Changes between Initial Version and Version 1 of Ticket #16539


Ignore:
Timestamp:
Dec 27, 2024, 11:48:14 AM (12 months ago)
Author:
Eric Pettersen
Comment:

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #16539

    • Property Cc Tom Goddard added
    • Property Component Unassigned → Core
    • Property Owner set to Eric Pettersen
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → accepted
    • Property Summary ChimeraX bug report submission → Crash in python_instances_of_class

  • Ticket #16539 – Description

    initial v1  
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    1478   {
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    1485     "name" : "_bisect.cpython-311-darwin.so"
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    1487   {
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    1496   {
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    1501     "uuid" : "dc7a591b-ef8a-3b77-9396-ecee27303fdb",
    1502     "path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_bz2.cpython-311-darwin.so",
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    1520     "path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_typing.cpython-311-darwin.so",
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    1530     "name" : "_datetime.cpython-311-darwin.so"
    1531   },
    1532   {
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    1537     "uuid" : "51d31d0d-1dcc-31ad-b6c1-73d57e544a3a",
    1538     "path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/math.cpython-311-darwin.so",
    1539     "name" : "math.cpython-311-darwin.so"
    1540   },
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    1545     "CFBundleShortVersionString" : "3.11.4, (c) 2001-2023 Python Software Foundation.",
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    1548     "uuid" : "88bffd37-99d8-36ab-9b95-9f54b30bd667",
    1549     "path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/Python",
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    1552   },
    1553   {
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    1560     "uuid" : "17982d98-65bc-3327-8526-577ec996453c",
    1561     "path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
    1562     "name" : "ChimeraX",
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    1565   {
    1566     "source" : "P",
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    1568     "base" : 6561755136,
    1569     "size" : 241648,
    1570     "uuid" : "b7751381-1442-30b5-91b9-ad7be461bebe",
    1571     "path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
    1572     "name" : "libsystem_kernel.dylib"
    1573   },
    1574   {
    1575     "source" : "P",
    1576     "arch" : "arm64e",
    1577     "base" : 6561996800,
    1578     "size" : 53236,
    1579     "uuid" : "daf95373-5de6-39a1-a6ce-d87f3f0629cc",
    1580     "path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
    1581     "name" : "libsystem_pthread.dylib"
    1582   },
    1583   {
    1584     "source" : "P",
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    1586     "base" : 6560555008,
    1587     "size" : 520188,
    1588     "uuid" : "decb8685-f34a-3979-afcb-71fb55747e41",
    1589     "path" : "\/usr\/lib\/system\/libsystem_c.dylib",
    1590     "name" : "libsystem_c.dylib"
    1591   },
    1592   {
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    1596     "size" : 28668,
    1597     "uuid" : "fc8cd17b-8769-348c-8dcd-1bfed022f9e4",
    1598     "path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
    1599     "name" : "libsystem_platform.dylib"
    1600   },
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    1602     "source" : "P",
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    1605     "size" : 71248,
    1606     "uuid" : "11af0ca9-8d53-3157-8786-188ceb26a7bc",
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    1609   },
    1610   {
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    1616     "size" : 5079040,
    1617     "uuid" : "9f046e36-7286-3a6e-a280-699d6e47cfaf",
    1618     "path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
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    1629     "uuid" : "4dffb7eb-bbcd-3ff6-a203-5a0b97358ee8",
    1630     "path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
    1631     "name" : "HIToolbox"
    1632   },
    1633   {
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    1636     "base" : 6621253632,
    1637     "CFBundleShortVersionString" : "6.9",
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    1640     "uuid" : "b475e541-691d-39c6-8ca4-e414b0d3dd88",
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    1642     "name" : "AppKit",
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    1650     "uuid" : "ec7a3ba0-f9bf-3ab8-a0f4-8622e5606b20",
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    1665     "uuid" : "3702eede-997d-38e6-a6a1-c08eb22c375b",
    1666     "path" : "\/usr\/lib\/libc++.1.dylib",
    1667     "name" : "libc++.1.dylib"
    1668   },
    1669   {
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    1673     "CFBundleShortVersionString" : "6.9",
    1674     "CFBundleIdentifier" : "com.apple.Foundation",
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    1676     "uuid" : "2126fd9a-52ce-3eb2-8640-b57535e073b8",
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    1678     "name" : "Foundation",
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    1681   {
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    1685     "size" : 290816,
    1686     "uuid" : "dc1d0187-7149-3100-bc63-f633afebee6c",
    1687     "path" : "\/usr\/lib\/system\/libdispatch.dylib",
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     86[deleted to fit within ticket limits]
    169087],
    169188  "sharedCache" : {
    … …  
    33551752 
    33561753
    3357 > fitmap #5 inMap #6.1
    3358 
    3359 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3360 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3361 average map value = 0.2233, steps = 44 
    3362 shifted from previous position = 0.00593 
    3363 rotated from previous position = 0.00158 degrees 
    3364 atoms outside contour = 5079, contour level = 0.3 
    3365  
    3366 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3367 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3368 Matrix rotation and translation 
    3369 -0.86184779 -0.20744754 0.46280025 269.54484210 
    3370 0.25986052 -0.96426121 0.05169967 275.32840609 
    3371 0.43553533 0.16482076 0.88495375 208.72644804 
    3372 Axis 0.23489711 0.05661588 0.97037003 
    3373 Axis point 93.17741397 144.38368842 0.00000000 
    3374 Rotation angle (degrees) 166.06691234 
    3375 Shift along axis 281.44515292 
    3376  
    3377 
    3378 > view matrix models
    3379 > #5,-0.6789,-0.60094,0.42186,270.17,0.57928,-0.79142,-0.19516,278.17,0.45115,0.11188,0.88541,208.74
    3380 
    3381 > fitmap #5 inMap #6.1
    3382 
    3383 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3384 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3385 average map value = 0.2285, steps = 72 
    3386 shifted from previous position = 2.83 
    3387 rotated from previous position = 2.98 degrees 
    3388 atoms outside contour = 5068, contour level = 0.3 
    3389  
    3390 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3391 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3392 Matrix rotation and translation 
    3393 -0.64688894 -0.63756517 0.41838440 271.12509035 
    3394 0.60302050 -0.76350950 -0.23112672 280.16175904 
    3395 0.46679878 0.10278106 0.87837065 210.65682837 
    3396 Axis 0.25971941 -0.03765757 0.96494960 
    3397 Axis point 52.50293709 182.43808619 0.00000000 
    3398 Rotation angle (degrees) 139.99727452 
    3399 Shift along axis 263.13946110 
    3400  
    3401 
    3402 > view matrix models
    3403 > #5,-0.5086,-0.78441,0.355,271.89,0.71132,-0.61512,-0.34007,281.24,0.48513,0.079561,0.87082,210.75
    3404 
    3405 > color single #6.1
    3406 
    3407 > view matrix models
    3408 > #5,-0.66603,-0.60539,0.43577,271.15,0.57055,-0.78979,-0.22518,279.65,0.48049,0.098657,0.87143,210.77
    3409 
    3410 > view matrix models
    3411 > #5,-0.23072,-0.92547,0.30045,274.76,0.85683,-0.33957,-0.38798,283.98,0.46109,0.16792,0.87132,210.77
    3412 
    3413 > hide sel atoms
    3414 
    3415 > show sel surfaces
    3416 
    3417 > fitmap #5 inMap #6.1
    3418 
    3419 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3420 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3421 average map value = 0.2064, steps = 92 
    3422 shifted from previous position = 2.63 
    3423 rotated from previous position = 3.2 degrees 
    3424 atoms outside contour = 5292, contour level = 0.3 
    3425  
    3426 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3427 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3428 Matrix rotation and translation 
    3429 -0.27053927 -0.92321025 0.27293118 273.07213866 
    3430 0.83794118 -0.36539768 -0.40538775 282.15665118 
    3431 0.47398652 0.11902696 0.87245024 209.94673637 
    3432 Axis 0.28369179 -0.10876459 0.95272726 
    3433 Axis point -3.19686248 224.34573591 0.00000000 
    3434 Rotation angle (degrees) 112.44171112 
    3435 Shift along axis 246.80165072 
    3436  
    3437 
    3438 > fitmap #5 inMap #6.1
    3439 
    3440 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3441 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3442 average map value = 0.2064, steps = 40 
    3443 shifted from previous position = 0.00692 
    3444 rotated from previous position = 0.0052 degrees 
    3445 atoms outside contour = 5297, contour level = 0.3 
    3446  
    3447 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3448 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3449 Matrix rotation and translation 
    3450 -0.27052944 -0.92322124 0.27290375 273.06781387 
    3451 0.83790712 -0.36538624 -0.40546845 282.15753646 
    3452 0.47405233 0.11897684 0.87242132 209.95217338 
    3453 Axis 0.28370881 -0.10881521 0.95271641 
    3454 Axis point -3.20720533 224.35050580 0.00000000 
    3455 Rotation angle (degrees) 112.44194808 
    3456 Shift along axis 246.79359358 
    3457  
    3458 
    3459 > view matrix models
    3460 > #5,0.026707,-0.98737,0.15619,275.92,0.88851,-0.04815,-0.45632,283.7,0.45807,0.15096,0.876,209.89
    3461 
    3462 > fitmap #5 inMap #6.1
    3463 
    3464 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3465 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3466 average map value = 0.1963, steps = 56 
    3467 shifted from previous position = 1.1 
    3468 rotated from previous position = 2.11 degrees 
    3469 atoms outside contour = 5413, contour level = 0.3 
    3470  
    3471 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3472 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3473 Matrix rotation and translation 
    3474 0.02718220 -0.99142806 0.12779507 276.68679327 
    3475 0.89853831 -0.03178953 -0.43774249 283.58282842 
    3476 0.43805271 0.12672757 0.88997191 210.68315932 
    3477 Axis 0.28269978 -0.15538426 0.94653926 
    3478 Axis point -52.66755409 264.15549349 0.00000000 
    3479 Rotation angle (degrees) 93.28586355 
    3480 Shift along axis 233.57486771 
    3481  
    3482 
    3483 > view matrix models
    3484 > #5,0.36536,-0.93084,-0.0065788,280.45,0.83791,0.33194,-0.43327,284.24,0.40549,0.15279,0.90124,210.43
    3485 
    3486 > fitmap #5 inMap #6.1
    3487 
    3488 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3489 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3490 average map value = 0.204, steps = 76 
    3491 shifted from previous position = 2.21 
    3492 rotated from previous position = 3.58 degrees 
    3493 atoms outside contour = 5381, contour level = 0.3 
    3494  
    3495 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3496 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3497 Matrix rotation and translation 
    3498 0.37987730 -0.92335842 -0.05570006 279.57310710 
    3499 0.80936592 0.36092833 -0.46331169 283.40449551 
    3500 0.44790645 0.13091986 0.88444325 212.32153790 
    3501 Axis 0.31279398 -0.26509041 0.91207839 
    3502 Axis point -152.67752638 335.54057558 0.00000000 
    3503 Rotation angle (degrees) 71.78253833 
    3504 Shift along axis 205.97485855 
    3505  
    3506 
    3507 > view matrix models
    3508 > #5,0.69598,-0.6886,-0.20357,283.6,0.59494,0.71173,-0.37348,282.64,0.40207,0.13882,0.90503,211.9
    3509 
    3510 > fitmap #5 inMap #6.1
    3511 
    3512 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3513 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3514 average map value = 0.1951, steps = 76 
    3515 shifted from previous position = 3.29 
    3516 rotated from previous position = 2.37 degrees 
    3517 atoms outside contour = 5454, contour level = 0.3 
    3518  
    3519 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3520 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3521 Matrix rotation and translation 
    3522 0.67704411 -0.70505448 -0.21097276 280.85024903 
    3523 0.59526748 0.69320935 -0.40634662 283.15120944 
    3524 0.43274477 0.14952936 0.88902924 213.70456301 
    3525 Axis 0.35775903 -0.41429342 0.83688078 
    3526 Axis point -344.23595019 473.80908714 0.00000000 
    3527 Rotation angle (degrees) 50.97633601 
    3528 Shift along axis 162.01427229 
    3529  
    3530 
    3531 > view matrix models
    3532 > #5,0.83735,-0.41047,-0.36106,282.86,0.2975,0.89625,-0.32897,280.47,0.45863,0.16804,0.87259,213.99
    3533 
    3534 > fitmap #5 inMap #6.1
    3535 
    3536 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3537 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3538 average map value = 0.2013, steps = 84 
    3539 shifted from previous position = 2.38 
    3540 rotated from previous position = 4.59 degrees 
    3541 atoms outside contour = 5354, contour level = 0.3 
    3542  
    3543 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3544 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3545 Matrix rotation and translation 
    3546 0.84895330 -0.44251715 -0.28888919 281.25036229 
    3547 0.33577695 0.87380339 -0.35174078 281.58522318 
    3548 0.40808366 0.20160915 0.89040526 215.39147688 
    3549 Axis 0.46804917 -0.58953213 0.65831744 
    3550 Axis point -736.57337244 773.35801332 0.00000000 
    3551 Rotation angle (degrees) 36.23678869 
    3552 Shift along axis 107.43142637 
    3553  
    3554 
    3555 > fitmap #5 inMap #6.1
    3556 
    3557 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3558 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3559 average map value = 0.2013, steps = 48 
    3560 shifted from previous position = 0.00089 
    3561 rotated from previous position = 0.00397 degrees 
    3562 atoms outside contour = 5353, contour level = 0.3 
    3563  
    3564 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3565 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3566 Matrix rotation and translation 
    3567 0.84891744 -0.44255881 -0.28893076 281.25049233 
    3568 0.33580874 0.87378995 -0.35174384 281.58454266 
    3569 0.40813210 0.20157599 0.89039057 215.39106164 
    3570 Axis 0.46798914 -0.58956472 0.65833093 
    3571 Axis point -736.44716202 773.34096837 0.00000000 
    3572 Rotation angle (degrees) 36.23989064 
    3573 Shift along axis 107.40846204 
    3574  
    3575 
    3576 > view matrix models
    3577 > #5,0.84892,-0.44256,-0.28893,276.65,0.33581,0.87379,-0.35174,278.45,0.40813,0.20158,0.89039,215.52
    3578 
    3579 > view matrix models
    3580 > #5,0.89284,-0.32015,-0.31676,277.5,0.21934,0.92339,-0.31503,277.35,0.39335,0.21179,0.89466,215.39
    3581 
    3582 > fitmap #5 inMap #6.1
    3583 
    3584 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3585 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3586 average map value = 0.2216, steps = 84 
    3587 shifted from previous position = 2.03 
    3588 rotated from previous position = 2.71 degrees 
    3589 atoms outside contour = 5076, contour level = 0.3 
    3590  
    3591 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3592 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3593 Matrix rotation and translation 
    3594 0.90218851 -0.31201571 -0.29782916 276.67350252 
    3595 0.23143169 0.93282061 -0.27619771 275.45677762 
    3596 0.36399918 0.18025529 0.91379028 215.03841020 
    3597 Axis 0.47036989 -0.68200696 0.56001668 
    3598 Axis point -276.24953855 0.00000000 920.66698705 
    3599 Rotation angle (degrees) 29.02599687 
    3600 Shift along axis 62.70054124 
    3601  
    3602 
    3603 > view matrix models
    3604 > #5,0.86609,-0.32292,-0.38159,275.28,0.19903,0.92299,-0.32935,274.42,0.45855,0.20929,0.86367,216.02
    3605 
    3606 > fitmap #5 inMap #6.1
    3607 
    3608 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3609 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3610 average map value = 0.2302, steps = 112 
    3611 shifted from previous position = 1.79 
    3612 rotated from previous position = 4.15 degrees 
    3613 atoms outside contour = 4999, contour level = 0.3 
    3614  
    3615 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3616 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3617 Matrix rotation and translation 
    3618 0.83536176 -0.32134947 -0.44598809 276.97769827 
    3619 0.17839127 0.92589719 -0.33300305 275.01292300 
    3620 0.51994945 0.19861763 0.83078497 215.73876503 
    3621 Axis 0.43916151 -0.79794221 0.41282611 
    3622 Axis point -193.67900632 0.00000000 701.15030179 
    3623 Rotation angle (degrees) 37.24811585 
    3624 Shift along axis -8.74388201 
    3625  
    3626 
    3627 > view matrix models
    3628 > #5,0.87194,-0.31269,-0.37675,278.22,0.20973,0.93386,-0.28969,275.92,0.44241,0.17358,0.87985,215.01
    3629 
    3630 > view matrix models
    3631 > #5,0.88596,-0.2279,-0.4039,278.5,0.13536,0.96008,-0.24481,275.41,0.44357,0.16222,0.88144,215
    3632 
    3633 > view matrix models
    3634 > #5,0.88787,-0.22739,-0.39997,278.57,0.13694,0.96054,-0.2421,275.46,0.43924,0.16018,0.88397,214.95
    3635 
    3636 > view matrix models
    3637 > #5,0.87701,-0.23031,-0.42166,278.19,0.12799,0.9579,-0.257,275.17,0.4631,0.17143,0.86957,215.2
    3638 
    3639 > fitmap #5 inMap #6.1
    3640 
    3641 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3642 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3643 average map value = 0.2137, steps = 88 
    3644 shifted from previous position = 0.999 
    3645 rotated from previous position = 1.81 degrees 
    3646 atoms outside contour = 5103, contour level = 0.3 
    3647  
    3648 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3649 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3650 Matrix rotation and translation 
    3651 0.88091123 -0.20271490 -0.42767067 279.17604893 
    3652 0.09660782 0.96162023 -0.25681419 275.19398071 
    3653 0.46331681 0.18491417 0.86668584 215.03556861 
    3654 Axis 0.42533367 -0.85791859 0.28821340 
    3655 Axis point -273.01656401 0.00000000 783.87914541 
    3656 Rotation angle (degrees) 31.28347901 
    3657 Shift along axis -55.37492847 
    3658  
    3659 
    3660 > view matrix models
    3661 > #5,0.87055,0.14336,-0.47074,280.09,-0.20679,0.97463,-0.085608,272.58,0.44653,0.17187,0.87811,214.85
    3662 
    3663 > fitmap #5 inMap #6.1
    3664 
    3665 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3666 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3667 average map value = 0.2189, steps = 64 
    3668 shifted from previous position = 2.32 
    3669 rotated from previous position = 2.81 degrees 
    3670 atoms outside contour = 5184, contour level = 0.3 
    3671  
    3672 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3673 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3674 Matrix rotation and translation 
    3675 0.86819724 0.12611174 -0.47992660 281.51228225 
    3676 -0.21364095 0.96793504 -0.13213382 272.67927531 
    3677 0.44787412 0.21725018 0.86730109 212.99487619 
    3678 Axis 0.33337997 -0.88530150 -0.32418984 
    3679 Axis point -92.85272933 0.00000000 762.53715408 
    3680 Rotation angle (degrees) 31.60112633 
    3681 Shift along axis -216.60358880 
    3682  
    3683 
    3684 > fitmap #5 inMap #6.1
    3685 
    3686 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3687 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3688 average map value = 0.2189, steps = 48 
    3689 shifted from previous position = 0.0135 
    3690 rotated from previous position = 0.0221 degrees 
    3691 atoms outside contour = 5186, contour level = 0.3 
    3692  
    3693 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3694 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3695 Matrix rotation and translation 
    3696 0.86838142 0.12601041 -0.47961991 281.50397368 
    3697 -0.21353283 0.96793495 -0.13230912 272.67516860 
    3698 0.44756852 0.21730937 0.86744401 212.98449013 
    3699 Axis 0.33377306 -0.88516634 -0.32415444 
    3700 Axis point -93.10031564 0.00000000 763.10639364 
    3701 Rotation angle (degrees) 31.58324436 
    3702 Shift along axis -216.44430575 
    3703  
    3704 
    3705 > view matrix models
    3706 > #5,0.86838,0.12601,-0.47962,275.82,-0.21353,0.96793,-0.13231,268.42,0.44757,0.21731,0.86744,212.33
    3707 
    3708 > view matrix models
    3709 > #5,0.87623,0.12768,-0.46468,276.08,-0.20619,0.97088,-0.12202,268.64,0.43556,0.20273,0.87703,212.19
    3710 
    3711 > fitmap #5 inMap #6.1
    3712 
