10525 
    10526 > open hNup155_CRconnector_NTD.pdb
    10527 
    10528 Chain information for hNup155_CRconnector_NTD.pdb #31 
    10529 --- 
    10530 Chain | Description 
    10531 D | No description available 
    10532  
    10533 
    10534 > open hNup155_NRconnector_CTD.pdb
    10535 
    10536 Chain information for hNup155_NRconnector_CTD.pdb #32 
    10537 --- 
    10538 Chain | Description 
    10539 D | No description available 
    10540  
    10541 
    10542 > open hNup155_NRconnector_NTD.pdb
    10543 
    10544 Chain information for hNup155_NRconnector_NTD.pdb #33 
    10545 --- 
    10546 Chain | Description 
    10547 D | No description available 
    10548  
    10549 
    10550 > open hNup358_1_CRinner.pdb
    10551 
    10552 Chain information for hNup358_1_CRinner.pdb #34 
    10553 --- 
    10554 Chain | Description 
    10555 0 | No description available 
    10556  
    10557 
    10558 > open hNup358_1_CRouter.pdb
    10559 
    10560 Chain information for hNup358_1_CRouter.pdb #35 
    10561 --- 
    10562 Chain | Description 
    10563 0 | No description available 
    10564  
    10565 
    10566 > open hNup358_2_CRinner.pdb
    10567 
    10568 Chain information for hNup358_2_CRinner.pdb #36 
    10569 --- 
    10570 Chain | Description 
    10571 0 | No description available 
    10572  
    10573 
    10574 > open hNup358_2_CRouter.pdb
    10575 
    10576 Chain information for hNup358_2_CRouter.pdb #37 
    10577 --- 
    10578 Chain | Description 
    10579 0 | No description available 
    10580  
    10581 
    10582 > open hNup358_CRmiddle.pdb
    10583 
    10584 Chain information for hNup358_CRmiddle.pdb #38 
    10585 --- 
    10586 Chain | Description 
    10587 0 | No description available 
    10588  
    10589 
    10590 > open hNup93_CR_outer.pdb
    10591 
    10592 Chain information for hNup93_CR_outer.pdb #39 
    10593 --- 
    10594 Chain | Description 
    10595 A | No description available 
    10596  
    10597 
    10598 > open hNup93_NR_outer.pdb
    10599 
    10600 Chain information for hNup93_NR_outer.pdb #40 
    10601 --- 
    10602 Chain | Description 
    10603 A | No description available 
    10604  
    10605 
    10606 > open hNups_IRcyt_inner.pdb
    10607 
    10608 Chain information for hNups_IRcyt_inner.pdb #41 
    10609 --- 
    10610 Chain | Description 
    10611 4 | No description available 
    10612 A | No description available 
    10613 C | No description available 
    10614 D | No description available 
    10615 E | No description available 
    10616 F | No description available 
    10617 H | No description available 
    10618 I | No description available 
    10619 J | No description available 
    10620 U | No description available 
    10621  
    10622 
    10623 > open hNups_IRcyt_outer.pdb
    10624 
    10625 Chain information for hNups_IRcyt_outer.pdb #42 
    10626 --- 
    10627 Chain | Description 
    10628 A | No description available 
    10629 B | No description available 
    10630 D | No description available 
    10631 F | No description available 
    10632 H | No description available 
    10633 I | No description available 
    10634 J | No description available 
    10635 U | No description available 
    10636  
    10637 
    10638 > open hNups_IRnuc_inner.pdb
    10639 
    10640 Chain information for hNups_IRnuc_inner.pdb #43 
    10641 --- 
    10642 Chain | Description 
    10643 4 | No description available 
    10644 A | No description available 
    10645 C | No description available 
    10646 D | No description available 
    10647 E | No description available 
    10648 F | No description available 
    10649 H | No description available 
    10650 I | No description available 
    10651 J | No description available 
    10652 U | No description available 
    10653  
    10654 
    10655 > open hNups_IRnuc_outer.pdb
    10656 
    10657 Chain information for hNups_IRnuc_outer.pdb #44 
    10658 --- 
    10659 Chain | Description 
    10660 A | No description available 
    10661 B | No description available 
    10662 D | No description available 
    10663 F | No description available 
    10664 H | No description available 
    10665 I | No description available 
    10666 J | No description available 
    10667 U | No description available 
    10668  
    10669 
    10670 > open hNup53_dimer_IRcyt_innerF7.pdb
    10671 
    10672 Chain information for hNup53_dimer_IRcyt_innerF7.pdb #45 
    10673 --- 
    10674 Chain | Description 
    10675 F | No description available 
    10676  
    10677 
    10678 > open hNup53_dimer_IRcyt_outerG7.pdb
    10679 
    10680 Chain information for hNup53_dimer_IRcyt_outerG7.pdb #46 
    10681 --- 
    10682 Chain | Description 
    10683 F | No description available 
    10684  
    10685 
    10686 > open hNup53_dimer_IRnuc_innerF0.pdb
    10687 
    10688 Chain information for hNup53_dimer_IRnuc_innerF0.pdb #47 
    10689 --- 
    10690 Chain | Description 
    10691 F | No description available 
    10692  
    10693 
    10694 > open hNup53_dimer_IRnuc_outerG0.pdb
    10695 
    10696 Chain information for hNup53_dimer_IRnuc_outerG0.pdb #48 
    10697 --- 
    10698 Chain | Description 
    10699 F | No description available 
    10700  
    10701 
    10702 > open hGp210.pdb
    10703 
    10704 Chain information for hGp210.pdb #49 
    10705 --- 
    10706 Chain | Description 
    10707 10 11 12 13 14 15 16 17 | No description available 
    10708  
    10709 
    10710 > show #!13 models
    10711 
    10712 > close #26-30,32,34-40,45-49#22-25,31,33,41-44
    10713 
    10714 > open /Users/kosinski/Desktop/FluNPC_paper/s127_fits/s127_unit_fit.cif id 100
    10715 
    10716 Summary of feedback from opening
    10717 /Users/kosinski/Desktop/FluNPC_paper/s127_fits/s127_unit_fit.cif 
    10718 --- 
    10719 warnings | Missing entity information. Treating each chain as a separate entity. 