    3713 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3714 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3715 average map value = 0.2328, steps = 80 
    3716 shifted from previous position = 0.939 
    3717 rotated from previous position = 4.77 degrees 
    3718 atoms outside contour = 4978, contour level = 0.3 
    3719  
    3720 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3721 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3722 Matrix rotation and translation 
    3723 0.88205945 0.05810053 -0.46754211 275.27467971 
    3724 -0.12558239 0.98545811 -0.11446141 269.07765819 
    3725 0.45409287 0.15967682 0.87652897 212.42706787 
    3726 Axis 0.28003889 -0.94147264 -0.18763658 
    3727 Axis point -171.46403197 0.00000000 761.45845571 
    3728 Rotation angle (degrees) 29.30539257 
    3729 Shift along axis -216.10072571 
    3730  
    3731 
    3732 > fitmap #5 inMap #6.1
    3733 
    3734 Fit molecule fold_corndog_48_terminator_6mer_model_0.cif (#5) to map
    3735 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 7296 atoms 
    3736 average map value = 0.2327, steps = 64 
    3737 shifted from previous position = 0.0235 
    3738 rotated from previous position = 0.0177 degrees 
    3739 atoms outside contour = 4985, contour level = 0.3 
    3740  
    3741 Position of fold_corndog_48_terminator_6mer_model_0.cif (#5) relative to
    3742 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3743 Matrix rotation and translation 
    3744 0.88208159 0.05786262 -0.46752983 275.26378002 
    3745 -0.12546106 0.98544058 -0.11474510 269.09161802 
    3746 0.45408339 0.15987133 0.87649843 212.41111279 
    3747 Axis 0.28051415 -0.94140598 -0.18726078 
    3748 Axis point -171.61695001 0.00000000 761.57602984 
    3749 Rotation angle (degrees) 29.30691049 
    3750 Shift along axis -215.88534243 
    3751  
    3752 
    3753 > hide sel surfaces
    3754 
    3755 > show sel cartoons
    3756 
    3757 > select #5/D:1
    3758 
    3759 8 atoms, 7 bonds, 1 residue, 1 model selected 
    3760 
    3761 > select up
    3762 
    3763 208 atoms, 214 bonds, 27 residues, 2 models selected 
    3764 
    3765 > select up
    3766 
    3767 1216 atoms, 1242 bonds, 150 residues, 2 models selected 
    3768 
    3769 > save "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    3770 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Terminator_1.pdb"
    3771 > models #5 selectedOnly true relModel #6.1.1
    3772 
    3773 > hide #!5 models
    3774 
    3775 > show #!5 models
    3776 
    3777 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    3778 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Terminator_1.pdb"
    3779 
    3780 Summary of feedback from opening /Users/melvinshen/Desktop/Sinica /Protein
    3781 Purification/New Phage Proteins/Structure/CryoEM/cryosparc/Corndog
    3782 /Connector/Terminator_1.pdb 
    3783 --- 
    3784 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA A 28 TRP A 35 1 8 
    3785 Start residue of secondary structure not found: HELIX 2 2 LEU A 36 GLU A 38 1
    3786 3 
    3787 Start residue of secondary structure not found: HELIX 3 3 LYS A 83 ASP A 85 1
    3788 3 
    3789 Start residue of secondary structure not found: HELIX 4 4 GLU A 87 LEU A 108 1
    3790 22 
    3791 Start residue of secondary structure not found: HELIX 5 5 ALA B 28 GLY B 37 1
    3792 10 
    3793 44 messages similar to the above omitted 
    3794  
    3795 Chain information for Terminator_1.pdb #14 
    3796 --- 
    3797 Chain | Description 
    3798 D | No description available 
    3799  
    3800 
    3801 > hide #!5 models
    3802 
    3803 > fitmap #14 inMap #6.1
    3804 
    3805 Fit molecule Terminator_1.pdb (#14) to map P2_J357_007_volume_map_sharp_C6.mrc
    3806 0 (#6.1) using 1216 atoms 
    3807 average map value = 0.2799, steps = 140 
    3808 shifted from previous position = 3.1 
    3809 rotated from previous position = 8.3 degrees 
    3810 atoms outside contour = 785, contour level = 0.3 
    3811  
    3812 Position of Terminator_1.pdb (#14) relative to
    3813 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3814 Matrix rotation and translation 
    3815 0.99255496 -0.11767376 0.03142502 24.59341301 
    3816 0.11976623 0.98988095 -0.07610362 -12.10150393 
    3817 -0.02215163 0.07930068 0.99660459 -12.63875860 
    3818 Axis 0.53812525 0.18552224 0.82219384 
    3819 Axis point 118.76094476 198.74932954 0.00000000 
    3820 Rotation angle (degrees) 8.30219832 
    3821 Shift along axis 0.59772883 
    3822  
    3823 
    3824 > hide #14 models
    3825 
    3826 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    3827 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    3828 > Models/Terminator_1-coot-0.pdb"
    3829 
    3830 Summary of feedback from opening /Users/melvinshen/Desktop/Sinica /Protein
    3831 Purification/New Phage Proteins/Structure/CryoEM/cryosparc/Corndog
    3832 /Connector/Fitted Models/Terminator_1-coot-0.pdb 
    3833 --- 
    3834 warnings | Start residue of secondary structure not found: HELIX 1 1 ALA A 28 TRP A 35 1 8 
    3835 Start residue of secondary structure not found: HELIX 2 2 LEU A 36 GLU A 38 1
    3836 3 
    3837 Start residue of secondary structure not found: HELIX 3 3 LYS A 83 ASP A 85 1
    3838 3 
    3839 Start residue of secondary structure not found: HELIX 4 4 GLU A 87 LEU A 108 1
    3840 22 
    3841 Start residue of secondary structure not found: HELIX 5 5 ALA B 28 GLY B 37 1
    3842 10 
    3843 44 messages similar to the above omitted 
    3844  
    3845 Chain information for Terminator_1-coot-0.pdb #15 
    3846 --- 
    3847 Chain | Description 
    3848 D | No description available 
    3849  
    3850 
    3851 > fitmap #15 inMap #6.1
    3852 
    3853 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    3854 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    3855 average map value = 0.6509, steps = 76 
    3856 shifted from previous position = 0.0592 
    3857 rotated from previous position = 0.112 degrees 
    3858 atoms outside contour = 539, contour level = 0.3 
    3859  
    3860 Position of Terminator_1-coot-0.pdb (#15) relative to
    3861 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3862 Matrix rotation and translation 
    3863 0.99999964 0.00080783 -0.00027481 -0.18021335 
    3864 -0.00080831 0.99999813 -0.00175660 0.57662811 
    3865 0.00027339 0.00175682 0.99999842 -0.53635474 
    3866 Axis 0.89950081 -0.14034861 -0.41376388 
    3867 Axis point 0.00000000 310.56361631 326.24756224 
    3868 Rotation angle (degrees) 0.11189757 
    3869 Shift along axis -0.02110679 
    3870  
    3871 
    3872 > hide #!3 models
    3873 
    3874 > volume zone #6.1 nearAtoms #15 range 6.37
    3875 
    3876 > transparency #6.1.1 50
    3877 
    3878 > view matrix models
    3879 > #5,0.88208,0.057863,-0.46753,283.63,-0.12546,0.98544,-0.11475,276.26,0.45408,0.15987,0.8765,210.98
    3880 
    3881 > volume #!6.1 region all imageMode "full region"
    3882 
    3883 > volume unzone #!6.1
    3884 
    3885 > mousemode rightMode "crop volume"
    3886 
    3887 > volume #!6.1 style surface
    3888 
    3889 > surface dust #6.1 size 10.6
    3890 
    3891 > fitmap #15 inMap #6.1
    3892 
    3893 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    3894 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    3895 average map value = 0.6509, steps = 48 
    3896 shifted from previous position = 0.00473 
    3897 rotated from previous position = 0.00878 degrees 
    3898 atoms outside contour = 539, contour level = 0.3 
    3899  
    3900 Position of Terminator_1-coot-0.pdb (#15) relative to
    3901 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3902 Matrix rotation and translation 
    3903 0.99999956 0.00090030 -0.00025597 -0.20529067 
    3904 -0.00090078 0.99999783 -0.00187734 0.63305720 
    3905 0.00025428 0.00187757 0.99999821 -0.56022086 
    3906 Axis 0.89494936 -0.12161480 -0.42927321 
    3907 Axis point 0.00000000 303.32051713 335.54900728 
    3908 Rotation angle (degrees) 0.12019715 
    3909 Shift along axis -0.02022607 
    3910  
    3911 
    3912 > fitmap #15 inMap #6.1
    3913 
    3914 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    3915 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    3916 average map value = 0.6509, steps = 64 
    3917 shifted from previous position = 0.00516 
    3918 rotated from previous position = 0.00514 degrees 
    3919 atoms outside contour = 538, contour level = 0.3 
    3920  
    3921 Position of Terminator_1-coot-0.pdb (#15) relative to
    3922 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3923 Matrix rotation and translation 
    3924 0.99999962 0.00081760 -0.00029087 -0.17980925 
    3925 -0.00081814 0.99999790 -0.00187840 0.60527184 
    3926 0.00028933 0.00187864 0.99999819 -0.56948079 
    3927 Axis 0.90781413 -0.14019494 -0.39524535 
    3928 Axis point 0.00000000 308.28290075 320.16592816 
    3929 Rotation angle (degrees) 0.11856090 
    3930 Shift along axis -0.02300480 
    3931  
    3932 
    3933 > fitmap #15 inMap #6.1
    3934 
    3935 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    3936 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    3937 average map value = 0.6509, steps = 60 
    3938 shifted from previous position = 0.00196 
    3939 rotated from previous position = 0.00671 degrees 
    3940 atoms outside contour = 538, contour level = 0.3 
    3941  
    3942 Position of Terminator_1-coot-0.pdb (#15) relative to
    3943 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    3944 Matrix rotation and translation 
    3945 0.99999963 0.00080634 -0.00030619 -0.17438195 
    3946 -0.00080688 0.99999812 -0.00176290 0.57910944 
    3947 0.00030477 0.00176315 0.99999840 -0.54663126 
    3948 Axis 0.89826479 -0.15564211 -0.41096945 
    3949 Axis point 0.00000000 315.48536202 326.20850427 
    3950 Rotation angle (degrees) 0.11245438 
    3951 Shift along axis -0.02212623 
    3952  
    3953 
    3954 > volume zone #6.1 nearAtoms #15 range 6.37
    3955 
    3956 > hide #15 models
    3957 
    3958 > show #15 models
    3959 
    3960 > hide #15 models
    3961 
    3962 > show #14 models
    3963 
    3964 > surface dust #6.1 size 10.6
    3965 
    3966 > select add #14
    3967 
    3968 2432 atoms, 2484 bonds, 300 residues, 3 models selected 
    3969 
    3970 > volume #6.1 region 0,0,0,511,511,511
    3971 
    3972 > select subtract #14
    3973 
    3974 1216 atoms, 1242 bonds, 150 residues, 2 models selected 
    3975 
    3976 > volume #6.1 region 0,7,0,511,511,511
    3977 
    3978 > ui mousemode right "translate selected models"
    3979 
    3980 > select add #14
    3981 
    3982 2432 atoms, 2484 bonds, 300 residues, 3 models selected 
    3983 
    3984 > ui mousemode right "map eraser"
    3985 
    3986 > volume erase #6.1 center 241.17,301.83,217.62 radius 46.56
    3987 
    3988 Opened P2_J357_007_volume_map_sharp_C6.mrc 0 copy as #17, grid size
    3989 512,505,512, pixel 1.06, shown at step 1, values float32 
    3990 
    3991 > surface dust #17 size 10.6
    3992 
    3993 > ui mousemode right "translate selected models"
    3994 
    3995 > close #16
    3996 
    3997 > view matrix models
    3998 > #5,0.88208,0.057863,-0.46753,284.17,-0.12546,0.98544,-0.11475,276.69,0.45408,0.15987,0.8765,210.53,#14,0.99255,-0.11767,0.031425,25.129,0.11977,0.98988,-0.076104,-11.673,-0.022152,0.079301,0.9966,-13.09
    3999 
    4000 > select subtract #14
    4001 
    4002 1216 atoms, 1242 bonds, 150 residues, 2 models selected 
    4003 
    4004 > hide #14 models
    4005 
    4006 > show #15 models
    4007 
    4008 > fitmap #15 inMap #6.1
    4009 
    4010 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    4011 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4012 average map value = 0.6509, steps = 48 
    4013 shifted from previous position = 0.0167 
    4014 rotated from previous position = 0.0128 degrees 
    4015 atoms outside contour = 538, contour level = 0.3 
    4016  
    4017 Position of Terminator_1-coot-0.pdb (#15) relative to
    4018 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4019 Matrix rotation and translation 
    4020 0.99999975 0.00068214 -0.00016968 -0.16298491 
    4021 -0.00068246 0.99999799 -0.00188727 0.58247684 
    4022 0.00016839 0.00188739 0.99999820 -0.54377751 
    4023 Axis 0.93711372 -0.08393220 -0.33878202 
    4024 Axis point 0.00000000 291.52765521 307.54958272 
    4025 Rotation angle (degrees) 0.11539261 
    4026 Shift along axis -0.01740192 
    4027  
    4028 
    4029 > fitmap #15 inMap #6.1
    4030 
    4031 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    4032 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4033 average map value = 0.6508, steps = 60 
    4034 shifted from previous position = 0.021 
    4035 rotated from previous position = 0.00501 degrees 
    4036 atoms outside contour = 539, contour level = 0.3 
    4037  
    4038 Position of Terminator_1-coot-0.pdb (#15) relative to
    4039 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4040 Matrix rotation and translation 
    4041 0.99999972 0.00072007 -0.00019713 -0.17364246 
    4042 -0.00072046 0.99999782 -0.00196121 0.59045724 
    4043 0.00019572 0.00196135 0.99999806 -0.56290461 
    4044 Axis 0.93458057 -0.09359841 -0.34321785 
    4045 Axis point 0.00000000 291.55653375 299.58176703 
    4046 Rotation angle (degrees) 0.12023896 
    4047 Shift along axis -0.02434982 
    4048  
    4049 
    4050 > select add #15
    4051 
    4052 2432 atoms, 2484 bonds, 300 residues, 3 models selected 
    4053 
    4054 > view matrix models
    4055 > #5,0.88208,0.057863,-0.46753,284.46,-0.12546,0.98544,-0.11475,276.91,0.45408,0.15987,0.8765,209.54,#15,1,0.00072007,-0.00019713,0.12109,-0.00072046,1,-0.0019612,0.80733,0.00019572,0.0019613,1,-1.553
    4056 
    4057 > fitmap #15 inMap #6.1
    4058 
    4059 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    4060 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4061 average map value = 0.6509, steps = 68 
    4062 shifted from previous position = 1.04 
    4063 rotated from previous position = 0.0105 degrees 
    4064 atoms outside contour = 537, contour level = 0.3 
    4065  
    4066 Position of Terminator_1-coot-0.pdb (#15) relative to
    4067 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4068 Matrix rotation and translation 
    4069 0.99999984 0.00055598 -0.00013484 -0.14289270 
    4070 -0.00055623 0.99999803 -0.00190699 0.55137617 
    4071 0.00013378 0.00190707 0.99999817 -0.53944650 
    4072 Axis 0.95782836 -0.06745947 -0.27930997 
    4073 Axis point 0.00000000 286.56892204 288.01025969 
    4074 Rotation angle (degrees) 0.11407549 
    4075 Shift along axis -0.02338944 
    4076  
    4077 
    4078 > view matrix models
    4079 > #5,0.88208,0.057863,-0.46753,288.4,-0.12546,0.98544,-0.11475,276.4,0.45408,0.15987,0.8765,207.8,#15,1,0.00055598,-0.00013484,3.7983,-0.00055623,1,-0.001907,0.040964,0.00013378,0.0019071,1,-2.2802
    4080 
    4081 > fitmap #15 inMap #6.1
    4082 
    4083 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    4084 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4085 average map value = 0.3049, steps = 72 
    4086 shifted from previous position = 1.54 
    4087 rotated from previous position = 1.56 degrees 
    4088 atoms outside contour = 780, contour level = 0.3 
    4089  
    4090 Position of Terminator_1-coot-0.pdb (#15) relative to
    4091 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4092 Matrix rotation and translation 
    4093 0.99969796 0.01954014 0.01490547 -2.73136661 
    4094 -0.01969365 0.99975379 0.01022311 2.53123760 
    4095 -0.01470204 -0.01051356 0.99983664 5.84527170 
    4096 Axis -0.38871275 0.55499841 -0.73544488 
    4097 Axis point 177.93083596 178.98324570 0.00000000 
    4098 Rotation angle (degrees) 1.52846079 
    4099 Shift along axis -1.83232528 
    4100  
    4101 
    4102 > view matrix models
    4103 > #5,0.88208,0.057863,-0.46753,285.74,-0.12546,0.98544,-0.11475,277.73,0.45408,0.15987,0.8765,205.63,#15,0.9997,0.01954,0.014905,-5.3922,-0.019694,0.99975,0.010223,3.8678,-0.014702,-0.010514,0.99984,3.6758
    4104 
    4105 > fitmap #15 inMap #6.1
    4106 
    4107 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    4108 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4109 average map value = 0.329, steps = 88 
    4110 shifted from previous position = 2.8 
    4111 rotated from previous position = 7.01 degrees 
    4112 atoms outside contour = 761, contour level = 0.3 
    4113  
    4114 Position of Terminator_1-coot-0.pdb (#15) relative to
    4115 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4116 Matrix rotation and translation 
    4117 0.99688931 -0.07881254 -0.00052767 21.37333943 
    4118 0.07859023 0.99352831 0.08200660 -37.64237425 
    4119 -0.00593889 -0.08179297 0.99663165 16.71731549 
    4120 Axis -0.72084151 0.02381344 0.69269072 
    4121 Axis point 0.00000000 224.80907140 475.38603800 
    4122 Rotation angle (degrees) 6.52385712 
    4123 Shift along axis -4.72325536 
    4124  
    4125 
    4126 > view matrix models
    4127 > #5,0.88208,0.057863,-0.46753,281.61,-0.12546,0.98544,-0.11475,278.98,0.45408,0.15987,0.8765,205.07,#15,0.99689,-0.078813,-0.00052767,17.235,0.07859,0.99353,0.082007,-36.398,-0.0059389,-0.081793,0.99663,16.158
    4128 
    4129 > fitmap #15 inMap #6.1
    4130 
    4131 Fit molecule Terminator_1-coot-0.pdb (#15) to map
    4132 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4133 average map value = 0.5171, steps = 96 
    4134 shifted from previous position = 3.73 
    4135 rotated from previous position = 4.51 degrees 
    4136 atoms outside contour = 594, contour level = 0.3 
    4137  
    4138 Position of Terminator_1-coot-0.pdb (#15) relative to
    4139 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4140 Matrix rotation and translation 
    4141 0.99970891 -0.01592240 0.01812631 -2.47732586 
    4142 0.01354115 0.99210784 0.12465419 -28.18319504 
    4143 -0.01996805 -0.12437245 0.99203466 28.03557348 
    4144 Axis -0.98180911 0.15019030 0.11616260 
    4145 Axis point 0.00000000 208.61818508 241.05355332 
    4146 Rotation angle (degrees) 7.28588775 
    4147 Shift along axis 1.45610383 
    4148  
    4149 
    4150 > save "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    4151 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    4152 > Models/Terminator_1-coot-0.pdb" models #15 selectedOnly true relModel #2
    4153 
    4154 > select subtract #15
    4155 
    4156 1216 atoms, 1242 bonds, 150 residues, 2 models selected 
    4157 
    4158 > close #14
    4159 
    4160 > close #8-13
    4161 
    4162 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    4163 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    4164 > Models/Terminator_1-coot-1.pdb"
    4165 
    4166 Chain information for Terminator_1-coot-1.pdb #8 
    4167 --- 
    4168 Chain | Description 
    4169 D | No description available 
    4170  
    4171 
    4172 > hide #8 models
    4173 
    4174 > show #8 models
    4175 
    4176 > hide #15 models
    4177 
    4178 > fitmap #8 inMap #6.1
    4179 
    4180 Fit molecule Terminator_1-coot-1.pdb (#8) to map
    4181 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4182 average map value = 1.099, steps = 44 
    4183 shifted from previous position = 0.0205 
    4184 rotated from previous position = 0.136 degrees 
    4185 atoms outside contour = 208, contour level = 0.3 
    4186  
    4187 Position of Terminator_1-coot-1.pdb (#8) relative to
    4188 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4189 Matrix rotation and translation 
    4190 0.99999807 -0.00067575 -0.00184331 0.53667755 
    4191 0.00067327 0.99999887 -0.00134483 0.07777271 
    4192 0.00184422 0.00134359 0.99999740 -0.86179772 
    4193 Axis 0.56494727 -0.77490139 0.28348266 
    4194 Axis point 467.49607740 0.00000000 291.08147954 
    4195 Rotation angle (degrees) 0.13632716 
    4196 Shift along axis -0.00137637 
    4197  
    4198 
    4199 > combine #8
    4200 
    4201 > turn z 60 models #9-13
    4202 
    4203 > undo
    4204 
    4205 > turn z 1 60 models #9-13
    4206 
    4207 > turn z -1 60 models #9-13
    4208 
    4209 > ui tool show "Side View"
    4210 
    4211 > view orient
    4212 
    4213 > turn x 90
    4214 
    4215 > zoom 0.5
    4216 
    4217 > move y -300
    4218 
    4219 > move y 150
    4220 
    4221 > zoom 1.3
    4222 
    4223 > zoom 0.5
    4224 
    4225 > turn x 90
    4226 
    4227 > select add #1
    4228 
    4229 2132 atoms, 2181 bonds, 269 residues, 3 models selected 
    4230 
    4231 > select subtract #1
    4232 
    4233 1216 atoms, 1242 bonds, 150 residues, 2 models selected 
    4234 
    4235 > select
    4236 
    4237 67596 atoms, 69108 bonds, 8584 residues, 24 models selected 
    4238 
    4239 > ui mousemode right "rotate selected models"
    4240 
    4241 > view matrix models
    4242 > #2,1,-0.00059359,0.0025787,-0.49537,0.00072009,0.99878,-0.049334,12.717,-0.0025463,0.049336,0.99878,-12.378,#1,0.99997,-0.0049283,0.0066458,-1.049,0.0052207,0.99899,-0.044715,11.23,-0.0064187,0.044748,0.99898,-9.1967,#4,0.99899,0.044753,0.0026867,-13.055,-0.044566,0.99779,-0.049341,34.364,-0.0048889,0.049172,0.99878,-195.37,#6,1,-0.00059359,0.0025787,-0.49537,0.00072009,0.99878,-0.049334,12.717,-0.0025463,0.049336,0.99878,-12.378,#5,0.88332,0.05769,-0.4652,281.47,-0.14707,0.97639,-0.15818,281.44,0.44509,0.20815,0.87096,205.49,#3,1,-0.00059359,0.0025787,-0.49537,0.00072009,0.99878,-0.049334,12.717,-0.0025463,0.049336,0.99878,-12.378,#7,-0.16107,-0.9608,-0.22564,570.77,0.95665,-0.2082,0.20366,27.168,-0.24265,-0.18306,0.95269,111.81,#15,0.99965,-0.016832,0.02061,-2.8837,0.01523,0.99702,0.075575,-16.816,-0.021821,-0.075234,0.99693,14.24,#17,1,-0.00059359,0.0025787,-0.49537,0.00072009,0.99878,-0.049334,12.717,-0.0025463,0.049336,0.99878,-12.378,#8,1,-0.0012659,0.00073622,0.039039,0.0013016,0.99871,-0.050678,12.838,-0.00067112,0.050679,0.99871,-13.236,#9,1,-0.0012659,0.00073622,0.039038,0.0013016,0.99871,-0.050678,12.838,-0.00067112,0.050679,0.99871,-13.236,#10,1,-0.0012659,0.00073622,0.039038,0.0013016,0.99871,-0.050678,12.838,-0.00067112,0.050679,0.99871,-13.236,#11,1,-0.0012659,0.00073622,0.039038,0.0013016,0.99871,-0.050678,12.838,-0.00067112,0.050679,0.99871,-13.236,#12,1,-0.0012659,0.00073622,0.039038,0.0013016,0.99871,-0.050678,12.838,-0.00067112,0.050679,0.99871,-13.236,#13,1,-0.0012659,0.00073622,0.039038,0.0013016,0.99871,-0.050678,12.838,-0.00067112,0.050679,0.99871,-13.236
    4243 
    4244 > select clear
    4245 
    4246 > turn z 60 models #9-13
    4247 
    4248 > turn z 30 models #9-13
    4249 
    4250 > turn z 60 models #9-13
    4251 
    4252 > select add #9
    4253 
    4254 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    4255 
    4256 > select add #10
    4257 
    4258 2432 atoms, 2484 bonds, 300 residues, 2 models selected 
    4259 
    4260 > select add #11
    4261 
    4262 3648 atoms, 3726 bonds, 450 residues, 3 models selected 
    4263 
    4264 > select add #12
    4265 
    4266 4864 atoms, 4968 bonds, 600 residues, 4 models selected 
    4267 
    4268 > select subtract #12
    4269 
    4270 3648 atoms, 3726 bonds, 450 residues, 3 models selected 
    4271 
    4272 > select add #13
    4273 
    4274 4864 atoms, 4968 bonds, 600 residues, 4 models selected 
    4275 
    4276 > select add #12
    4277 
    4278 6080 atoms, 6210 bonds, 750 residues, 5 models selected 
    4279 
    4280 > view matrix models
    4281 > #9,0.48045,0.8259,-0.29506,-42.072,-0.86631,0.49934,-0.012945,382.49,0.13665,0.26184,0.95539,-95.726,#10,0.48045,0.8259,-0.29506,-42.072,-0.86631,0.49934,-0.012945,382.49,0.13665,0.26184,0.95539,-95.726,#11,0.48045,0.8259,-0.29506,-42.072,-0.86631,0.49934,-0.012945,382.49,0.13665,0.26184,0.95539,-95.726,#12,0.48045,0.8259,-0.29506,-42.072,-0.86631,0.49934,-0.012945,382.49,0.13665,0.26184,0.95539,-95.726,#13,0.48045,0.8259,-0.29506,-42.072,-0.86631,0.49934,-0.012945,382.49,0.13665,0.26184,0.95539,-95.726
    4282 
    4283 > undo
    4284 
    4285 > ui mousemode right "translate selected models"
    4286 
    4287 > view matrix models
    4288 > #9,0.50113,0.86428,-0.043521,-96.502,-0.86537,0.50045,-0.025977,385.16,-0.00067112,0.050679,0.99871,-13.114,#10,0.50113,0.86428,-0.043521,-96.502,-0.86537,0.50045,-0.025977,385.16,-0.00067112,0.050679,0.99871,-13.114,#11,0.50113,0.86428,-0.043521,-96.502,-0.86537,0.50045,-0.025977,385.16,-0.00067112,0.050679,0.99871,-13.114,#12,0.50113,0.86428,-0.043521,-96.502,-0.86537,0.50045,-0.025977,385.16,-0.00067112,0.050679,0.99871,-13.114,#13,0.50113,0.86428,-0.043521,-96.502,-0.86537,0.50045,-0.025977,385.16,-0.00067112,0.050679,0.99871,-13.114
    4289 
    4290 > turn z 60 models #10-13
    4291 
    4292 > select subtract #9
    4293 
    4294 4864 atoms, 4968 bonds, 600 residues, 4 models selected 
    4295 
    4296 > view matrix models
    4297 > #10,-0.49881,0.86586,-0.038458,185.05,-0.86665,-0.49883,0.0097862,653.83,-0.01071,0.038211,0.99921,-6.9353,#11,-0.49881,0.86586,-0.038458,185.05,-0.86665,-0.49883,0.0097862,653.83,-0.01071,0.038211,0.99921,-6.9353,#12,-0.49881,0.86586,-0.038458,185.05,-0.86665,-0.49883,0.0097862,653.83,-0.01071,0.038211,0.99921,-6.9353,#13,-0.49881,0.86586,-0.038458,185.05,-0.86665,-0.49883,0.0097862,653.83,-0.01071,0.038211,0.99921,-6.9353
    4298 
    4299 > turn z 60 models #11-13
    4300 
    4301 > view matrix models
    4302 > #10,-0.49881,0.86586,-0.038458,195.15,-0.86665,-0.49883,0.0097862,652.51,-0.01071,0.038211,0.99921,-6.8505,#11,-0.99999,0.0012209,-0.0049537,548.74,-0.0013359,-0.99973,0.02328,546.26,-0.0049239,0.023286,0.99972,-4.6334,#12,-0.99999,0.0012209,-0.0049537,548.74,-0.0013359,-0.99973,0.02328,546.26,-0.0049239,0.023286,0.99972,-4.6334,#13,-0.99999,0.0012209,-0.0049537,548.74,-0.0013359,-0.99973,0.02328,546.26,-0.0049239,0.023286,0.99972,-4.6334
    4303 
    4304 > select subtract #10
    4305 
    4306 3648 atoms, 3726 bonds, 450 residues, 3 models selected 
    4307 
    4308 > view matrix models
    4309 > #11,-0.99999,0.0012209,-0.0049537,553.38,-0.0013359,-0.99973,0.02328,544.45,-0.0049239,0.023286,0.99972,-4.6096,#12,-0.99999,0.0012209,-0.0049537,553.38,-0.0013359,-0.99973,0.02328,544.45,-0.0049239,0.023286,0.99972,-4.6096,#13,-0.99999,0.0012209,-0.0049537,553.38,-0.0013359,-0.99973,0.02328,544.45,-0.0049239,0.023286,0.99972,-4.6096
    4310 
    4311 > turn z 60 models #12-13
    4312 
    4313 > view matrix models
    4314 > #11,-0.99999,0.0012209,-0.0049537,557.32,-0.0013359,-0.99973,0.02328,544.99,-0.0049239,0.023286,0.99972,-4.5634,#12,-0.50123,-0.865,0.023488,632.06,0.86525,-0.50135,0.00101,174.47,0.010902,0.020829,0.99972,-8.4431,#13,-0.50123,-0.865,0.023488,632.06,0.86525,-0.50135,0.00101,174.47,0.010902,0.020829,0.99972,-8.4431
    4315 
    4316 > select subtract #11
    4317 
    4318 2432 atoms, 2484 bonds, 300 residues, 2 models selected 
    4319 
    4320 > view matrix models
    4321 > #12,-0.50123,-0.865,0.023488,637.88,0.86525,-0.50135,0.00101,174.95,0.010902,0.020829,0.99972,-8.3787,#13,-0.50123,-0.865,0.023488,637.88,0.86525,-0.50135,0.00101,174.95,0.010902,0.020829,0.99972,-8.3787
    4322 
    4323 > turn z 60 models #13
    4324 
    4325 > select subtract #12
    4326 
    4327 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    4328 
    4329 > view matrix models
    4330 > #13,0.49871,-0.86658,0.018425,369.59,0.86652,0.49793,-0.034753,-81.25,0.020941,0.033297,0.99923,-14.269
    4331 
    4332 > select subtract #13
    4333 
    4334 Nothing selected 
    4335 
    4336 > fitmap #8 inMap #6.1
    4337 
    4338 Fit molecule Terminator_1-coot-1.pdb (#8) to map
    4339 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4340 average map value = 1.099, steps = 28 
    4341 shifted from previous position = 0.0212 
    4342 rotated from previous position = 0.0164 degrees 
    4343 atoms outside contour = 205, contour level = 0.3 
    4344  
    4345 Position of Terminator_1-coot-1.pdb (#8) relative to
    4346 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4347 Matrix rotation and translation 
    4348 0.99999872 -0.00147524 0.00061364 0.09538511 
    4349 0.00150436 0.99872152 -0.05052781 12.75427863 
    4350 -0.00053832 0.05052867 0.99872247 -13.23195415 
    4351 Axis 0.99950074 0.01139343 0.02946979 
    4352 Axis point 0.00000000 267.99459589 245.67368385 
    4353 Rotation angle (degrees) 2.89773636 
    4354 Shift along axis -0.14929044 
    4355  
    4356 
    4357 > fitmap #9 inMap #6.1
    4358 
    4359 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    4360 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4361 average map value = 0.3428, steps = 108 
    4362 shifted from previous position = 5.32 
    4363 rotated from previous position = 8.81 degrees 
    4364 atoms outside contour = 742, contour level = 0.3 
    4365  
    4366 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    4367 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4368 Matrix rotation and translation 
    4369 0.43089544 0.88896660 -0.15513708 -56.04300734 
    4370 -0.90224705 0.42122296 -0.09231193 425.68138049 
    4371 -0.01671492 0.17974876 0.98357054 -34.84055779 
    4372 Axis 0.14972764 -0.07618015 -0.98578812 
    4373 Axis point 305.89250341 257.78072247 0.00000000 
    4374 Rotation angle (degrees) 65.30142568 
    4375 Shift along axis -6.47425108 
    4376  
    4377 
    4378 > fitmap #10 inMap #6.1
    4379 
    4380 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4381 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4382 average map value = 0.3134, steps = 84 
    4383 shifted from previous position = 4.17 
    4384 rotated from previous position = 2.1 degrees 
    4385 atoms outside contour = 772, contour level = 0.3 
    4386  
    4387 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4388 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4389 Matrix rotation and translation 
    4390 -0.50910096 0.86068642 -0.00592361 183.37185538 
    4391 -0.86069151 -0.50912088 -0.00245774 654.98288999 
    4392 -0.00513118 0.00384717 0.99997942 3.18066853 
    4393 Axis 0.00366268 -0.00046035 -0.99999319 
    4394 Axis point 278.47035966 275.19632380 0.00000000 
    4395 Rotation angle (degrees) 120.60531178 
    4396 Shift along axis -2.81053322 
    4397  
    4398 
    4399 > fitmap #11 inMap #6.1
    4400 
    4401 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    4402 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4403 average map value = 0.3116, steps = 92 
    4404 shifted from previous position = 6.11 
    4405 rotated from previous position = 2.72 degrees 
    4406 atoms outside contour = 795, contour level = 0.3 
    4407  
    4408 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    4409 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4410 Matrix rotation and translation 
    4411 -0.99946855 -0.02385160 -0.02221897 556.86280051 
    4412 0.02414152 -0.99962565 -0.01287300 545.05238118 
    4413 -0.02190362 -0.01340256 0.99967021 10.22890834 
    4414 Axis -0.01103319 -0.00657037 0.99991755 
    4415 Axis point 275.21695775 275.90156086 0.00000000 
    4416 Rotation angle (degrees) 178.62485290 
    4417 Shift along axis 0.50289463 
    4418  
    4419 
    4420 > fitmap #12 inMap #6.1
    4421 
    4422 Fit molecule copy of Terminator_1-coot-1.pdb (#12) to map
    4423 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4424 average map value = 1.092, steps = 72 
    4425 shifted from previous position = 1.37 
    4426 rotated from previous position = 3.12 degrees 
    4427 atoms outside contour = 203, contour level = 0.3 
    4428  
    4429 Position of copy of Terminator_1-coot-1.pdb (#12) relative to
    4430 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4431 Matrix rotation and translation 
    4432 -0.50126985 -0.86527793 0.00475183 641.71944700 
    4433 0.86407830 -0.50085043 -0.05017453 185.68606634 
    4434 0.04579488 -0.02104503 0.99872910 -6.37232512 
    4435 Axis 0.01683700 -0.02372309 0.99957678 
    4436 Axis point 267.40877785 277.67516582 0.00000000 
    4437 Rotation angle (degrees) 120.11224339 
    4438 Shift along axis 0.02995634 
    4439  
    4440 
    4441 > fitmap #13 inMap #6.1
    4442 
    4443 Fit molecule copy of Terminator_1-coot-1.pdb (#13) to map
    4444 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4445 average map value = 0.3338, steps = 152 
    4446 shifted from previous position = 5.35 
    4447 rotated from previous position = 17.4 degrees 
    4448 atoms outside contour = 768, contour level = 0.3 
    4449  
    4450 Position of copy of Terminator_1-coot-1.pdb (#13) relative to
    4451 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4452 Matrix rotation and translation 
    4453 0.47979274 -0.84118695 -0.24940600 423.83509211 
    4454 0.87668597 0.47095394 0.09810211 -109.81333965 
    4455 0.03493653 -0.26571944 0.96341707 61.42730654 
    4456 Axis -0.20452637 -0.15984635 0.96572155 
    4457 Axis point 312.89490423 307.96764284 0.00000000 
    4458 Rotation angle (degrees) 62.80103230 
    4459 Shift along axis -9.81051758 
    4460  
    4461 
    4462 > hide #!17 models
    4463 
    4464 > show #!6.1 models
    4465 
    4466 > select add #13
    4467 
    4468 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    4469 
    4470 > view matrix models
    4471 > #13,0.54156,-0.8043,-0.24459,395.8,0.83989,0.53011,0.11648,-116.87,0.035973,-0.26851,0.96261,61.954
    4472 
    4473 > view matrix models
    4474 > #13,0.54156,-0.8043,-0.24459,396.14,0.83989,0.53011,0.11648,-118.91,0.035973,-0.26851,0.96261,62.037
    4475 
    4476 > view matrix models
    4477 > #13,0.60389,-0.76069,-0.23805,365.99,0.7962,0.58967,0.1355,-124.16,0.037294,-0.27136,0.96175,62.505
    4478 
    4479 > fitmap #13 inMap #6.1
    4480 
    4481 Fit molecule copy of Terminator_1-coot-1.pdb (#13) to map
    4482 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4483 average map value = 0.3336, steps = 88 
    4484 shifted from previous position = 1.27 
    4485 rotated from previous position = 8.47 degrees 
    4486 atoms outside contour = 773, contour level = 0.3 
    4487  
    4488 Position of copy of Terminator_1-coot-1.pdb (#13) relative to
    4489 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4490 Matrix rotation and translation 
    4491 0.48034216 -0.84102686 -0.24888783 423.55854223 
    4492 0.87637600 0.47160290 0.09775342 -109.80384255 
    4493 0.03516298 -0.26507444 0.96358650 61.17009123 
    4494 Axis -0.20404846 -0.15974554 0.96583932 
    4495 Axis point 312.77407388 307.98334397 0.00000000 
    4496 Rotation angle (degrees) 62.75696725 
    4497 Shift along axis -9.80531455 
    4498  
    4499 
    4500 > view matrix models
    4501 > #13,0.6421,-0.73044,-0.23272,346.08,0.76565,0.62627,0.14685,-124.19,0.03848,-0.27248,0.96139,62.411
    4502 
    4503 > view matrix models
    4504 > #13,0.6421,-0.73044,-0.23272,345.49,0.76565,0.62627,0.14685,-131.29,0.03848,-0.27248,0.96139,62.714
    4505 
    4506 > fitmap #13 inMap #6.1
    4507 
    4508 Fit molecule copy of Terminator_1-coot-1.pdb (#13) to map
    4509 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4510 average map value = 1.087, steps = 152 
    4511 shifted from previous position = 1.95 
    4512 rotated from previous position = 20.4 degrees 
    4513 atoms outside contour = 204, contour level = 0.3 
    4514  
    4515 Position of copy of Terminator_1-coot-1.pdb (#13) relative to
    4516 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4517 Matrix rotation and translation 
    4518 0.49912899 -0.86652455 0.00231866 370.78582202 
    4519 0.86542880 0.49835954 -0.05167876 -85.78260167 
    4520 0.04362539 0.02780100 0.99866098 -19.04999284 
    4521 Axis 0.04582899 -0.02381796 0.99866531 
    4522 Axis point 260.02851543 277.59691230 0.00000000 
    4523 Rotation angle (degrees) 60.12728957 
    4524 Shift along axis 0.01134024 
    4525  
    4526 
    4527 > fitmap #13 inMap #6.1
    4528 
    4529 Fit molecule copy of Terminator_1-coot-1.pdb (#13) to map
    4530 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4531 average map value = 1.087, steps = 40 
    4532 shifted from previous position = 0.0189 
    4533 rotated from previous position = 0.0192 degrees 
    4534 atoms outside contour = 204, contour level = 0.3 
    4535  
    4536 Position of copy of Terminator_1-coot-1.pdb (#13) relative to
    4537 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4538 Matrix rotation and translation 
    4539 0.49930887 -0.86642017 0.00257966 370.66972956 
    4540 0.86533337 0.49852880 -0.05164421 -85.79161903 
    4541 0.04345956 0.02801868 0.99866213 -19.06310065 
    4542 Axis 0.04593992 -0.02357458 0.99866599 
    4543 Axis point 259.99682742 277.56855279 0.00000000 
    4544 Rotation angle (degrees) 60.11571631 
    4545 Shift along axis 0.01336938 
    4546  
    4547 
    4548 > select subtract #13
    4549 
    4550 Nothing selected 
    4551 
    4552 > select add #11
    4553 
    4554 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    4555 
    4556 > fitmap #11 inMap #6.1
    4557 
    4558 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    4559 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4560 average map value = 0.3116, steps = 44 
    4561 shifted from previous position = 0.00236 
    4562 rotated from previous position = 0.012 degrees 
    4563 atoms outside contour = 795, contour level = 0.3 
    4564  
    4565 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    4566 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4567 Matrix rotation and translation 
    4568 -0.99947172 -0.02373333 -0.02220304 556.83023074 
    4569 0.02401931 -0.99963076 -0.01270348 545.05161281 
    4570 -0.02189335 -0.01323007 0.99967273 10.18278161 
    4571 Axis -0.01102662 -0.00648484 0.99991818 
    4572 Axis point 275.21678758 275.88364197 0.00000000 
    4573 Rotation angle (degrees) 178.63174546 
    4574 Shift along axis 0.50742332 
    4575  
    4576 
    4577 > fitmap #11 inMap #6.1
    4578 
    4579 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    4580 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4581 average map value = 0.3116, steps = 44 
    4582 shifted from previous position = 0.0027 
    4583 rotated from previous position = 0.00493 degrees 
    4584 atoms outside contour = 795, contour level = 0.3 
    4585  
    4586 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    4587 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4588 Matrix rotation and translation 
    4589 -0.99947331 -0.02368165 -0.02218661 556.81464165 
    4590 0.02396597 -0.99963287 -0.01263789 545.05102840 
    4591 -0.02187917 -0.01316296 0.99967393 10.16215633 
    4592 Axis -0.01101895 -0.00645165 0.99991848 
    4593 Axis point 275.21600577 275.87570473 0.00000000 
    4594 Rotation angle (degrees) 178.63475581 
    4595 Shift along axis 0.50933655 
    4596  
    4597 
    4598 > view matrix models
    4599 > #11,-0.99665,-0.021918,-0.078841,566.94,0.017619,-0.99834,0.054818,533.06,-0.079912,0.053245,0.99538,12.175
    4600 
    4601 > fitmap #11 inMap #6.1
    4602 
    4603 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    4604 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4605 average map value = 0.3116, steps = 76 
    4606 shifted from previous position = 1.12 
    4607 rotated from previous position = 5.06 degrees 
    4608 atoms outside contour = 795, contour level = 0.3 
    4609  
    4610 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    4611 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4612 Matrix rotation and translation 
    4613 -0.99947541 -0.02358161 -0.02219848 556.79247633 
    4614 0.02386406 -0.99963646 -0.01254651 545.06661096 
    4615 -0.02189454 -0.01306967 0.99967481 10.14251938 
    4616 Axis -0.01102575 -0.00640546 0.99991870 
    4617 Axis point 275.21852564 275.86900120 0.00000000 
    4618 Rotation angle (degrees) 178.64054362 
    4619 Shift along axis 0.51123700 
    4620  
    4621 
    4622 > view matrix models
    4623 > #11,-0.97147,-0.23472,-0.033909,601.54,0.23507,-0.97196,-0.0067023,475.1,-0.031385,-0.014482,0.9994,13.329
    4624 
    4625 > fitmap #11 inMap #6.1
    4626 
    4627 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    4628 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4629 average map value = 1.099, steps = 116 
    4630 shifted from previous position = 2.49 
    4631 rotated from previous position = 14 degrees 
    4632 atoms outside contour = 206, contour level = 0.3 
    4633  
    4634 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    4635 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4636 Matrix rotation and translation 
    4637 -0.99998832 0.00163278 0.00454588 541.77882908 
    4638 -0.00184993 -0.99883687 -0.04818144 555.77601262 
    4639 0.00446193 -0.04818929 0.99882822 12.19990376 
    4640 Axis -0.00225345 0.02409966 -0.99970702 
    4641 Axis point 271.11775703 277.79906105 0.00000000 
    4642 Rotation angle (degrees) 179.90019867 
    4643 Shift along axis -0.02318708 
    4644  
    4645 
    4646 > fitmap #11 inMap #6.1
    4647 
    4648 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    4649 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4650 average map value = 1.099, steps = 44 
    4651 shifted from previous position = 0.00304 
    4652 rotated from previous position = 0.0103 degrees 
    4653 atoms outside contour = 206, contour level = 0.3 
    4654  
    4655 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    4656 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4657 Matrix rotation and translation 
    4658 -0.99998773 0.00154473 0.00470243 541.76771131 
    4659 -0.00176948 -0.99883745 -0.04817242 555.75195661 
    4660 0.00462255 -0.04818015 0.99882793 12.15576823 
    4661 Axis -0.00233281 0.02409512 -0.99970695 
    4662 Axis point 271.10004357 277.79789496 0.00000000 
    4663 Rotation angle (degrees) 179.90502684 
    4664 Shift along axis -0.02513986 
    4665  
    4666 
    4667 > select subtract #11
    4668 
    4669 Nothing selected 
    4670 
    4671 > select add #10
    4672 
    4673 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    4674 
    4675 > view matrix models
    4676 > #10,-0.50926,0.86061,-0.0022379,180.97,-0.86061,-0.50926,-0.00081188,651.48,-0.0018384,0.0015125,1,2.9095
    4677 
    4678 > fitmap #10 inMap #6.1
    4679 
    4680 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4681 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4682 average map value = 0.3446, steps = 108 
    4683 shifted from previous position = 2.78 
    4684 rotated from previous position = 8.57 degrees 
    4685 atoms outside contour = 741, contour level = 0.3 
    4686  
    4687 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4688 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4689 Matrix rotation and translation 
    4690 -0.56411444 0.81735667 -0.11705967 228.22371176 
    4691 -0.82564006 -0.56003750 0.06838474 638.09093116 
    4692 -0.00966308 0.13522598 0.99076764 -26.03476052 
    4693 Axis 0.04056247 -0.06517340 -0.99704920 
    4694 Axis point 281.75661285 259.63872126 0.00000000 
    4695 Rotation angle (degrees) 124.51987957 