    10720 Missing or incomplete sequence information. Inferred polymer connectivity. 
    10721  
    10722  
    10723 Chain information for s127_unit_fit.cif #22 
    10724 --- 
    10725 Chain | Description 
    10726 00 10 20 30 40 50 60 70 | No description available 
    10727 01 02 03 04 05 | No description available 
    10728 41 42 | No description available 
    10729 A0 | No description available 
    10730 A1 A2 | No description available 
    10731 A3 A4 | No description available 
    10732 A5 A6 A7 A8 | No description available 
    10733 B0 B1 | No description available 
    10734 C0 C1 C2 C3 C4 | No description available 
    10735 D0 D2 | No description available 
    10736 D1 D3 | No description available 
    10737 D4 D5 D6 D7 | No description available 
    10738 E0 E1 | No description available 
    10739 F0 F1 F2 F3 | No description available 
    10740 F4 F5 F6 F7 | No description available 
    10741 H0 H1 H2 H3 | No description available 
    10742 I0 I1 I2 I3 | No description available 
    10743 J0 J1 J2 J3 J4 | No description available 
    10744 K0 K1 K2 K3 | No description available 
    10745 K4 K5 K6 K7 | No description available 
    10746 L0 L1 L2 L3 | No description available 
    10747 M0 M1 M2 M3 | No description available 
    10748 N0 N1 N2 N3 | No description available 
    10749 O0 O1 O2 O3 | No description available 
    10750 P0 P1 P2 P3 | No description available 
    10751 Q0 Q1 Q2 Q3 | No description available 
    10752 R0 R1 R2 R3 | No description available 
    10753 S0 S1 S2 S3 | No description available 
    10754 T0 T1 | No description available 
    10755 U0 | No description available 
    10756 U1 U2 U3 U4 | No description available 
    10757 V0 | No description available 
    10758 W0 | No description available 
    10759  
    10760 
    10761 > hide #!100 atoms
    10762 
    10763 > show #!100 cartoons
    10764 
    10765 > cd /Users/kosinski/Desktop/FluNPC_paper/
    10766 
    10767 Current working directory is: /Users/kosinski/Desktop/FluNPC_paper 
    10768 
    10769 > open MAPS/fullAlign/refs/ref_s114_8_symmetrized.em
    10770 
    10771 Opened ref_s114_8_symmetrized.em as #22, grid size 128,128,128, pixel 1, shown
    10772 at level 0.0637, step 1, values float32 
    10773 
    10774 > open MAPS/fullAlign/refs/ref_s127_8_symmetrized.em
    10775 
    10776 Opened ref_s127_8_symmetrized.em as #23, grid size 128,128,128, pixel 1, shown
    10777 at level 0.0711, step 1, values float32 
    10778 
    10779 > open MAPS/fullAlign/refs/ref_s140_8_symmetrized.em
    10780 
    10781 Opened ref_s140_8_symmetrized.em as #24, grid size 128,128,128, pixel 1, shown
    10782 at level 0.0919, step 1, values float32 
    10783 
    10784 > open MAPS/fullAlign/refs/ref_s162_8_symmetrized.em
    10785 
    10786 Opened ref_s162_8_symmetrized.em as #25, grid size 128,128,128, pixel 1, shown
    10787 at level 0.115, step 1, values float32 
    10788 
    10789 > open MAPS/fullAlign/refs/ref_s200_8_symmetrized.em
    10790 
    10791 Opened ref_s200_8_symmetrized.em as #26, grid size 128,128,128, pixel 1, shown
    10792 at level 0.159, step 1, values float32 
    10793 
    10794 > volume #22-26 voxelSize 13.34
    10795 
    10796 > vop scale #22-26 factor -1
    10797 
    10798 Opened ref_s114_8_symmetrized.em scaled as #27, grid size 128,128,128, pixel
    10799 13.3, shown at step 1, values float32 
    10800 Opened ref_s127_8_symmetrized.em scaled as #28, grid size 128,128,128, pixel
    10801 13.3, shown at step 1, values float32 
    10802 Opened ref_s140_8_symmetrized.em scaled as #29, grid size 128,128,128, pixel
    10803 13.3, shown at step 1, values float32 
    10804 Opened ref_s162_8_symmetrized.em scaled as #30, grid size 128,128,128, pixel
    10805 13.3, shown at step 1, values float32 
    10806 Opened ref_s200_8_symmetrized.em scaled as #31, grid size 128,128,128, pixel
    10807 13.3, shown at step 1, values float32 
     1853[deleted to fit within ticket limits]
    108081854
    108091855> close #22-31