    4696 Shift along axis -6.37130311 
    4697  
    4698 
    4699 > view matrix models
    4700 > #10,-0.55556,0.7754,-0.30018,272.56,-0.83116,-0.52786,0.17476,610.62,-0.022942,0.34659,0.93774,-62.244
    4701 
    4702 > fitmap #10 inMap #6.1
    4703 
    4704 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4705 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4706 average map value = 0.3221, steps = 64 
    4707 shifted from previous position = 2.1 
    4708 rotated from previous position = 4.25 degrees 
    4709 atoms outside contour = 766, contour level = 0.3 
    4710  
    4711 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4712 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4713 Matrix rotation and translation 
    4714 -0.52185329 0.81586936 -0.24905081 243.79426094 
    4715 -0.85303381 -0.49858054 0.15411280 612.84609118 
    4716 0.00156403 0.29287303 0.95615004 -61.37817518 
    4717 Axis 0.08194613 -0.14800289 -0.98558611 
    4718 Axis point 290.72544512 242.45154040 0.00000000 
    4719 Rotation angle (degrees) 122.15028860 
    4720 Shift along axis -10.23152103 
    4721  
    4722 
    4723 > view matrix models
    4724 > #10,-0.51393,0.72819,-0.45345,303.57,-0.85756,-0.4228,0.29297,568.09,0.021619,0.53943,0.84175,-103.54
    4725 
    4726 > fitmap #10 inMap #6.1
    4727 
    4728 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4729 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4730 average map value = 0.2869, steps = 84 
    4731 shifted from previous position = 2.37 
    4732 rotated from previous position = 5.4 degrees 
    4733 atoms outside contour = 796, contour level = 0.3 
    4734  
    4735 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4736 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4737 Matrix rotation and translation 
    4738 -0.51929146 0.76644630 -0.37801644 279.67998981 
    4739 -0.85406589 -0.44984241 0.26117666 581.39783217 
    4740 0.03013006 0.45847776 0.88819496 -97.52295330 
    4741 Axis 0.11725079 -0.24255059 -0.96302724 
    4742 Axis point 297.78669781 223.19518845 0.00000000 
    4743 Rotation angle (degrees) 122.71560274 
    4744 Shift along axis -14.30842800 
    4745  
    4746 
    4747 > view matrix models
    4748 > #10,-0.4831,0.82131,-0.30343,240.86,-0.83542,-0.53612,-0.12103,673.38,-0.26208,0.19502,0.94514,40.442
    4749 
    4750 > fitmap #10 inMap #6.1
    4751 
    4752 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4753 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4754 average map value = 0.2941, steps = 76 
    4755 shifted from previous position = 0.93 
    4756 rotated from previous position = 3.91 degrees 
    4757 atoms outside contour = 783, contour level = 0.3 
    4758  
    4759 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4760 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4761 Matrix rotation and translation 
    4762 -0.53726010 0.79748703 -0.27452870 255.18391760 
    4763 -0.80302940 -0.58319434 -0.12258927 676.14326973 
    4764 -0.25786695 0.15459230 0.95373258 46.83046305 
    4765 Axis 0.17063354 -0.01025701 -0.98528117 
    4766 Axis point 307.63211646 270.97611265 0.00000000 
    4767 Rotation angle (degrees) 125.68728164 
    4768 Shift along axis -9.53344801 
    4769  
    4770 
    4771 > view matrix models
    4772 > #10,-0.49655,0.76293,-0.41396,279.49,-0.86429,-0.47868,0.15452,613.44,-0.080264,0.43451,0.89708,-61.374
    4773 
    4774 > fitmap #10 inMap #6.1
    4775 
    4776 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4777 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4778 average map value = 0.3221, steps = 92 
    4779 shifted from previous position = 4.37 
    4780 rotated from previous position = 10 degrees 
    4781 atoms outside contour = 764, contour level = 0.3 
    4782  
    4783 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4784 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4785 Matrix rotation and translation 
    4786 -0.52195619 0.81575564 -0.24920765 243.87425257 
    4787 -0.85297135 -0.49874983 0.15391059 612.90804051 
    4788 0.00126116 0.29290158 0.95614175 -61.30062854 
    4789 Axis 0.08209095 -0.14793206 -0.98558469 
    4790 Axis point 290.74842440 242.46497021 0.00000000 
    4791 Rotation angle (degrees) 122.15977967 
    4792 Shift along axis -10.23191967 
    4793  
    4794 
    4795 > fitmap #10 inMap #6.1
    4796 
    4797 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4798 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4799 average map value = 0.3221, steps = 44 
    4800 shifted from previous position = 0.000826 
    4801 rotated from previous position = 0.00605 degrees 
    4802 atoms outside contour = 763, contour level = 0.3 
    4803  
    4804 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4805 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4806 Matrix rotation and translation 
    4807 -0.52197079 0.81571939 -0.24929574 243.90576950 
    4808 -0.85296254 -0.49877626 0.15387374 612.91990517 
    4809 0.00117500 0.29295753 0.95612472 -61.28646879 
    4810 Axis 0.08214753 -0.14793639 -0.98557933 
    4811 Axis point 290.76020774 242.46335596 0.00000000 
    4812 Rotation angle (degrees) 122.16174455 
    4813 Shift along axis -10.23422465 
    4814  
    4815 
    4816 > view matrix models
    4817 > #10,-0.54327,0.80552,-0.23664,250.09,-0.79156,-0.3975,0.46415,508.18,0.27982,0.43947,0.85356,-158
    4818 
    4819 > fitmap #10 inMap #6.1
    4820 
    4821 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4822 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4823 average map value = 0.2839, steps = 120 
    4824 shifted from previous position = 1.63 
    4825 rotated from previous position = 8.74 degrees 
    4826 atoms outside contour = 807, contour level = 0.3 
    4827  
    4828 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4829 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4830 Matrix rotation and translation 
    4831 -0.57196665 0.81555205 -0.08791466 225.56770462 
    4832 -0.74726253 -0.47385037 0.46590184 512.42092722 
    4833 0.33830882 0.33217565 0.88045809 -153.90673974 
    4834 Axis -0.08227258 -0.26222615 -0.96149294 
    4835 Axis point 255.85456029 217.07285927 0.00000000 
    4836 Rotation angle (degrees) 125.63922358 
    4837 Shift along axis -4.94796352 
    4838  
    4839 
    4840 > view matrix models
    4841 > #10,-0.58442,0.6555,-0.47829,346.08,-0.81109,-0.45441,0.3683,546.16,0.024077,0.60318,0.79724,-109.69
    4842 
    4843 > fitmap #10 inMap #6.1
    4844 
    4845 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4846 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4847 average map value = 0.2899, steps = 116 
    4848 shifted from previous position = 2.78 
    4849 rotated from previous position = 11.1 degrees 
    4850 atoms outside contour = 786, contour level = 0.3 
    4851  
    4852 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4853 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4854 Matrix rotation and translation 
    4855 -0.42861694 0.77120496 -0.47067016 270.92889924 
    4856 -0.90103053 -0.32648394 0.28557348 556.10078675 
    4857 0.06656944 0.54648982 0.83481576 -113.48973204 
    4858 Axis 0.14693800 -0.30255257 -0.94173837 
    4859 Axis point 304.03376463 207.79244421 0.00000000 
    4860 Rotation angle (degrees) 117.39630725 
    4861 Shift along axis -21.56233616 
    4862  
    4863 
    4864 > fitmap #10 inMap #6.1
    4865 
    4866 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4867 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4868 average map value = 0.2899, steps = 44 
    4869 shifted from previous position = 0.00521 
    4870 rotated from previous position = 0.0236 degrees 
    4871 atoms outside contour = 786, contour level = 0.3 
    4872  
    4873 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4874 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4875 Matrix rotation and translation 
    4876 -0.42869861 0.77111911 -0.47073645 270.98691077 
    4877 -0.90096918 -0.32633538 0.28593660 555.96976345 
    4878 0.06687322 0.54669966 0.83465408 -113.58955406 
    4879 Axis 0.14685574 -0.30276935 -0.94168153 
    4880 Axis point 304.01494842 207.73863065 0.00000000 
    4881 Rotation angle (degrees) 117.39936584 
    4882 Shift along axis -21.56943796 
    4883  
    4884 
    4885 > view matrix models
    4886 > #10,-0.4206,0.52373,-0.74081,382.26,-0.89972,-0.34577,0.26638,564.2,-0.11664,0.77856,0.61664,-71.421
    4887 
    4888 > fitmap #10 inMap #6.1
    4889 
    4890 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4891 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4892 average map value = 0.246, steps = 96 
    4893 shifted from previous position = 3.82 
    4894 rotated from previous position = 2.96 degrees 
    4895 atoms outside contour = 845, contour level = 0.3 
    4896  
    4897 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4898 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4899 Matrix rotation and translation 
    4900 -0.43160175 0.53323354 -0.72758635 381.23781340 
    4901 -0.89960814 -0.31391644 0.30358138 547.38878731 
    4902 -0.06652154 0.78556887 0.61518811 -90.27255016 
    4903 Axis 0.29212147 -0.40065609 -0.86841220 
    4904 Axis point 337.96242813 176.20176629 0.00000000 
    4905 Rotation angle (degrees) 124.41375274 
    4906 Shift along axis -29.55311763 
    4907  
    4908 
    4909 > fitmap #10 inMap #6.1
    4910 
    4911 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4912 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4913 average map value = 0.2461, steps = 76 
    4914 shifted from previous position = 0.00571 
    4915 rotated from previous position = 0.0313 degrees 
    4916 atoms outside contour = 844, contour level = 0.3 
    4917  
    4918 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4919 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4920 Matrix rotation and translation 
    4921 -0.43135077 0.53352903 -0.72751856 381.08696666 
    4922 -0.89976185 -0.31345927 0.30359822 547.31799657 
    4923 -0.06606897 0.78555079 0.61525997 -90.40720756 
    4924 Axis 0.29200578 -0.40075957 -0.86840336 
    4925 Axis point 337.94254991 176.18084813 0.00000000 
    4926 Rotation angle (degrees) 124.38667095 
    4927 Shift along axis -29.55340535 
    4928  
    4929 
    4930 > view matrix models
    4931 > #10,-0.39501,0.82248,-0.40926,237.05,-0.8645,-0.18206,0.46851,472.24,0.31083,0.53887,0.78295,-175.9
    4932 
    4933 > view matrix models
    4934 > #10,-0.39501,0.82248,-0.40926,238.73,-0.8645,-0.18206,0.46851,471.32,0.31083,0.53887,0.78295,-179.98
    4935 
    4936 > view matrix models
    4937 > #10,-0.39501,0.82248,-0.40926,242.01,-0.8645,-0.18206,0.46851,472.02,0.31083,0.53887,0.78295,-180.62
    4938 
    4939 > fitmap #10 inMap #6.1
    4940 
    4941 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4942 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4943 average map value = 0.2487, steps = 80 
    4944 shifted from previous position = 1.95 
    4945 rotated from previous position = 4.26 degrees 
    4946 atoms outside contour = 841, contour level = 0.3 
    4947  
    4948 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4949 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4950 Matrix rotation and translation 
    4951 -0.39069891 0.82529720 -0.40772401 241.24608448 
    4952 -0.88663339 -0.21831931 0.40769829 499.17587279 
    4953 0.24745824 0.52078901 0.81703317 -164.12523079 
    4954 Axis 0.06157923 -0.35675447 -0.93216642 
    4955 Axis point 290.03404501 195.65516058 0.00000000 
    4956 Rotation angle (degrees) 113.32788972 
    4957 Shift along axis -10.23544793 
    4958  
    4959 
    4960 > fitmap #10 inMap #6.1
    4961 
    4962 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4963 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4964 average map value = 0.2487, steps = 44 
    4965 shifted from previous position = 0.0191 
    4966 rotated from previous position = 0.0284 degrees 
    4967 atoms outside contour = 839, contour level = 0.3 
    4968  
    4969 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4970 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4971 Matrix rotation and translation 
    4972 -0.39038866 0.82541996 -0.40777270 241.15345742 
    4973 -0.88684882 -0.21824276 0.40727050 499.29942650 
    4974 0.24717577 0.52062652 0.81722221 -164.05681558 
    4975 Axis 0.06171535 -0.35657898 -0.93222457 
    4976 Axis point 290.07345115 195.69518465 0.00000000 
    4977 Rotation angle (degrees) 113.30992574 
    4978 Shift along axis -10.21901373 
    4979  
    4980 
    4981 > view matrix models
    4982 > #10,-0.39994,0.81,-0.42889,252,-0.87511,-0.19837,0.44141,484.09,0.27246,0.55186,0.78817,-173.18
    4983 
    4984 > view matrix models
    4985 > #10,-0.39994,0.81,-0.42889,252.32,-0.87511,-0.19837,0.44141,483.66,0.27246,0.55186,0.78817,-173.17
    4986 
    4987 > fitmap #10 inMap #6.1
    4988 
    4989 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    4990 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    4991 average map value = 0.2486, steps = 72 
    4992 shifted from previous position = 0.794 
    4993 rotated from previous position = 2.86 degrees 
    4994 atoms outside contour = 840, contour level = 0.3 
    4995  
    4996 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    4997 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    4998 Matrix rotation and translation 
    4999 -0.39039241 0.82550613 -0.40759463 241.09728069 
    5000 -0.88687341 -0.21838853 0.40713878 499.36841820 
    5001 0.24708156 0.52042874 0.81737666 -164.01413773 
    5002 Axis 0.06167931 -0.35643033 -0.93228380 
    5003 Axis point 290.06550140 195.73173824 0.00000000 
    5004 Rotation angle (degrees) 113.30977230 
    5005 Shift along axis -10.21161326 
    5006  
    5007 
    5008 > fitmap #10 inMap #6.1
    5009 
    5010 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5011 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5012 average map value = 0.2487, steps = 44 
    5013 shifted from previous position = 0.022 
    5014 rotated from previous position = 0.0277 degrees 
    5015 atoms outside contour = 841, contour level = 0.3 
    5016  
    5017 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5018 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5019 Matrix rotation and translation 
    5020 -0.39050976 0.82538880 -0.40771981 241.16781420 
    5021 -0.88673496 -0.21822667 0.40752694 499.21761402 
    5022 0.24739284 0.52068267 0.81712075 -164.09770887 
    5023 Axis 0.06160929 -0.35668565 -0.93219078 
    5024 Axis point 290.04204853 195.67494192 0.00000000 
    5025 Rotation angle (degrees) 113.31636695 
    5026 Shift along axis -10.23520872 
    5027  
    5028 
    5029 > view matrix models
    5030 > #10,-0.39051,0.82539,-0.40772,238.09,-0.88673,-0.21823,0.40753,499.18,0.24739,0.52068,0.81712,-164.25
    5031 
    5032 > view matrix models
    5033 > #10,-0.38271,0.78478,-0.4875,261.57,-0.91832,-0.38086,0.10782,607.74,-0.10106,0.48895,0.86644,-63.844
    5034 
    5035 > fitmap #10 inMap #6.1
    5036 
    5037 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5038 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5039 average map value = 0.3912, steps = 192 
    5040 shifted from previous position = 1.43 
    5041 rotated from previous position = 17.2 degrees 
    5042 atoms outside contour = 703, contour level = 0.3 
    5043  
    5044 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5045 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5046 Matrix rotation and translation 
    5047 -0.38415824 0.88268930 -0.27070654 194.17102206 
    5048 -0.90608508 -0.41674231 -0.07304560 651.18350031 
    5049 -0.17729144 0.21722209 0.95988660 5.13507008 
    5050 Axis 0.15996424 -0.05148033 -0.98577950 
    5051 Axis point 308.33466951 262.16389054 0.00000000 
    5052 Rotation angle (degrees) 114.86659928 
    5053 Shift along axis -7.52476573 
    5054  
    5055 
    5056 > fitmap #10 inMap #6.1
    5057 
    5058 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5059 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5060 average map value = 0.3912, steps = 64 
    5061 shifted from previous position = 0.0223 
    5062 rotated from previous position = 0.178 degrees 
    5063 atoms outside contour = 703, contour level = 0.3 
    5064  
    5065 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5066 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5067 Matrix rotation and translation 
    5068 -0.38625846 0.88241186 -0.26861439 194.38184510 
    5069 -0.90520478 -0.41858542 -0.07342025 651.47296257 
    5070 -0.17722497 0.21479183 0.96044560 5.59067273 
    5071 Axis 0.15896917 -0.05040767 -0.98599588 
    5072 Axis point 308.09199672 262.38182226 0.00000000 
    5073 Rotation angle (degrees) 114.97350686 
    5074 Shift along axis -7.45089225 
    5075  
    5076 
    5077 > view matrix models
    5078 > #10,-0.35807,0.8393,-0.4091,224.64,-0.89692,-0.43095,-0.09909,657.16,-0.25947,0.33145,0.90709,12.52
    5079 
    5080 > fitmap #10 inMap #6.1
    5081 
    5082 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5083 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5084 average map value = 0.3912, steps = 148 
    5085 shifted from previous position = 1.77 
    5086 rotated from previous position = 8.6 degrees 
    5087 atoms outside contour = 705, contour level = 0.3 
    5088  
    5089 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5090 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5091 Matrix rotation and translation 
    5092 -0.38363437 0.88276240 -0.27121063 194.11507508 
    5093 -0.90628641 -0.41630247 -0.07305596 651.13258939 
    5094 -0.17739671 0.21776773 0.95974350 5.05872898 
    5095 Axis 0.16023708 -0.05168928 -0.98572425 
    5096 Axis point 308.40089541 262.12153388 0.00000000 
    5097 Rotation angle (degrees) 114.84069102 
    5098 Shift along axis -7.53865347 
    5099  
    5100 
    5101 > fitmap #10 inMap #6.1
    5102 
    5103 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5104 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5105 average map value = 0.3912, steps = 60 
    5106 shifted from previous position = 0.0236 
    5107 rotated from previous position = 0.181 degrees 
    5108 atoms outside contour = 706, contour level = 0.3 
    5109  
    5110 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5111 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5112 Matrix rotation and translation 
    5113 -0.38578165 0.88248193 -0.26906903 194.32935009 
    5114 -0.90540455 -0.41816598 -0.07334719 651.41154052 
    5115 -0.17724309 0.21532033 0.96032391 5.48985806 
    5116 Axis 0.15918871 -0.05063837 -0.98594863 
    5117 Axis point 308.14689609 262.33598385 0.00000000 
    5118 Rotation angle (degrees) 114.94903073 
    5119 Shift along axis -7.46409953 
    5120  
    5121 
    5122 > view matrix models
    5123 > #10,-0.37576,0.84954,-0.37026,219.61,-0.91741,-0.39748,0.01904,631.43,-0.131,0.34684,0.92873,-33.386
    5124 
    5125 > fitmap #10 inMap #6.1
    5126 
    5127 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5128 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5129 average map value = 0.3911, steps = 112 
    5130 shifted from previous position = 0.78 
    5131 rotated from previous position = 8.19 degrees 
    5132 atoms outside contour = 705, contour level = 0.3 
    5133  
    5134 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5135 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5136 Matrix rotation and translation 
    5137 -0.38601574 0.88239376 -0.26902247 194.40452500 
    5138 -0.90538468 -0.41829150 -0.07287520 651.33365737 
    5139 -0.17683444 0.21543785 0.96037289 5.35802419 
    5140 Axis 0.15900591 -0.05084210 -0.98596765 
    5141 Axis point 308.10345626 262.28802347 0.00000000 
    5142 Rotation angle (degrees) 114.95884628 
    5143 Shift along axis -7.48654276 
    5144  
    5145 
    5146 > fitmap #10 inMap #6.1
    5147 
    5148 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5149 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5150 average map value = 0.3911, steps = 44 
    5151 shifted from previous position = 0.0254 
    5152 rotated from previous position = 0.0607 degrees 
    5153 atoms outside contour = 704, contour level = 0.3 
    5154  
    5155 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5156 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5157 Matrix rotation and translation 
    5158 -0.38629303 0.88243609 -0.26848508 194.35604557 
    5159 -0.90515598 -0.41864934 -0.07365715 651.52782017 
    5160 -0.17739883 0.21456763 0.96046361 5.68813230 
    5161 Axis 0.15897946 -0.05024149 -0.98600270 
    5162 Axis point 308.09346920 262.41945954 0.00000000 
    5163 Rotation angle (degrees) 114.97604970 
    5164 Shift along axis -7.44362302 
    5165  
    5166 
    5167 > view matrix models
    5168 > #10,-0.37618,0.74884,-0.54564,279.13,-0.92611,-0.32189,0.19673,580.16,-0.028312,0.57933,0.8146,-96.577
    5169 
    5170 > fitmap #10 inMap #6.1
    5171 
    5172 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5173 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5174 average map value = 0.2869, steps = 132 
    5175 shifted from previous position = 3.63 
    5176 rotated from previous position = 12.7 degrees 
    5177 atoms outside contour = 796, contour level = 0.3 
    5178  
    5179 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5180 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5181 Matrix rotation and translation 
    5182 -0.51939459 0.76649282 -0.37778036 279.65114671 
    5183 -0.85399897 -0.44994084 0.26122591 581.39319466 
    5184 0.03024897 0.45830337 0.88828092 -97.53069307 
    5185 Axis 0.11712306 -0.24249167 -0.96305762 
    5186 Axis point 297.75929452 223.20842306 0.00000000 
    5187 Rotation angle (degrees) 122.71953879 
    5188 Shift along axis -14.30173141 
    5189  
    5190 
    5191 > fitmap #10 inMap #6.1
    5192 
    5193 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5194 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5195 average map value = 0.2869, steps = 44 
    5196 shifted from previous position = 0.00687 
    5197 rotated from previous position = 0.0298 degrees 
    5198 atoms outside contour = 796, contour level = 0.3 
    5199  
    5200 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5201 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5202 Matrix rotation and translation 
    5203 -0.51952806 0.76620147 -0.37818765 279.83642706 
    5204 -0.85392539 -0.45002348 0.26132410 581.37034031 
    5205 0.03003359 0.45870924 0.88807870 -97.53082012 
    5206 Axis 0.11732466 -0.24264448 -0.96299459 
    5207 Axis point 297.79576132 223.17019331 0.00000000 
    5208 Rotation angle (degrees) 122.73378409 
    5209 Shift along axis -14.31294072 
    5210  
    5211 
    5212 > view matrix models
    5213 > #10,-0.50664,0.77992,-0.3675,270.6,-0.77546,-0.22592,0.5896,438.49,0.37681,0.58369,0.71925,-195.84
    5214 
    5215 > fitmap #10 inMap #6.1
    5216 
    5217 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5218 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5219 average map value = 0.2559, steps = 88 
    5220 shifted from previous position = 2.37 
    5221 rotated from previous position = 6.1 degrees 
    5222 atoms outside contour = 816, contour level = 0.3 
    5223  
    5224 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5225 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5226 Matrix rotation and translation 
    5227 -0.41857814 0.81681629 -0.39699303 244.65205732 
    5228 -0.83286488 -0.17095206 0.52641378 455.65528484 
    5229 0.36211658 0.55098687 0.75185439 -190.46341273 
    5230 Axis 0.01353053 -0.41798382 -0.90835371 
    5231 Axis point 279.34731668 185.39376296 0.00000000 
    5232 Rotation angle (degrees) 114.76124124 
    5233 Shift along axis -14.13811665 
    5234  
    5235 
    5236 > fitmap #10 inMap #6.1
    5237 
    5238 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5239 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5240 average map value = 0.2561, steps = 64 
    5241 shifted from previous position = 0.0161 
    5242 rotated from previous position = 0.0129 degrees 
    5243 atoms outside contour = 819, contour level = 0.3 
    5244  
    5245 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5246 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5247 Matrix rotation and translation 
    5248 -0.41873385 0.81673870 -0.39698848 244.72186579 
    5249 -0.83275253 -0.17099239 0.52657840 455.61398935 
    5250 0.36219495 0.55108937 0.75174151 -190.48792413 
    5251 Axis 0.01349738 -0.41805727 -0.90832040 
    5252 Axis point 279.34558325 185.37659962 0.00000000 
    5253 Rotation angle (degrees) 114.77098771 
    5254 Shift along axis -14.14556970 
    5255  
    5256 
    5257 > view matrix models
    5258 > #10,-0.41873,0.81674,-0.39699,243.33,-0.83275,-0.17099,0.52658,450.56,0.36219,0.55109,0.75174,-190.66
    5259 
    5260 > fitmap #10 inMap #6.1
    5261 
    5262 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5263 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5264 average map value = 0.2848, steps = 132 
    5265 shifted from previous position = 2.27 
    5266 rotated from previous position = 5.49 degrees 
    5267 atoms outside contour = 814, contour level = 0.3 
    5268  
    5269 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5270 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5271 Matrix rotation and translation 
    5272 -0.34177341 0.82609238 -0.44806506 232.13817932 
    5273 -0.85934901 -0.08172413 0.50481721 440.50451842 
    5274 0.38040793 0.55757738 0.73783280 -194.81986193 
    5275 Axis 0.02808195 -0.44096019 -0.89708724 
    5276 Axis point 282.54868069 177.47931562 0.00000000 
    5277 Rotation angle (degrees) 110.04953171 
    5278 Shift along axis -12.95565045 
    5279  
    5280 
    5281 > fitmap #10 inMap #6.1
    5282 
    5283 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5284 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5285 average map value = 0.2849, steps = 76 
    5286 shifted from previous position = 0.00999 
    5287 rotated from previous position = 0.0187 degrees 
    5288 atoms outside contour = 812, contour level = 0.3 
    5289  
    5290 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5291 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5292 Matrix rotation and translation 
    5293 -0.34182437 0.82622931 -0.44777361 232.05058378 
    5294 -0.85929692 -0.08188629 0.50487961 440.51399090 
    5295 0.38047982 0.55735065 0.73796703 -194.81462851 
    5296 Axis 0.02792848 -0.44085008 -0.89714615 
    5297 Axis point 282.50960891 177.51273883 -0.00000000 
    5298 Rotation angle (degrees) 110.05193761 
    5299 Shift along axis -12.94261544 
    5300  
    5301 
    5302 > view matrix models
    5303 > #10,-0.34182,0.82623,-0.44777,229.72,-0.8593,-0.081886,0.50488,437.34,0.38048,0.55735,0.73797,-195
    5304 
    5305 > fitmap #10 inMap #6.1
    5306 
    5307 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5308 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5309 average map value = 0.2599, steps = 156 
    5310 shifted from previous position = 1.14 
    5311 rotated from previous position = 9.04 degrees 
    5312 atoms outside contour = 833, contour level = 0.3 
    5313  
    5314 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5315 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5316 Matrix rotation and translation 
    5317 -0.45872163 0.81212497 -0.36059324 247.48067508 
    5318 -0.82174281 -0.23330803 0.51990970 459.99493705 
    5319 0.33810235 0.53480874 0.77438129 -184.41354908 
    5320 Axis 0.00838412 -0.39317631 -0.91942487 
    5321 Axis point 274.05877206 187.43100939 0.00000000 
    5322 Rotation angle (degrees) 117.31126040 
    5323 Shift along axis -9.22980119 
    5324  
    5325 
    5326 > fitmap #10 inMap #6.1
    5327 
    5328 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5329 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5330 average map value = 0.2598, steps = 44 
    5331 shifted from previous position = 0.00633 
    5332 rotated from previous position = 0.0311 degrees 
    5333 atoms outside contour = 834, contour level = 0.3 
    5334  
    5335 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5336 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5337 Matrix rotation and translation 
    5338 -0.45896836 0.81212458 -0.36028002 247.49162144 
    5339 -0.82169925 -0.23380150 0.51975685 460.13276877 
    5340 0.33787331 0.53459378 0.77462964 -184.34467270 
    5341 Axis 0.00835037 -0.39292734 -0.91953161 
    5342 Axis point 274.05090813 187.48722626 0.00000000 
    5343 Rotation angle (degrees) 117.32711985 
    5344 Shift along axis -9.22134789 
    5345  
    5346 
    5347 > select subtract #10
    5348 
    5349 Nothing selected 
    5350 
    5351 > select add #9
    5352 
    5353 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    5354 
    5355 > fitmap #9 inMap #6.1
    5356 
    5357 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5358 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5359 average map value = 0.3429, steps = 48 
    5360 shifted from previous position = 0.00482 
    5361 rotated from previous position = 0.0297 degrees 
    5362 atoms outside contour = 743, contour level = 0.3 
    5363  
    5364 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5365 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5366 Matrix rotation and translation 
    5367 0.43081558 0.88894856 -0.15546189 -55.95005334 
    5368 -0.90228110 0.42106768 -0.09268672 425.80064604 
    5369 -0.01693375 0.18020121 0.98348400 -34.87414002 
    5370 Axis 0.15017068 -0.07623227 -0.98571670 
    5371 Axis point 305.98064381 257.76012713 0.00000000 
    5372 Rotation angle (degrees) 65.31156844 
    5373 Shift along axis -6.48578615 
    5374  
    5375 
    5376 > view matrix models
    5377 > #9,0.4316,0.89467,-0.11531,-65.618,-0.89754,0.41312,-0.15414,438.65,-0.090268,0.17002,0.9813,-10.378
    5378 
    5379 > fitmap #9 inMap #6.1
    5380 
    5381 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5382 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5383 average map value = 0.3431, steps = 64 
    5384 shifted from previous position = 1.09 
    5385 rotated from previous position = 4.24 degrees 
    5386 atoms outside contour = 742, contour level = 0.3 
    5387  
    5388 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5389 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5390 Matrix rotation and translation 
    5391 0.43055940 0.88906107 -0.15552817 -55.89625549 
    5392 -0.90240047 0.42078031 -0.09282959 425.91491378 
    5393 -0.01708798 0.18031735 0.98346005 -34.86764887 
    5394 Axis 0.15029165 -0.07617294 -0.98570285 
    5395 Axis point 305.98630048 257.75976176 0.00000000 
    5396 Rotation angle (degrees) 65.32946065 
    5397 Shift along axis -6.47479083 
    5398  
    5399 
    5400 > view matrix models
    5401 > #9,0.43056,0.88906,-0.15553,-54.331,-0.9024,0.42078,-0.09283,423.75,-0.017088,0.18032,0.98346,-34.882
    5402 
    5403 > fitmap #9 inMap #6.1
    5404 
    5405 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5406 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5407 average map value = 0.3431, steps = 80 
    5408 shifted from previous position = 2.68 
    5409 rotated from previous position = 0.0172 degrees 
    5410 atoms outside contour = 743, contour level = 0.3 
    5411  
    5412 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5413 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5414 Matrix rotation and translation 
    5415 0.43071344 0.88901482 -0.15536599 -55.96059835 
    5416 -0.90232909 0.42096990 -0.09266369 425.81899077 
    5417 -0.01697499 0.18010275 0.98350133 -34.85342199 
    5418 Axis 0.15009690 -0.07615328 -0.98573404 
    5419 Axis point 305.95098058 257.77200239 0.00000000 
    5420 Rotation angle (degrees) 65.31732552 
    5421 Shift along axis -6.47082065 
    5422  
    5423 
    5424 > fitmap #9 inMap #6.1
    5425 
    5426 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5427 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5428 average map value = 0.3428, steps = 44 
    5429 shifted from previous position = 0.0224 
    5430 rotated from previous position = 0.0238 degrees 
    5431 atoms outside contour = 742, contour level = 0.3 
    5432  
    5433 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5434 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5435 Matrix rotation and translation 
    5436 0.43075065 0.88903334 -0.15515669 -56.01434867 
    5437 -0.90231565 0.42107410 -0.09232048 425.73733288 
    5438 -0.01674352 0.17976741 0.98356664 -34.83608674 
    5439 Axis 0.14973134 -0.07616946 -0.98578838 
    5440 Axis point 305.89070127 257.77776616 0.00000000 
    5441 Rotation angle (degrees) 65.31080747 
    5442 Shift along axis -6.47427740 
    5443  
    5444 
    5445 > view matrix models
    5446 > #9,0.43075,0.88903,-0.15516,-52.084,-0.90232,0.42107,-0.09232,420.48,-0.016744,0.17977,0.98357,-34.866
    5447 
    5448 > fitmap #9 inMap #6.1
    5449 
    5450 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5451 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5452 average map value = 1.092, steps = 72 
    5453 shifted from previous position = 3.1 
    5454 rotated from previous position = 10.3 degrees 
    5455 atoms outside contour = 201, contour level = 0.3 
    5456  
    5457 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5458 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5459 Matrix rotation and translation 
    5460 0.50141154 0.86520879 0.00048075 -99.84074559 
    5461 -0.86418861 0.50084714 -0.04827203 382.71666870 
    5462 -0.04200616 0.02378869 0.99883412 5.27911260 
    5463 Axis 0.04161944 0.02453878 -0.99883215 
    5464 Axis point 282.26220433 278.05067915 0.00000000 
    5465 Rotation angle (degrees) 59.96384426 
    5466 Shift along axis -0.03686481 
    5467  
    5468 
    5469 > fitmap #9 inMap #6.1
    5470 
    5471 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5472 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5473 average map value = 1.092, steps = 40 
    5474 shifted from previous position = 0.00281 
    5475 rotated from previous position = 0.00699 degrees 
    5476 atoms outside contour = 201, contour level = 0.3 
    5477  
    5478 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5479 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5480 Matrix rotation and translation 
    5481 0.50138790 0.86522248 0.00048859 -99.83717711 
    5482 -0.86419711 0.50082103 -0.04839061 382.74779744 
    5483 -0.04211334 0.02384023 0.99882837 5.29653833 
    5484 Axis 0.04171693 0.02460475 -0.99882646 
    5485 Axis point 282.28124064 278.06078612 0.00000000 
    5486 Rotation angle (degrees) 59.96568043 
    5487 Shift along axis -0.03780880 
    5488  
    5489 
    5490 > select subtract #9
    5491 
    5492 Nothing selected 
    5493 
    5494 > hide #!6.1 models
    5495 
    5496 > color #9 #fa7d41ff
    5497 
    5498 > hide #10 models
    5499 
    5500 > show #10 models
    5501 
    5502 > select add #10
    5503 
    5504 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    5505 
    5506 > view matrix models
    5507 > #10,-0.45897,0.81212,-0.36028,247.43,-0.8217,-0.2338,0.51976,459.7,0.33787,0.53459,0.77463,-181.58
    5508 
    5509 > fitmap #10 inMap #6.1
    5510 
    5511 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5512 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5513 average map value = 0.2599, steps = 76 
    5514 shifted from previous position = 2.81 
    5515 rotated from previous position = 0.00998 degrees 
    5516 atoms outside contour = 832, contour level = 0.3 
    5517  
    5518 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5519 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5520 Matrix rotation and translation 
    5521 -0.45907437 0.81210356 -0.36019233 247.49908529 
    5522 -0.82160065 -0.23385719 0.51988765 460.10057019 
    5523 0.33796905 0.53460136 0.77458265 -184.36844023 
    5524 Axis 0.00828152 -0.39295572 -0.91952010 
    5525 Axis point 274.03289274 187.48709972 0.00000000 
    5526 Rotation angle (degrees) 117.33384960 
    5527 Shift along axis -9.21899693 
    5528  
    5529 
    5530 > view matrix models
    5531 > #10,-0.48466,0.74828,-0.45297,289.01,-0.84682,-0.27169,0.45725,489.2,0.21908,0.6052,0.76534,-164.43
    5532 
    5533 > view matrix models
    5534 > #10,-0.54275,0.73639,-0.40391,299.13,-0.81584,-0.34798,0.46186,497.47,0.19955,0.58021,0.78964,-157.56
    5535 
    5536 > fitmap #10 inMap #6.1
    5537 
    5538 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5539 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5540 average map value = 0.2626, steps = 92 
    5541 shifted from previous position = 3.08 
    5542 rotated from previous position = 11.8 degrees 
    5543 atoms outside contour = 823, contour level = 0.3 
    5544  
    5545 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5546 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5547 Matrix rotation and translation 
    5548 -0.46991203 0.84532728 -0.25417409 222.73768167 
    5549 -0.84409672 -0.34608621 0.40954248 518.30839037 
    5550 0.25823129 0.40699646 0.87616805 -148.38916888 
    5551 Axis -0.00144216 -0.29024506 -0.95695127 
    5552 Axis point 273.31109525 211.77385464 0.00000000 
    5553 Rotation angle (degrees) 118.02878544 
    5554 Shift along axis -8.75647093 
    5555  
    5556 
    5557 > fitmap #10 inMap #6.1
    5558 
    5559 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5560 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5561 average map value = 0.2626, steps = 48 
    5562 shifted from previous position = 0.00437 
    5563 rotated from previous position = 0.0141 degrees 
    5564 atoms outside contour = 824, contour level = 0.3 
    5565  
    5566 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5567 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5568 Matrix rotation and translation 
    5569 -0.46994686 0.84537908 -0.25393729 222.68269933 
    5570 -0.84405198 -0.34618769 0.40954892 518.32028108 
    5571 0.25831413 0.40680250 0.87623370 -148.37999222 
    5572 Axis -0.00155570 -0.29016404 -0.95697566 
    5573 Axis point 273.28563242 211.79406149 0.00000000 
    5574 Rotation angle (degrees) 118.03107852 
    5575 Shift along axis -8.74829333 
    5576  
    5577 
    5578 > view matrix models
    5579 > #10,-0.5163,0.83012,-0.21056,231.3,-0.82382,-0.41423,0.38696,533.24,0.234,0.37325,0.89773,-137.47
    5580 
    5581 > view matrix models
    5582 > #10,-0.52315,0.81421,-0.25175,245.41,-0.83166,-0.42321,0.35948,543.23,0.18615,0.39744,0.89855,-129.35
    5583 
    5584 > view matrix models
    5585 > #10,-0.52481,0.80915,-0.26429,249.63,-0.83377,-0.4261,0.35109,546.23,0.17147,0.40461,0.89827,-126.68
    5586 
    5587 > fitmap #10 inMap #6.1
    5588 
    5589 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5590 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5591 average map value = 0.2636, steps = 76 
    5592 shifted from previous position = 2.44 
    5593 rotated from previous position = 2.54 degrees 
    5594 atoms outside contour = 809, contour level = 0.3 
    5595  
    5596 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5597 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5598 Matrix rotation and translation 
    5599 -0.49235645 0.82007490 -0.29165437 243.10432160 
    5600 -0.85363344 -0.38951910 0.34581036 545.08387355 
    5601 0.16998545 0.41922789 0.89182560 -130.64623661 
    5602 Axis 0.04224843 -0.26565261 -0.96314265 
    5603 Axis point 282.44675723 217.10127815 0.00000000 
    5604 Rotation angle (degrees) 119.67139738 
    5605 Shift along axis -8.70121670 
    5606  
    5607 
    5608 > fitmap #10 inMap #6.1
    5609 
    5610 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5611 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5612 average map value = 0.2626, steps = 144 
    5613 shifted from previous position = 0.342 
    5614 rotated from previous position = 2.13 degrees 
    5615 atoms outside contour = 808, contour level = 0.3 
    5616  
    5617 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5618 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5619 Matrix rotation and translation 
    5620 -0.47505739 0.81838272 -0.32337313 245.35142587 
    5621 -0.86714010 -0.37289473 0.33017805 547.80974109 
    5622 0.14962788 0.43726334 0.88679887 -128.50019801 
    5623 Axis 0.06105534 -0.26968444 -0.96101121 
    5624 Axis point 286.64086834 216.15142582 0.00000000 
    5625 Rotation angle (degrees) 118.72306907 
    5626 Shift along axis -9.26561666 
    5627  
    5628 
    5629 > view matrix models
    5630 > #10,-0.47506,0.81838,-0.32337,246.01,-0.86714,-0.37289,0.33018,546.24,0.14963,0.43726,0.8868,-128.94
    5631 
    5632 > view matrix models
    5633 > #10,-0.50135,0.778,-0.37863,274.56,-0.86039,-0.402,0.31324,554.64,0.091494,0.48281,0.87093,-119.57
    5634 
    5635 > fitmap #10 inMap #6.1
    5636 
    5637 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5638 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5639 average map value = 0.2915, steps = 168 
    5640 shifted from previous position = 1.55 
    5641 rotated from previous position = 13 degrees 
    5642 atoms outside contour = 806, contour level = 0.3 
    5643  
    5644 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5645 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5646 Matrix rotation and translation 
    5647 -0.62646300 0.73647792 -0.25523395 293.39321320 
    5648 -0.77894435 -0.57973324 0.23907123 590.59453011 
    5649 0.02810308 0.34858233 0.93685674 -81.62535318 
    5650 Axis 0.07085497 -0.18332239 -0.98049604 
    5651 Axis point 285.79567182 232.07102359 0.00000000 
    5652 Rotation angle (degrees) 129.39549496 
    5653 Shift along axis -7.44749726 
    5654  
    5655 
    5656 > fitmap #10 inMap #6.1
    5657 
    5658 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5659 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5660 average map value = 0.2915, steps = 60 
    5661 shifted from previous position = 0.0197 
    5662 rotated from previous position = 0.031 degrees 
    5663 atoms outside contour = 805, contour level = 0.3 
    5664  
    5665 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5666 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5667 Matrix rotation and translation 
    5668 -0.62645079 0.73651144 -0.25516721 293.37930862 
    5669 -0.77893728 -0.57953661 0.23957049 590.44525285 
    5670 0.02856767 0.34883838 0.93674737 -81.77946703 
    5671 Axis 0.07069387 -0.18357010 -0.98046132 
    5672 Axis point 285.76935571 232.01630242 0.00000000 
    5673 Rotation angle (degrees) 129.39180697 
    5674 Shift along axis -7.46637011 
    5675  
    5676 
    5677 > view matrix models
    5678 > #10,-0.65507,0.68109,-0.32711,329.57,-0.75517,-0.6042,0.25429,586.41,-0.024443,0.4136,0.91013,-76.368
    5679 
    5680 > fitmap #10 inMap #6.1
    5681 
    5682 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5683 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5684 average map value = 0.2915, steps = 92 
    5685 shifted from previous position = 1.03 
    5686 rotated from previous position = 5.47 degrees 
    5687 atoms outside contour = 807, contour level = 0.3 
    5688  
    5689 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5690 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5691 Matrix rotation and translation 
    5692 -0.62641848 0.73654460 -0.25515080 293.35888586 
    5693 -0.77897050 -0.57960331 0.23930095 590.52659984 
    5694 0.02836958 0.34865749 0.93682074 -81.69670194 
    5695 Axis 0.07074976 -0.18342752 -0.98048397 
    5696 Axis point 285.78130656 232.04734436 0.00000000 
    5697 Rotation angle (degrees) 129.39036260 
    5698 Shift along axis -7.46145472 
    5699  
    5700 
    5701 > fitmap #10 inMap #6.1
    5702 
    5703 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5704 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5705 average map value = 0.2915, steps = 60 
    5706 shifted from previous position = 0.0144 
    5707 rotated from previous position = 0.0247 degrees 
    5708 atoms outside contour = 807, contour level = 0.3 
    5709  
    5710 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5711 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5712 Matrix rotation and translation 
    5713 -0.62665400 0.73642867 -0.25490696 293.39145875 
    5714 -0.77878367 -0.57991394 0.23915645 590.57759405 
    5715 0.02829757 0.34838573 0.93692401 -81.63909936 
    5716 Axis 0.07068407 -0.18326632 -0.98051885 
    5717 Axis point 285.75804624 232.08178944 0.00000000 
    5718 Rotation angle (degrees) 129.40678125 
    5719 Shift along axis -7.44620260 
    5720  
    5721 
    5722 > view matrix models
    5723 > #10,-0.73425,0.64301,-0.21773,340.08,-0.6787,-0.68812,0.2566,583.57,0.01517,0.33619,0.94167,-75.794
    5724 
    5725 > view matrix models
    5726 > #10,-0.78664,0.58479,-0.19805,365.55,-0.61733,-0.73953,0.26832,575.48,0.01044,0.33333,0.94275,-73.93
    5727 
    5728 > fitmap #10 inMap #6.1
    5729 
    5730 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5731 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5732 average map value = 0.2679, steps = 160 
    5733 shifted from previous position = 1.35 
    5734 rotated from previous position = 19.1 degrees 
    5735 atoms outside contour = 821, contour level = 0.3 
    5736  
    5737 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5738 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5739 Matrix rotation and translation 
    5740 -0.69045958 0.64215276 -0.33302461 352.74236478 
    5741 -0.71064280 -0.51616834 0.47807640 503.74426218 
    5742 0.13510132 0.56675398 0.81273460 -140.14317458 
    5743 Axis 0.06182871 -0.32639167 -0.94321031 
    5744 Axis point 283.86454132 196.95419443 0.00000000 
    5745 Rotation angle (degrees) 134.18254447 
    5746 Shift along axis -10.42383908 
    5747  
    5748 
    5749 > fitmap #10 inMap #6.1
    5750 
    5751 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5752 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5753 average map value = 0.2679, steps = 44 
    5754 shifted from previous position = 0.00825 
    5755 rotated from previous position = 0.0144 degrees 
    5756 atoms outside contour = 820, contour level = 0.3 
    5757  
    5758 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5759 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5760 Matrix rotation and translation 
    5761 -0.69035378 0.64220159 -0.33314977 352.73387407 
    5762 -0.71072859 -0.51596128 0.47817237 503.69515483 
    5763 0.13519067 0.56688718 0.81262684 -140.17962089 
    5764 Axis 0.06184608 -0.32649587 -0.94317311 
    5765 Axis point 283.87303177 196.92757566 0.00000000 
    5766 Rotation angle (degrees) 134.17435145 
    5767 Shift along axis -10.42553272 
    5768  
    5769 
    5770 > fitmap #11 inMap #6.1
    5771 
    5772 Fit molecule copy of Terminator_1-coot-1.pdb (#11) to map
    5773 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5774 average map value = 1.099, steps = 40 
    5775 shifted from previous position = 0.0172 
    5776 rotated from previous position = 0.0183 degrees 
    5777 atoms outside contour = 208, contour level = 0.3 
    5778  
    5779 Position of copy of Terminator_1-coot-1.pdb (#11) relative to
    5780 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5781 Matrix rotation and translation 
    5782 -0.99998905 0.00137221 0.00446927 541.84223356 
    5783 -0.00158534 -0.99884422 -0.04803821 555.67989885 
    5784 0.00439819 -0.04804478 0.99883546 12.17812607 
    5785 Axis -0.00221850 0.02402764 -0.99970883 
    5786 Axis point 271.11315612 277.78586494 0.00000000 
    5787 Rotation angle (degrees) 179.91524754 
    5788 Shift along axis -0.02497863 
    5789  
    5790 
    5791 > fitmap #12 inMap #6.1
    5792 
    5793 Fit molecule copy of Terminator_1-coot-1.pdb (#12) to map
    5794 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5795 average map value = 1.092, steps = 44 
    5796 shifted from previous position = 0.0164 
    5797 rotated from previous position = 0.00859 degrees 
    5798 atoms outside contour = 201, contour level = 0.3 
    5799  
    5800 Position of copy of Terminator_1-coot-1.pdb (#12) relative to
    5801 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5802 Matrix rotation and translation 
    5803 -0.50132805 -0.86524467 0.00466751 641.74373238 
    5804 0.86404208 -0.50090249 -0.05027849 185.71392730 
    5805 0.04584117 -0.02117310 0.99872427 -6.35037358 
    5806 Axis 0.01682372 -0.02379950 0.99957518 
    5807 Axis point 267.41670156 277.68219195 0.00000000 
    5808 Rotation angle (degrees) 120.11605473 
    5809 Shift along axis 0.02894002 
    5810  
    5811 
    5812 > fitmap #13 inMap #6.1
    5813 
    5814 Fit molecule copy of Terminator_1-coot-1.pdb (#13) to map
    5815 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5816 average map value = 1.087, steps = 40 
    5817 shifted from previous position = 0.0183 
    5818 rotated from previous position = 0.0171 degrees 
    5819 atoms outside contour = 204, contour level = 0.3 
    5820  
    5821 Position of copy of Terminator_1-coot-1.pdb (#13) relative to
    5822 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5823 Matrix rotation and translation 
    5824 0.49920594 -0.86648021 0.00232134 370.75408935 
    5825 0.86538213 0.49843470 -0.05173525 -85.77682652 
    5826 0.04367054 0.02783539 0.99865805 -19.07094375 
    5827 Axis 0.04588366 -0.02384363 0.99866219 
    5828 Axis point 260.01625020 277.60467430 0.00000000 
    5829 Rotation angle (degrees) 60.12236081 
    5830 Shift along axis 0.01135631 
    5831  
    5832 
    5833 > fitmap #10 inMap #6.1
    5834 
    5835 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    5836 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5837 average map value = 0.2679, steps = 44 
    5838 shifted from previous position = 0.0174 
    5839 rotated from previous position = 0.0197 degrees 
    5840 atoms outside contour = 816, contour level = 0.3 
    5841  
    5842 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    5843 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5844 Matrix rotation and translation 
    5845 -0.69024690 0.64220296 -0.33336849 352.75449235 
    5846 -0.71082104 -0.51570778 0.47830839 503.64299014 
    5847 0.13525034 0.56711623 0.81245707 -140.20608389 
    5848 Axis 0.06190294 -0.32664778 -0.94311678 
    5849 Axis point 283.89184618 196.89436903 0.00000000 
    5850 Rotation angle (degrees) 134.16673888 
    5851 Shift along axis -10.44661410 
    5852  
    5853 
    5854 > select subtract #10
    5855 
    5856 Nothing selected 
    5857 
    5858 > select add #9
    5859 
    5860 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    5861 
    5862 > view matrix models
    5863 > #9,0.48988,0.86797,-0.081577,-80.623,-0.86965,0.49309,0.024099,371.65,0.061142,0.059137,0.99638,-33.119
    5864 
    5865 > view matrix models
    5866 > #9,0.13841,0.99024,-0.016474,-19.49,-0.98967,0.13892,0.0354,489.83,0.037343,0.011404,0.99924,-15.214
    5867 
    5868 > fitmap #9 inMap #6.1
    5869 
    5870 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5871 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5872 average map value = 0.2608, steps = 80 
    5873 shifted from previous position = 2.13 
    5874 rotated from previous position = 6.17 degrees 
    5875 atoms outside contour = 828, contour level = 0.3 
    5876  
    5877 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5878 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5879 Matrix rotation and translation 
    5880 0.19350872 0.97870791 0.06844856 -50.76105780 
    5881 -0.98103281 0.19383195 0.00195088 482.30821138 
    5882 -0.01135818 -0.06752779 0.99765274 18.60428476 
    5883 Axis -0.03540142 0.04066388 -0.99854554 
    5884 Axis point 267.70278809 272.35986583 0.00000000 
    5885 Rotation angle (degrees) 78.90147495 
    5886 Shift along axis 2.83231072 
    5887  
    5888 
    5889 > view matrix models
    5890 > #9,0.34838,0.93735,0.00019153,-72.761,-0.93723,0.34833,0.01608,429.45,0.015006,-0.0057815,0.99987,-4.4431
    5891 
    5892 > view matrix models
    5893 > #9,-0.07083,0.98835,0.13469,11.521,-0.99665,-0.064593,-0.050131,559.45,-0.040847,-0.13779,0.98962,45.786
    5894 
    5895 > view matrix models
    5896 > #9,-0.082764,0.92067,0.38147,-18.263,-0.99186,-0.11325,0.058137,547.98,0.096727,-0.37355,0.92255,75.345
    5897 
    5898 > view matrix models
    5899 > #9,-0.082764,0.92067,0.38147,-28.594,-0.99186,-0.11325,0.058137,545.63,0.096727,-0.37355,0.92255,74.582
    5900 
    5901 > view matrix models
    5902 > #9,-0.01802,0.99918,0.036272,2.7902,-0.95957,-0.0070909,-0.28139,578.8,-0.2809,-0.039877,0.95891,98.414
    5903 
    5904 > fitmap #9 inMap #6.1
    5905 
    5906 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5907 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5908 average map value = 0.2966, steps = 164 
    5909 shifted from previous position = 1.63 
    5910 rotated from previous position = 13.3 degrees 
    5911 atoms outside contour = 790, contour level = 0.3 
    5912  
    5913 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5914 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5915 Matrix rotation and translation 
    5916 0.18236024 0.98156913 0.05715579 -53.35272309 
    5917 -0.96842839 0.18936012 -0.16213948 507.56709544 
    5918 -0.16997414 -0.02578350 0.98511117 58.88840412 
    5919 Axis 0.06928973 0.11541681 -0.99089752 
    5920 Axis point 282.35559943 289.30986437 0.00000000 
    5921 Rotation angle (degrees) 79.72250403 
    5922 Shift along axis -3.46739635 
    5923  
    5924 
    5925 > fitmap #9 inMap #6.1
    5926 
    5927 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5928 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5929 average map value = 0.2967, steps = 44 
    5930 shifted from previous position = 0.00915 
    5931 rotated from previous position = 0.0335 degrees 
    5932 atoms outside contour = 794, contour level = 0.3 
    5933  
    5934 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5935 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5936 Matrix rotation and translation 
    5937 0.18248685 0.98155722 0.05695588 -53.34015310 
    5938 -0.96832063 0.18946449 -0.16266030 507.62380575 
    5939 -0.17045151 -0.02546819 0.98503688 58.96504355 
    5940 Axis 0.06971562 0.11555947 -0.99085102 
    5941 Axis point 282.45228044 289.34202550 0.00000000 
    5942 Rotation angle (degrees) 79.71794177 
    5943 Shift along axis -3.48347831 
    5944  
    5945 
    5946 > select add #10
    5947 
    5948 2432 atoms, 2484 bonds, 300 residues, 2 models selected 
    5949 
    5950 > select subtract #9
    5951 
    5952 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    5953 
    5954 > view matrix models
    5955 > #10,-0.69025,0.6422,-0.33337,343.6,-0.71082,-0.51571,0.47831,508.21,0.13525,0.56712,0.81246,-141.16
    5956 
    5957 > select add #9
    5958 
    5959 2432 atoms, 2484 bonds, 300 residues, 2 models selected 
    5960 
    5961 > select subtract #10
    5962 
    5963 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    5964 
    5965 > fitmap #9 inMap #6.1
    5966 
    5967 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5968 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5969 average map value = 0.2966, steps = 48 
    5970 shifted from previous position = 0.0117 
    5971 rotated from previous position = 0.0314 degrees 
    5972 atoms outside contour = 792, contour level = 0.3 
    5973  
    5974 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5975 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5976 Matrix rotation and translation 
    5977 0.18236893 0.98156873 0.05713505 -53.34662037 
    5978 -0.96842224 0.18936594 -0.16216940 507.58189140 
    5979 -0.16999984 -0.02575619 0.98510745 58.90480670 
    5980 Axis 0.06931888 0.11541944 -0.99089517 
    5981 Axis point 282.37246944 289.31421476 0.00000000 
    5982 Rotation angle (degrees) 79.72219004 
    5983 Shift along axis -3.48159856 
    5984  
    5985 
    5986 > fitmap #9 inMap #6.1
    5987 
    5988 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    5989 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    5990 average map value = 0.2967, steps = 40 
    5991 shifted from previous position = 0.0196 
    5992 rotated from previous position = 0.00654 degrees 
    5993 atoms outside contour = 790, contour level = 0.3 
    5994  
    5995 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    5996 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    5997 Matrix rotation and translation 
    5998 0.18237174 0.98156839 0.05713184 -53.35036884 
    5999 -0.96840242 0.18937110 -0.16228170 507.58662104 
    6000 -0.17010971 -0.02573102 0.98508914 58.91753852 
    6001 Axis 0.06938867 0.11547353 -0.99088399 
    6002 Axis point 282.37709621 289.32178302 0.00000000 
    6003 Rotation angle (degrees) 79.72249095 
    6004 Shift along axis -3.46953848 
    6005  
    6006 
    6007 > view matrix models
    6008 > #9,0.18463,0.98239,-0.028556,-37.005,-0.98053,0.18215,-0.073349,495.04,-0.066856,0.041543,0.9969,9.957
    6009 
    6010 > view matrix models
    6011 > #9,0.33228,0.94318,-0.0029871,-76.233,-0.94314,0.33223,-0.010903,435.42,-0.0092912,0.0064401,0.99994,0.81422
    6012 
    6013 > view matrix models
    6014 > #9,0.29519,0.95541,0.0078788,-70.423,-0.95541,0.29524,-0.005384,446.82,-0.00747,-0.0059381,0.99995,3.2472
    6015 
    6016 > view matrix models
    6017 > #9,0.29519,0.95541,0.0078788,-67.908,-0.95541,0.29524,-0.005384,445.03,-0.00747,-0.0059381,0.99995,3.2741
    6018 
    6019 > fitmap #9 inMap #6.1
    6020 
    6021 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6022 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6023 average map value = 0.2932, steps = 96 
    6024 shifted from previous position = 1.5 
    6025 rotated from previous position = 7.15 degrees 
    6026 atoms outside contour = 790, contour level = 0.3 
    6027  
    6028 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6029 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6030 Matrix rotation and translation 
    6031 0.37850249 0.92312660 -0.06762514 -67.81548525 
    6032 -0.92533707 0.37564134 -0.05142862 424.97423632 
    6033 -0.02207233 0.08204191 0.99638444 -12.88995694 
    6034 Axis 0.07199695 -0.02457219 -0.99710212 
    6035 Axis point 281.76416990 262.96849039 0.00000000 
    6036 Rotation angle (degrees) 67.95936125 
    6037 Shift along axis -2.47245310 
    6038  
    6039 
    6040 > fitmap #9 inMap #6.1
    6041 
    6042 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6043 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6044 average map value = 0.2932, steps = 48 
    6045 shifted from previous position = 0.0167 
    6046 rotated from previous position = 0.029 degrees 
    6047 atoms outside contour = 790, contour level = 0.3 
    6048  
    6049 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6050 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6051 Matrix rotation and translation 
    6052 0.37811322 0.92327563 -0.06776810 -67.71751520 
    6053 -0.92549179 0.37522990 -0.05164758 425.14705679 
    6054 -0.02225634 0.08224746 0.99636340 -12.88996285 
    6055 Axis 0.07221299 -0.02454565 -0.99708716 
    6056 Axis point 281.79393111 262.95813903 0.00000000 
    6057 Rotation angle (degrees) 67.98475639 
    6058 Shift along axis -2.47317902 
    6059  
    6060 
    6061 > view matrix models
    6062 > #9,0.46694,0.87982,-0.088792,-79.234,-0.88402,0.46198,-0.071253,396.03,-0.02167,0.11176,0.9935,-19.578
    6063 
    6064 > view matrix models
    6065 > #9,0.46714,0.87606,-0.11956,-72.213,-0.87254,0.43489,-0.2226,429.54,-0.14302,0.20831,0.96755,-1.7957
    6066 
    6067 > fitmap #9 inMap #6.1
    6068 
    6069 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6070 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6071 average map value = 0.2726, steps = 104 
    6072 shifted from previous position = 4.08 
    6073 rotated from previous position = 7.33 degrees 
    6074 atoms outside contour = 819, contour level = 0.3 
    6075  
    6076 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6077 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6078 Matrix rotation and translation 
    6079 0.52861284 0.84736378 -0.05042905 -93.47253152 
    6080 -0.84306236 0.51714009 -0.14768880 386.88489880 
    6081 -0.09906725 0.12058503 0.98774741 5.79986235 
    6082 Axis 0.15667706 0.02840564 -0.98724132 
    6083 Axis point 301.09903826 276.07616257 0.00000000 
    6084 Rotation angle (degrees) 58.88548948 
    6085 Shift along axis -9.38115114 
    6086  
    6087 
    6088 > fitmap #9 inMap #6.1
    6089 
    6090 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6091 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6092 average map value = 0.2726, steps = 48 
    6093 shifted from previous position = 0.00526 
    6094 rotated from previous position = 0.0113 degrees 
    6095 atoms outside contour = 819, contour level = 0.3 
    6096  
    6097 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6098 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6099 Matrix rotation and translation 
    6100 0.52875268 0.84728075 -0.05035813 -93.50177990 
    6101 -0.84298030 0.51729559 -0.14761267 386.81183468 
    6102 -0.09901934 0.12050150 0.98776240 5.80309068 
    6103 Axis 0.15660096 0.02842219 -0.98725292 
    6104 Axis point 301.08838830 276.08362951 0.00000000 
    6105 Rotation angle (degrees) 58.87510479 
    6106 Shift along axis -9.37754635 
    6107  
    6108 
    6109 > view matrix models
    6110 > #9,0.52875,0.84728,-0.050358,-94.387,-0.84298,0.5173,-0.14761,388.49,-0.099019,0.1205,0.98776,5.7968
    6111 
    6112 > view matrix models
    6113 > #9,0.53691,0.83688,-0.10662,-82.994,-0.82929,0.50033,-0.24889,408.87,-0.15495,0.22205,0.96265,2.9303
    6114 
    6115 > view matrix models
    6116 > #9,0.42189,0.89582,-0.1397,-56.611,-0.89353,0.3847,-0.23151,452.08,-0.15365,0.2225,0.96275,2.4184
    6117 
    6118 > fitmap #9 inMap #6.1
    6119 
    6120 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6121 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6122 average map value = 0.3016, steps = 452 
    6123 shifted from previous position = 2.86 
    6124 rotated from previous position = 17.5 degrees 
    6125 atoms outside contour = 774, contour level = 0.3 
    6126  
    6127 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6128 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6129 Matrix rotation and translation 
    6130 0.65070841 0.72139481 -0.23699809 -55.77446810 
    6131 -0.75542240 0.58340782 -0.29828227 378.24989778 
    6132 -0.07691274 0.37312845 0.92458618 -46.83676724 
    6133 Axis 0.41186899 -0.09820247 -0.90593610 
    6134 Axis point 364.12003956 243.52037284 0.00000000 
    6135 Rotation angle (degrees) 54.59507746 
    6136 Shift along axis -17.68572882 
    6137  
    6138 
    6139 > fitmap #9 inMap #6.1
    6140 
    6141 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6142 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6143 average map value = 0.3016, steps = 44 
    6144 shifted from previous position = 0.00789 
    6145 rotated from previous position = 0.0253 degrees 
    6146 atoms outside contour = 774, contour level = 0.3 
    6147  
    6148 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6149 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6150 Matrix rotation and translation 
    6151 0.65085681 0.72137615 -0.23664715 -55.88025383 
    6152 -0.75525706 0.58348907 -0.29854194 378.23934814 
    6153 -0.07728002 0.37303748 0.92459226 -46.72000903 
    6154 Axis 0.41201483 -0.09777194 -0.90591635 
    6155 Axis point 364.16735498 243.62085686 0.00000000 
    6156 Rotation angle (degrees) 54.58679194 
    6157 Shift along axis -17.68026647 
    6158  
    6159 
    6160 > view matrix models
    6161 > #9,0.65086,0.72138,-0.23665,-55.21,-0.75526,0.58349,-0.29854,377.45,-0.07728,0.37304,0.92459,-52.35
    6162 
    6163 > view matrix models
    6164 > #9,0.60727,0.78847,-0.09765,-86.396,-0.79426,0.5995,-0.098748,344.97,-0.019318,0.13753,0.99031,-26.056
    6165 
    6166 > view matrix models
    6167 > #9,0.82625,0.55523,-0.095062,-95.421,-0.56174,0.79958,-0.21242,251.22,-0.041931,0.22891,0.97254,-37.776
    6168 
    6169 > view matrix models
    6170 > #9,0.82625,0.55523,-0.095062,-98.321,-0.56174,0.79958,-0.21242,253.58,-0.041931,0.22891,0.97254,-35.909
    6171 
    6172 > fitmap #9 inMap #6.1
    6173 
    6174 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6175 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6176 average map value = 0.2964, steps = 144 
    6177 shifted from previous position = 4.76 
    6178 rotated from previous position = 15.7 degrees 
    6179 atoms outside contour = 785, contour level = 0.3 
    6180  
    6181 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6182 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6183 Matrix rotation and translation 
    6184 0.87382541 0.41097136 -0.25986864 -38.84217653 
    6185 -0.48359780 0.79018468 -0.37648551 269.61831477 
    6186 0.05061946 0.45465451 0.88922829 -99.23943565 
    6187 Axis 0.65966598 -0.24643072 -0.71000894 
    6188 Axis point 459.36752043 200.86831609 0.00000000 
    6189 Rotation angle (degrees) 39.04793494 
    6190 Shift along axis -21.60421234 
    6191  
    6192 
    6193 > fitmap #9 inMap #6.1
    6194 
    6195 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6196 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6197 average map value = 0.2963, steps = 44 
    6198 shifted from previous position = 0.0225 
    6199 rotated from previous position = 0.0512 degrees 
    6200 atoms outside contour = 789, contour level = 0.3 
    6201  
    6202 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6203 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6204 Matrix rotation and translation 
    6205 0.87424076 0.41036199 -0.25943428 -38.89353517 
    6206 -0.48284537 0.79064968 -0.37647502 269.31425568 
    6207 0.05063059 0.45439644 0.88935956 -99.20712069 
    6208 Axis 0.66010675 -0.24633884 -0.70963107 
    6209 Axis point 459.64464863 200.86957404 0.00000000 
    6210 Rotation angle (degrees) 39.00190882 
    6211 Shift along axis -21.61599166 
    6212  
    6213 
    6214 > view matrix models
    6215 > #9,0.87164,0.40575,-0.27496,-33.903,-0.48906,0.75718,-0.433,290.54,0.032503,0.5119,0.85843,-101.47
    6216 
    6217 > view matrix models
    6218 > #9,0.87164,0.40575,-0.27496,-33.077,-0.48906,0.75718,-0.433,292.01,0.032503,0.5119,0.85843,-101.67
    6219 
    6220 > fitmap #9 inMap #6.1
    6221 
    6222 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6223 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6224 average map value = 0.2964, steps = 60 
    6225 shifted from previous position = 1.56 
    6226 rotated from previous position = 3.86 degrees 
    6227 atoms outside contour = 787, contour level = 0.3 
    6228  
    6229 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6230 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6231 Matrix rotation and translation 
    6232 0.87403962 0.41046181 -0.25995358 -38.75680993 
    6233 -0.48319192 0.79030271 -0.37675882 269.54277613 
    6234 0.05079691 0.45490959 0.88908770 -99.32466259 
    6235 Axis 0.66020918 -0.24668524 -0.70941542 
    6236 Axis point 459.69243100 200.71990375 0.00000000 
    6237 Rotation angle (degrees) 39.03921901 
    6238 Shift along axis -21.61737932 
    6239  
    6240 
    6241 > fitmap #9 inMap #6.1
    6242 
    6243 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6244 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6245 average map value = 0.2963, steps = 28 
    6246 shifted from previous position = 0.00931 
    6247 rotated from previous position = 0.0285 degrees 
    6248 atoms outside contour = 785, contour level = 0.3 
    6249  
    6250 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6251 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6252 Matrix rotation and translation 
    6253 0.87412613 0.41051109 -0.25958458 -38.87051865 
    6254 -0.48305185 0.79050531 -0.37651331 269.39535569 
    6255 0.05064009 0.45451294 0.88929949 -99.22799153 
    6256 Axis 0.66002318 -0.24638870 -0.70969149 
    6257 Axis point 459.56207150 200.85735684 0.00000000 
    6258 Rotation angle (degrees) 39.01643054 
    6259 Shift along axis -21.61015327 
    6260  
    6261 
    6262 > view matrix models
    6263 > #9,0.86966,0.42026,-0.25899,-40.015,-0.4936,0.73294,-0.46814,304.74,-0.0069178,0.53496,0.84485,-92.664
    6264 
    6265 > view matrix models
    6266 > #9,0.86966,0.42026,-0.25899,-39.554,-0.4936,0.73294,-0.46814,310.59,-0.0069178,0.53496,0.84485,-93.244
    6267 
    6268 > fitmap #9 inMap #6.1
    6269 
    6270 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6271 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6272 average map value = 0.2845, steps = 96 
    6273 shifted from previous position = 4.61 
    6274 rotated from previous position = 3.25 degrees 
    6275 atoms outside contour = 800, contour level = 0.3 
    6276  
    6277 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6278 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6279 Matrix rotation and translation 
    6280 0.85829272 0.45540789 -0.23651061 -45.02496671 
    6281 -0.50982452 0.70427961 -0.49403360 326.71496768 
    6282 -0.05841720 0.54460435 0.83665617 -78.63861079 
    6283 Axis 0.72680740 -0.12462437 -0.67544042 
    6284 Axis point 0.00000000 310.64589441 470.24655168 
    6285 Rotation angle (degrees) 45.60393708 
    6286 Shift along axis -20.32543118 
    6287  
    6288 
    6289 > fitmap #9 inMap #6.1
    6290 
    6291 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6292 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6293 average map value = 0.2845, steps = 80 
    6294 shifted from previous position = 0.00597 
    6295 rotated from previous position = 0.00779 degrees 
    6296 atoms outside contour = 799, contour level = 0.3 
    6297  
    6298 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6299 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6300 Matrix rotation and translation 
    6301 0.85824688 0.45544509 -0.23660530 -45.00503405 
    6302 -0.50991175 0.70427802 -0.49394583 326.72259472 
    6303 -0.05832928 0.54457529 0.83668122 -78.65616062 
    6304 Axis 0.72671450 -0.12475025 -0.67551714 
    6305 Axis point 0.00000000 310.70041242 470.30534774 
    6306 Rotation angle (degrees) 45.60483405 
    6307 Shift along axis -20.33095204 
    6308  
    6309 
    6310 > view matrix models
    6311 > #9,0.85825,0.45545,-0.23661,-45.841,-0.50991,0.70428,-0.49395,328.22,-0.058329,0.54458,0.83668,-78.787
    6312 
    6313 > fitmap #9 inMap #6.1
    6314 
    6315 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6316 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6317 average map value = 0.2845, steps = 72 
    6318 shifted from previous position = 1.72 
    6319 rotated from previous position = 0.00491 degrees 
    6320 atoms outside contour = 800, contour level = 0.3 
    6321  
    6322 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6323 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6324 Matrix rotation and translation 
    6325 0.85828442 0.45540488 -0.23654650 -45.01645152 
    6326 -0.50984779 0.70432874 -0.49393953 326.69166231 
    6327 -0.05833597 0.54454332 0.83670156 -78.65351926 
    6328 Axis 0.72674180 -0.12471370 -0.67549452 
    6329 Axis point 0.00000000 310.68757470 470.29049083 
    6330 Rotation angle (degrees) 45.60047993 
    6331 Shift along axis -20.32824311 
    6332  
    6333 
    6334 > fitmap #9 inMap #6.1
    6335 
    6336 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6337 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6338 average map value = 0.2847, steps = 100 
    6339 shifted from previous position = 0.0197 
    6340 rotated from previous position = 0.0206 degrees 
    6341 atoms outside contour = 804, contour level = 0.3 
    6342  
    6343 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6344 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6345 Matrix rotation and translation 
    6346 0.85843020 0.45512416 -0.23655780 -44.99122021 
    6347 -0.50962906 0.70454365 -0.49385877 326.57190588 
    6348 -0.05810176 0.54450001 0.83674604 -78.70135014 
    6349 Axis 0.72685685 -0.12492021 -0.67533255 
    6350 Axis point 0.00000000 310.75495296 470.20629564 
    6351 Rotation angle (degrees) 45.58423187 
    6352 Shift along axis -20.34802237 
    6353  
    6354 
    6355 > view matrix models
    6356 > #9,0.85843,0.45512,-0.23656,-48.101,-0.50963,0.70454,-0.49386,329.4,-0.058102,0.5445,0.83675,-79.186
    6357 
    6358 > view matrix models
    6359 > #9,0.83391,0.37053,-0.40903,14.082,-0.52037,0.7748,-0.35902,288.61,0.18389,0.51224,0.83893,-143.19
    6360 
    6361 > fitmap #9 inMap #6.1
    6362 
    6363 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6364 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6365 average map value = 0.2835, steps = 72 
    6366 shifted from previous position = 1.57 
    6367 rotated from previous position = 2.46 degrees 
    6368 atoms outside contour = 790, contour level = 0.3 
    6369  
    6370 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6371 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6372 Matrix rotation and translation 
    6373 0.82039865 0.35631052 -0.44720115 27.85382955 
    6374 -0.52879941 0.77032412 -0.35633123 291.20657185 
    6375 0.21752526 0.52881337 0.82038966 -151.96013636 
    6376 Axis 0.62452526 -0.46900635 -0.62450080 
    6377 Axis point 0.00000000 478.08972049 477.11779617 
    6378 Rotation angle (degrees) 45.12550301 
    6379 Shift along axis -24.28308347 
    6380  
    6381 
    6382 > fitmap #9 inMap #6.1
    6383 
    6384 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6385 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6386 average map value = 0.2836, steps = 52 
    6387 shifted from previous position = 0.00347 
    6388 rotated from previous position = 0.0314 degrees 
    6389 atoms outside contour = 791, contour level = 0.3 
    6390  
    6391 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6392 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6393 Matrix rotation and translation 
    6394 0.82030677 0.35655833 -0.44717219 27.81591077 
    6395 -0.52888322 0.77049558 -0.35583578 291.08973449 
    6396 0.21766798 0.52839636 0.82062046 -151.94585108 
    6397 Axis 0.62401756 -0.46918893 -0.62487105 
    6398 Axis point 476.85500616 119.82783789 0.00000000 
    6399 Rotation angle (degrees) 45.11295401 
    6400 Shift along axis -24.27190075 
    6401  
    6402 
    6403 > view matrix models
    6404 > #9,0.82031,0.35656,-0.44717,28.566,-0.52888,0.7705,-0.35584,290.16,0.21767,0.5284,0.82062,-150.64
    6405 
    6406 > ui tool show Matchmaker
    6407 
    6408 > matchmaker #9 to #8
    6409 
    6410 Parameters 
    6411 --- 
    6412 Chain pairing | bb 
    6413 Alignment algorithm | Needleman-Wunsch 
    6414 Similarity matrix | BLOSUM-62 
    6415 SS fraction | 0.3 
    6416 Gap open (HH/SS/other) | 18/18/6 
    6417 Gap extend | 1 
    6418 SS matrix |  |  | H | S | O 
    6419 ---|---|---|--- 
    6420 H | 6 | -9 | -6 
    6421 S |  | 6 | -6 
    6422 O |  |  | 4 
    6423 Iteration cutoff | 2 
    6424  
    6425 Matchmaker Terminator_1-coot-1.pdb, chain D (#8) with copy of
    6426 Terminator_1-coot-1.pdb, chain D (#9), sequence alignment score = 777.7 
    6427 RMSD between 150 pruned atom pairs is 0.000 angstroms; (across all 150 pairs:
    6428 0.000) 
    6429  
    6430 
    6431 > turn z 60 models #9
    6432 
    6433 > fitmap #9 inMap #6.1
    6434 
    6435 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6436 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6437 average map value = 0.1677, steps = 420 
    6438 shifted from previous position = 7.09 
    6439 rotated from previous position = 13.4 degrees 
    6440 atoms outside contour = 982, contour level = 0.3 
    6441  
    6442 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6443 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6444 Matrix rotation and translation 
    6445 0.56963481 0.79976643 -0.18944621 -72.53753216 
    6446 -0.81537486 0.52091432 -0.25261062 405.12765871 
    6447 -0.10334425 0.29836547 0.94884037 -43.45015243 
    6448 Axis 0.32245261 -0.05039021 -0.94524343 
    6449 Axis point 337.37722345 271.14360437 0.00000000 
    6450 Rotation angle (degrees) 58.68822239 
    6451 Shift along axis -2.73341279 
    6452  
    6453 
    6454 > fitmap #9 inMap #6.1
    6455 
    6456 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6457 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6458 average map value = 0.1675, steps = 48 
    6459 shifted from previous position = 0.0273 
    6460 rotated from previous position = 0.102 degrees 
    6461 atoms outside contour = 983, contour level = 0.3 
    6462  
    6463 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6464 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6465 Matrix rotation and translation 
    6466 0.56996062 0.79914813 -0.19106853 -72.12202875 
    6467 -0.81530023 0.52113495 -0.25239636 405.00457503 
    6468 -0.10212959 0.29963419 0.94857205 -44.03862139 
    6469 Axis 0.32310172 -0.05205568 -0.94493147 
    6470 Axis point 337.54338256 270.76747665 0.00000000 
    6471 Rotation angle (degrees) 58.67889616 
    6472 Shift along axis -2.77206004 
    6473  
    6474 
    6475 > view matrix models
    6476 > #9,0.56996,0.79915,-0.19107,-69.217,-0.8153,0.52113,-0.2524,401.38,-0.10213,0.29963,0.94857,-38.621
    6477 
    6478 > fitmap #9 inMap #6.1
    6479 
    6480 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6481 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6482 average map value = 0.2879, steps = 116 
    6483 shifted from previous position = 5.26 
    6484 rotated from previous position = 13.8 degrees 
    6485 atoms outside contour = 812, contour level = 0.3 
    6486  
    6487 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6488 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6489 Matrix rotation and translation 
    6490 0.72621253 0.67216504 -0.14425516 -88.38813154 
    6491 -0.68738927 0.70673980 -0.16737641 305.45158949 
    6492 -0.01055371 0.22071029 0.97528233 -46.95505767 
    6493 Axis 0.27326829 -0.09414485 -0.95731979 
    6494 Axis point 331.02969677 263.09740749 -0.00000000 
    6495 Rotation angle (degrees) 45.24172258 
    6496 Shift along axis -7.95936268 
    6497  
    6498 
    6499 > fitmap #9 inMap #6.1
    6500 
    6501 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6502 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6503 average map value = 0.288, steps = 44 
    6504 shifted from previous position = 0.000721 
    6505 rotated from previous position = 0.00988 degrees 
    6506 atoms outside contour = 811, contour level = 0.3 
    6507  
    6508 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6509 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6510 Matrix rotation and translation 
    6511 0.72626314 0.67209237 -0.14433892 -88.36754610 
    6512 -0.68733561 0.70676135 -0.16750574 305.45707733 
    6513 -0.01056617 0.22086252 0.97524773 -46.98211077 
    6514 Axis 0.27347372 -0.09419753 -0.95725595 
    6515 Axis point 331.07595834 263.08416842 0.00000000 
    6516 Rotation angle (degrees) 45.24020712 
    6517 Shift along axis -7.96559993 
    6518  
    6519 
    6520 > view matrix models
    6521 > #9,0.86877,0.44852,-0.20993,-63.488,-0.49175,0.83142,-0.2587,236.19,0.058505,0.32798,0.94287,-86.567
    6522 
    6523 > fitmap #9 inMap #6.1
    6524 
    6525 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6526 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6527 average map value = 0.2731, steps = 68 
    6528 shifted from previous position = 4.06 
    6529 rotated from previous position = 8.17 degrees 
    6530 atoms outside contour = 831, contour level = 0.3 
    6531  
    6532 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6533 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6534 Matrix rotation and translation 
    6535 0.87209312 0.44144456 -0.21114051 -59.16373811 
    6536 -0.48927201 0.77943411 -0.39127407 277.24652285 
    6537 -0.00815569 0.44453256 0.89572558 -85.64382959 
    6538 Axis 0.65952588 -0.16017310 -0.73441827 
    6539 Axis point 454.03354337 234.90676290 0.00000000 
    6540 Rotation angle (degrees) 39.31933795 
    6541 Shift along axis -20.52905875 
    6542  
    6543 
    6544 > fitmap #9 inMap #6.1
    6545 
    6546 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6547 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6548 average map value = 0.2731, steps = 48 
    6549 shifted from previous position = 0.00637 
    6550 rotated from previous position = 0.0326 degrees 
    6551 atoms outside contour = 829, contour level = 0.3 
    6552  
    6553 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6554 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6555 Matrix rotation and translation 
    6556 0.87214986 0.44159046 -0.21060037 -59.33030744 
    6557 -0.48916339 0.77952748 -0.39122385 277.18299952 
    6558 -0.00859194 0.44422381 0.89587467 -85.48030473 
    6559 Axis 0.65943275 -0.15944861 -0.73465951 
    6560 Axis point 453.97429122 235.14592031 0.00000000 
    6561 Rotation angle (degrees) 39.30580902 
    6562 Shift along axis -20.52187435 
    6563  
    6564 
    6565 > view matrix models
    6566 > #9,0.87215,0.44159,-0.2106,-54.621,-0.48916,0.77953,-0.39122,276.07,-0.0085919,0.44422,0.89587,-88.246
    6567 
    6568 > fitmap #9 inMap #6.1
    6569 
    6570 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6571 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6572 average map value = 0.2823, steps = 68 
    6573 shifted from previous position = 3.09 
    6574 rotated from previous position = 4.42 degrees 
    6575 atoms outside contour = 810, contour level = 0.3 
    6576  
    6577 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6578 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6579 Matrix rotation and translation 
    6580 0.84497009 0.48677063 -0.22153991 -57.34830762 
    6581 -0.53273653 0.72960606 -0.42879692 310.65541680 
    6582 -0.04708889 0.48034297 0.87581579 -82.87911959 
    6583 Axis 0.66019151 -0.12668136 -0.74033709 
    6584 Axis point 456.66000456 241.74807084 0.00000000 
    6585 Rotation angle (degrees) 43.51484831 
    6586 Shift along axis -15.85663127 
    6587  
    6588 
    6589 > fitmap #9 inMap #6.1
    6590 
    6591 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6592 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6593 average map value = 0.2825, steps = 44 
    6594 shifted from previous position = 0.0212 
    6595 rotated from previous position = 0.0185 degrees 
    6596 atoms outside contour = 808, contour level = 0.3 
    6597  
    6598 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6599 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6600 Matrix rotation and translation 
    6601 0.84512991 0.48650280 -0.22151860 -57.31753650 
    6602 -0.53249549 0.72978543 -0.42879110 310.55024436 
    6603 -0.04694703 0.48034183 0.87582403 -82.93391013 
    6604 Axis 0.66036197 -0.12680261 -0.74016428 
    6605 Axis point 456.76755768 241.71346750 0.00000000 
    6606 Rotation angle (degrees) 43.50039119 
    6607 Shift along axis -15.84418556 
    6608  
    6609 
    6610 > view matrix models
    6611 > #9,0.85034,0.45117,-0.27085,-40.459,-0.5241,0.67993,-0.51285,336.93,-0.04722,0.57805,0.81463,-94.036
    6612 
    6613 > fitmap #9 inMap #6.1
    6614 
    6615 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6616 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6617 average map value = 0.2803, steps = 60 
    6618 shifted from previous position = 1.12 
    6619 rotated from previous position = 3.2 degrees 
    6620 atoms outside contour = 804, contour level = 0.3 
    6621  
    6622 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6623 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6624 Matrix rotation and translation 
    6625 0.87127114 0.42097914 -0.25231566 -41.74099644 
    6626 -0.49011974 0.71918506 -0.49249925 314.23889954 
    6627 -0.02587025 0.55276526 0.83293537 -97.69771533 
    6628 Axis 0.74397340 -0.16117390 -0.64848019 
    6629 Axis point 0.00000000 332.06762050 442.70608712 
    6630 Rotation angle (degrees) 44.62694393 
    6631 Shift along axis -18.34626804 
    6632  
    6633 
    6634 > fitmap #9 inMap #6.1
    6635 
    6636 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6637 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6638 average map value = 0.28, steps = 44 
    6639 shifted from previous position = 0.0315 
    6640 rotated from previous position = 0.0259 degrees 
    6641 atoms outside contour = 801, contour level = 0.3 
    6642  
    6643 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6644 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6645 Matrix rotation and translation 
    6646 0.87139966 0.42093037 -0.25195292 -41.82036406 
    6647 -0.48987251 0.71917247 -0.49276354 314.25193048 
    6648 -0.02622154 0.55281878 0.83288886 -97.60506954 
    6649 Axis 0.74423686 -0.16067373 -0.64830197 
    6650 Axis point 0.00000000 331.86525418 442.62301020 
    6651 Rotation angle (degrees) 44.62411282 
    6652 Shift along axis -18.33872631 
    6653  
    6654 
    6655 > undo
    6656 
    6657 > ui tool show "Show Sequence Viewer"
    6658 
    6659 > ui tool show Matchmaker
    6660 
    6661 > matchmaker #9 to #8
    6662 
    6663 Parameters 
    6664 --- 
    6665 Chain pairing | bb 
    6666 Alignment algorithm | Needleman-Wunsch 
    6667 Similarity matrix | BLOSUM-62 
    6668 SS fraction | 0.3 
    6669 Gap open (HH/SS/other) | 18/18/6 
    6670 Gap extend | 1 
    6671 SS matrix |  |  | H | S | O 
    6672 ---|---|---|--- 
    6673 H | 6 | -9 | -6 
    6674 S |  | 6 | -6 
    6675 O |  |  | 4 
    6676 Iteration cutoff | 2 
    6677  
    6678 Matchmaker Terminator_1-coot-1.pdb, chain D (#8) with copy of
    6679 Terminator_1-coot-1.pdb, chain D (#9), sequence alignment score = 777.7 
    6680 RMSD between 150 pruned atom pairs is 0.000 angstroms; (across all 150 pairs:
    6681 0.000) 
    6682  
    6683 
    6684 > turn y 60 models #9
    6685 
    6686 > view matrix models
    6687 > #9,0.50177,0.86496,0.0088708,-105.52,-0.8609,0.50036,-0.092178,391.82,-0.084169,0.038615,0.9957,14.983
    6688 
    6689 > fitmap #9 inMap #6.1
    6690 
    6691 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6692 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6693 average map value = 0.3106, steps = 72 
    6694 shifted from previous position = 1.92 
    6695 rotated from previous position = 2 degrees 
    6696 atoms outside contour = 798, contour level = 0.3 
    6697  
    6698 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6699 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6700 Matrix rotation and translation 
    6701 0.48179358 0.87611114 -0.01744252 -98.17094522 
    6702 -0.87334741 0.47845502 -0.09135158 400.83369178 
    6703 -0.07168867 0.05924599 0.99566595 4.79931456 
    6704 Axis 0.08572430 0.03087841 -0.99584028 
    6705 Axis point 289.77010375 283.36766147 0.00000000 
    6706 Rotation angle (degrees) 61.44792719 
    6707 Shift along axis -0.81788015 
    6708  
    6709 
    6710 > fitmap #9 inMap #6.1
    6711 
    6712 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6713 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6714 average map value = 0.3106, steps = 40 
    6715 shifted from previous position = 0.0165 
    6716 rotated from previous position = 0.0255 degrees 
    6717 atoms outside contour = 801, contour level = 0.3 
    6718  
    6719 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6720 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6721 Matrix rotation and translation 
    6722 0.48167561 0.87616762 -0.01785848 -98.05488327 
    6723 -0.87342180 0.47830231 -0.09144000 400.91911608 
    6724 -0.07157502 0.05964241 0.99565046 4.67982080 
    6725 Axis 0.08599267 0.03057423 -0.99582653 
    6726 Axis point 289.83788405 283.29415936 0.00000000 
    6727 Rotation angle (degrees) 61.45725999 
    6728 Shift along axis -0.83449797 
    6729  
    6730 
    6731 > view matrix models
    6732 > #9,0.50873,0.85929,-0.05312,-94.891,-0.85475,0.49674,-0.15051,402.85,-0.10295,0.12198,0.98718,0.65318
    6733 
    6734 > view matrix models
    6735 > #9,0.42842,0.90166,-0.058939,-83.802,-0.89718,0.41672,-0.14635,435.92,-0.10739,0.11558,0.98748,4.0277
    6736 
    6737 > view matrix models
    6738 > #9,0.42842,0.90166,-0.058939,-73.62,-0.89718,0.41672,-0.14635,429.54,-0.10739,0.11558,0.98748,4.0274
    6739 
    6740 > view matrix models
    6741 > #9,0.41581,0.90155,-0.11966,-57.683,-0.89387,0.38087,-0.23651,455.28,-0.16765,0.2053,0.96423,4.8988
    6742 
    6743 > view matrix models
    6744 > #9,0.41581,0.90155,-0.11966,-59.401,-0.89387,0.38087,-0.23651,456.64,-0.16765,0.2053,0.96423,1.8008
    6745 
    6746 > select subtract #9
    6747 
    6748 Nothing selected 
    6749 
    6750 > select add #8
    6751 
    6752 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    6753 
    6754 > rainbow sel
    6755 
    6756 > select subtract #8
    6757 
    6758 Nothing selected 
    6759 
    6760 > select add #9
    6761 
    6762 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    6763 
    6764 > rainbow sel
    6765 
    6766 > select subtract #9
    6767 
    6768 Nothing selected 
    6769 
    6770 > select add #9
    6771 
    6772 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    6773 
    6774 > view matrix models
    6775 > #9,0.53418,0.84272,-0.066862,-90.76,-0.8435,0.52608,-0.10834,381.18,-0.056128,0.11427,0.99186,-14.747
    6776 
    6777 > view matrix models
    6778 > #9,0.32005,0.92062,-0.22367,-14.877,-0.94608,0.29809,-0.12682,469.89,-0.05008,0.2522,0.96638,-44.542
    6779 
    6780 > fitmap #9 inMap #6.1
    6781 
    6782 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6783 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6784 average map value = 0.2797, steps = 124 
    6785 shifted from previous position = 2.18 
    6786 rotated from previous position = 9.88 degrees 
    6787 atoms outside contour = 793, contour level = 0.3 
    6788  
    6789 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6790 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6791 Matrix rotation and translation 
    6792 0.47689231 0.85509059 -0.20345473 -45.24040802 
    6793 -0.87842241 0.45554844 -0.14439429 415.01249606 
    6794 -0.03078671 0.24757971 0.96837828 -50.00828911 
    6795 Axis 0.21951405 -0.09669788 -0.97080539 
    6796 Axis point 318.83950491 247.57095156 0.00000000 
    6797 Rotation angle (degrees) 63.23003935 
    6798 Shift along axis -1.51341926 
    6799  
    6800 
    6801 > view matrix models
    6802 > #9,0.47689,0.85509,-0.20345,-46.061,-0.87842,0.45555,-0.14439,418.32,-0.030787,0.24758,0.96838,-49.561
    6803 
    6804 > view matrix models
    6805 > #9,0.41274,0.87803,-0.24229,-24.868,-0.9038,0.36178,-0.22859,465.23,-0.11305,0.31333,0.94289,-35.993
    6806 
    6807 > fitmap #9 inMap #6.1
    6808 
    6809 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6810 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6811 average map value = 0.2591, steps = 84 
    6812 shifted from previous position = 2.64 
    6813 rotated from previous position = 5.52 degrees 
    6814 atoms outside contour = 818, contour level = 0.3 
    6815  
    6816 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6817 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6818 Matrix rotation and translation 
    6819 0.47844475 0.85965167 -0.17913585 -49.36966714 
    6820 -0.87098137 0.43862204 -0.22136436 436.80286910 
    6821 -0.11172331 0.26193460 0.95859700 -28.03649982 
    6822 Axis 0.26878108 -0.03749070 -0.96247139 
    6823 Axis point 334.21888808 259.37013068 0.00000000 
    6824 Rotation angle (degrees) 64.03437118 
    6825 Shift along axis -2.66134735 
    6826  
    6827 
    6828 > view matrix models
    6829 > #9,0.44748,0.88587,-0.12249,-57.917,-0.88417,0.4588,0.088054,373.7,0.1342,0.068899,0.98856,-60.158
    6830 
    6831 > fitmap #9 inMap #6.1
    6832 
    6833 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6834 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6835 average map value = 0.2831, steps = 80 
    6836 shifted from previous position = 2.89 
    6837 rotated from previous position = 6.46 degrees 
    6838 atoms outside contour = 779, contour level = 0.3 
    6839  
    6840 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6841 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6842 Matrix rotation and translation 
    6843 0.44217438 0.89645661 -0.02911000 -79.39401058 
    6844 -0.88458880 0.44122620 0.15106989 363.57936861 
    6845 0.14827169 -0.04104885 0.98809439 -39.07953317 
    6846 Axis -0.10672446 -0.09853783 -0.98939385 
    6847 Axis point 256.40015975 246.76411798 0.00000000 
    6848 Rotation angle (degrees) 64.16713327 
    6849 Shift along axis 11.31200995 
    6850  
    6851 
    6852 > fitmap #9 inMap #6.1
    6853 
    6854 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6855 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6856 average map value = 0.283, steps = 44 
    6857 shifted from previous position = 0.0116 
    6858 rotated from previous position = 0.0105 degrees 
    6859 atoms outside contour = 778, contour level = 0.3 
    6860  
    6861 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6862 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6863 Matrix rotation and translation 
    6864 0.44203170 0.89652658 -0.02912189 -79.37065916 
    6865 -0.88464409 0.44108329 0.15116343 363.59938187 
    6866 0.14836721 -0.04105653 0.98807974 -39.09937354 
    6867 Axis -0.10677206 -0.09858954 -0.98938356 
    6868 Axis point 256.37903803 246.74589980 0.00000000 
    6869 Rotation angle (degrees) 64.17668900 
    6870 Shift along axis 11.31175116 
    6871  
    6872 
    6873 > view matrix models
    6874 > #9,0.44203,0.89653,-0.029122,-81.646,-0.88464,0.44108,0.15116,363.69,0.14837,-0.041057,0.98808,-39.238
    6875 
    6876 > fitmap #9 inMap #6.1
    6877 
    6878 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6879 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6880 average map value = 0.2831, steps = 60 
    6881 shifted from previous position = 2.27 
    6882 rotated from previous position = 0.0065 degrees 
    6883 atoms outside contour = 777, contour level = 0.3 
    6884  
    6885 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6886 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6887 Matrix rotation and translation 
    6888 0.44207861 0.89650150 -0.02918172 -79.37548068 
    6889 -0.88460493 0.44113523 0.15124106 363.56340350 
    6890 0.14846091 -0.04104615 0.98806609 -39.10951224 
    6891 Axis -0.10681186 -0.09867708 -0.98937054 
    6892 Axis point 256.36791191 246.73913536 0.00000000 
    6893 Rotation angle (degrees) 64.17397749 
    6894 Shift along axis 11.29666659 
    6895  
    6896 
    6897 > fitmap #9 inMap #6.1
    6898 
    6899 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6900 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6901 average map value = 0.2831, steps = 44 
    6902 shifted from previous position = 0.0304 
    6903 rotated from previous position = 0.0255 degrees 
    6904 atoms outside contour = 779, contour level = 0.3 
    6905  
    6906 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6907 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6908 Matrix rotation and translation 
    6909 0.44226769 0.89640798 -0.02918996 -79.38623444 
    6910 -0.88457018 0.44133930 0.15084843 363.59468286 
    6911 0.14810441 -0.04089482 0.98812587 -39.08091895 
    6912 Axis -0.10652268 -0.09849562 -0.98941979 
    6913 Axis point 256.44745224 246.77418600 0.00000000 
    6914 Rotation angle (degrees) 64.15956164 
    6915 Shift along axis 11.31138380 
    6916  
    6917 
    6918 > hide #9 models
    6919 
    6920 > hide #10 models
    6921 
    6922 > select subtract #9
    6923 
    6924 Nothing selected 
    6925 
    6926 > show #9 models
    6927 
    6928 > hide #9 models
    6929 
    6930 > show #10 models
    6931 
    6932 > hide #10 models
    6933 
    6934 > show #9 models
    6935 
    6936 > select add #9
    6937 
    6938 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    6939 
    6940 > view matrix models
    6941 > #9,0.44227,0.89641,-0.02919,-80.48,-0.88457,0.44134,0.15085,364.93,0.1481,-0.040895,0.98813,-39.046
    6942 
    6943 > view matrix models
    6944 > #9,0.44227,0.89641,-0.02919,-82.04,-0.88457,0.44134,0.15085,364.41,0.1481,-0.040895,0.98813,-39.367
    6945 
    6946 > view matrix models
    6947 > #9,0.39645,0.87508,-0.27761,-13.524,-0.90563,0.42236,0.03805,397.83,0.15055,0.23633,0.95994,-101.02
    6948 
    6949 > fitmap #9 inMap #6.1
    6950 
    6951 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6952 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6953 average map value = 0.2687, steps = 76 
    6954 shifted from previous position = 2.36 
    6955 rotated from previous position = 4.99 degrees 
    6956 atoms outside contour = 810, contour level = 0.3 
    6957  
    6958 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6959 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6960 Matrix rotation and translation 
    6961 0.44400524 0.85759882 -0.25958359 -26.22735910 
    6962 -0.87290833 0.47938157 0.09068830 362.25387651 
    6963 0.20221377 0.18632659 0.96145308 -102.10541343 
    6964 Axis 0.05332150 -0.25746723 -0.96481472 
    6965 Axis point 286.83762301 216.78276377 0.00000000 
    6966 Rotation angle (degrees) 63.74161493 
    6967 Shift along axis 3.84582079 
    6968  
    6969 
    6970 > fitmap #9 inMap #6.1
    6971 
    6972 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    6973 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    6974 average map value = 0.2686, steps = 48 
    6975 shifted from previous position = 0.0217 
    6976 rotated from previous position = 0.0178 degrees 
    6977 atoms outside contour = 807, contour level = 0.3 
    6978  
    6979 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    6980 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    6981 Matrix rotation and translation 
    6982 0.44408888 0.85747345 -0.25985452 -26.14416945 
    6983 -0.87283521 0.47951966 0.09066214 362.20926292 
    6984 0.20234573 0.18654812 0.96138236 -102.18584723 
    6985 Axis 0.05346181 -0.25770256 -0.96474412 
    6986 Axis point 286.88294494 216.71931271 0.00000000 
    6987 Rotation angle (degrees) 63.73679118 
    6988 Shift along axis 3.84322630 
    6989  
    6990 
    6991 > view matrix models
    6992 > #9,0.44409,0.85747,-0.25985,-28.853,-0.87284,0.47952,0.090662,366.38,0.20235,0.18655,0.96138,-102.49
    6993 
    6994 > view matrix models
    6995 > #9,0.32139,0.82796,-0.45957,54.506,-0.82471,0.48323,0.29384,310.5,0.46536,0.28458,0.83813,-178.79
    6996 
    6997 > fitmap #9 inMap #6.1
    6998 
    6999 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    7000 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7001 average map value = 0.2713, steps = 92 
    7002 shifted from previous position = 1.48 
    7003 rotated from previous position = 6.04 degrees 
    7004 atoms outside contour = 817, contour level = 0.3 
    7005  
    7006 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    7007 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7008 Matrix rotation and translation 
    7009 0.37396301 0.77217877 -0.51370384 64.99282454 
    7010 -0.81671843 0.53663982 0.21210547 312.38422595 
    7011 0.43945727 0.34023179 0.83133608 -182.47613265 
    7012 Axis 0.06898562 -0.51319989 -0.85549217 
    7013 Axis point 294.79951706 154.86251144 0.00000000 
    7014 Rotation angle (degrees) 68.22458195 
    7015 Shift along axis 0.27492383 
    7016  
    7017 
    7018 > fitmap #9 inMap #6.1
    7019 
    7020 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    7021 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7022 average map value = 0.2713, steps = 64 
    7023 shifted from previous position = 0.00124 
    7024 rotated from previous position = 0.00549 degrees 
    7025 atoms outside contour = 817, contour level = 0.3 
    7026  
    7027 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    7028 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7029 Matrix rotation and translation 
    7030 0.37389577 0.77222209 -0.51368766 64.99765599 
    7031 -0.81672682 0.53659394 0.21218923 312.38183038 
    7032 0.43949889 0.34020583 0.83132470 -182.47859108 
    7033 Axis 0.06892470 -0.51319985 -0.85549711 
    7034 Axis point 294.78556130 154.86195461 0.00000000 
    7035 Rotation angle (degrees) 68.22842261 
    7036 Shift along axis 0.27554440 
    7037  
    7038 
    7039 > view matrix models
    7040 > #9,0.3739,0.77222,-0.51369,67.447,-0.81673,0.53659,0.21219,313.04,0.4395,0.34021,0.83132,-181.98
    7041 
    7042 > view matrix models
    7043 > #9,0.3739,0.77222,-0.51369,67.222,-0.81673,0.53659,0.21219,312.38,0.4395,0.34021,0.83132,-182.06
    7044 
    7045 > view matrix models
    7046 > #9,0.40662,0.79224,-0.45499,40.98,-0.81646,0.53859,0.20813,312.63,0.40994,0.28685,0.86583,-167.46
    7047 
    7048 > fitmap #9 inMap #6.1
    7049 
    7050 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    7051 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7052 average map value = 0.2714, steps = 76 
    7053 shifted from previous position = 2.08 
    7054 rotated from previous position = 4.06 degrees 
    7055 atoms outside contour = 817, contour level = 0.3 
    7056  
    7057 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    7058 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7059 Matrix rotation and translation 
    7060 0.37362644 0.77195161 -0.51428982 65.28256538 
    7061 -0.81672132 0.53662374 0.21213502 312.38334595 
    7062 0.43973809 0.34077220 0.83096615 -182.62006849 
    7063 Axis 0.06924992 -0.51358682 -0.85523858 
    7064 Axis point 294.87169750 154.71937115 0.00000000 
    7065 Rotation angle (degrees) 68.24687067 
    7066 Shift along axis 0.26857181 
    7067  
    7068 
    7069 > fitmap #9 inMap #6.1
    7070 
    7071 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    7072 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7073 average map value = 0.2714, steps = 64 
    7074 shifted from previous position = 0.0223 
    7075 rotated from previous position = 0.0447 degrees 
    7076 atoms outside contour = 817, contour level = 0.3 
    7077  
    7078 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    7079 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7080 Matrix rotation and translation 
    7081 0.37391451 0.77225081 -0.51363085 64.97443527 
    7082 -0.81673165 0.53658433 0.21219494 312.38325809 
    7083 0.43947397 0.34015579 0.83135834 -182.46718198 
    7084 Axis 0.06889532 -0.51316056 -0.85552304 
    7085 Axis point 294.77883212 154.87391266 0.00000000 
    7086 Rotation angle (degrees) 68.22710297 
    7087 Shift along axis 0.27854481 
    7088  
    7089 
    7090 > view matrix models
    7091 > #9,0.42561,0.78486,-0.45038,34.007,-0.77603,0.57258,0.26445,281.25,0.46544,0.23695,0.85277,-169.63
    7092 
    7093 > view matrix models
    7094 > #9,0.42561,0.78486,-0.45038,33.498,-0.77603,0.57258,0.26445,280.12,0.46544,0.23695,0.85277,-161.33
    7095 
    7096 > view matrix models
    7097 > #9,0.36084,0.91143,-0.19772,-28.557,-0.79113,0.41141,0.45262,285.49,0.49387,-0.0068984,0.86951,-114.5
    7098 
    7099 > view matrix models
    7100 > #9,0.68765,0.39349,-0.61017,82.377,-0.38178,0.9108,0.15711,104.24,0.61756,0.12492,0.77654,-163.94
    7101 
    7102 > view matrix models
    7103 > #9,0.83018,0.39946,-0.38889,-5.4977,-0.47691,0.87012,-0.12429,198.56,0.28873,0.28865,0.91286,-133.74
    7104 
    7105 > view matrix models
    7106 > #9,0.51091,0.85828,-0.048254,-90.033,-0.83419,0.50856,0.21329,322.91,0.20761,-0.068721,0.9758,-36.626
    7107 
    7108 > view matrix models
    7109 > #9,0.47328,0.8806,-0.023355,-89.306,-0.85839,0.46698,0.21237,340.21,0.19792,-0.080462,0.97691,-31.175
    7110 
    7111 > fitmap #9 inMap #6.1
    7112 
    7113 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    7114 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7115 average map value = 1.092, steps = 128 
    7116 shifted from previous position = 4.27 
    7117 rotated from previous position = 15.2 degrees 
    7118 atoms outside contour = 203, contour level = 0.3 
    7119  
    7120 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    7121 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7122 Matrix rotation and translation 
    7123 0.50125546 0.86529923 0.00048124 -99.82211090 
    7124 -0.86427135 0.50068698 -0.04845202 382.79646238 
    7125 -0.04216645 0.02387091 0.99882541 5.30129247 
    7126 Axis 0.04176636 0.02462896 -0.99882380 
    7127 Axis point 282.27238890 278.05688394 0.00000000 
    7128 Rotation angle (degrees) 59.97459682 
    7129 Shift along axis -0.03638333 
    7130  
    7131 
    7132 > fitmap #9 inMap #6.1
    7133 
    7134 Fit molecule copy of Terminator_1-coot-1.pdb (#9) to map
    7135 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7136 average map value = 1.092, steps = 28 
    7137 shifted from previous position = 0.0192 
    7138 rotated from previous position = 0.00928 degrees 
    7139 atoms outside contour = 201, contour level = 0.3 
    7140  
    7141 Position of copy of Terminator_1-coot-1.pdb (#9) relative to
    7142 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7143 Matrix rotation and translation 
    7144 0.50131252 0.86526619 0.00045419 -99.82249484 
    7145 -0.86424512 0.50074629 -0.04830675 382.76366393 
    7146 -0.04202563 0.02382425 0.99883246 5.27650862 
    7147 Axis 0.04165724 0.02453303 -0.99883072 
    7148 Axis point 282.26801228 278.04672129 0.00000000 
    7149 Rotation angle (degrees) 59.97051301 
    7150 Shift along axis -0.03831592 
    7151  
    7152 
    7153 > select subtract #9
    7154 
    7155 Nothing selected 
    7156 
    7157 > color #8 #fade4aff
    7158 
    7159 > show #10 models
    7160 
    7161 > rainbow #8-13
    7162 
    7163 > undo
    7164 
    7165 > select add #10
    7166 
    7167 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    7168 
    7169 > rainbow sel
    7170 
    7171 > ui tool show Matchmaker
    7172 
    7173 > matchmaker #10 to #9
    7174 
    7175 Parameters 
    7176 --- 
    7177 Chain pairing | bb 
    7178 Alignment algorithm | Needleman-Wunsch 
    7179 Similarity matrix | BLOSUM-62 
    7180 SS fraction | 0.3 
    7181 Gap open (HH/SS/other) | 18/18/6 
    7182 Gap extend | 1 
    7183 SS matrix |  |  | H | S | O 
    7184 ---|---|---|--- 
    7185 H | 6 | -9 | -6 
    7186 S |  | 6 | -6 
    7187 O |  |  | 4 
    7188 Iteration cutoff | 2 
    7189  
    7190 Matchmaker copy of Terminator_1-coot-1.pdb, chain D (#9) with copy of
    7191 Terminator_1-coot-1.pdb, chain D (#10), sequence alignment score = 777.7 
    7192 RMSD between 150 pruned atom pairs is 0.000 angstroms; (across all 150 pairs:
    7193 0.000) 
    7194  
    7195 
    7196 > view #10 clip false
    7197 
    7198 > turn y 60 models #10
    7199 
    7200 > undo
    7201 
    7202 > turn z 60 models #10
    7203 
    7204 > fitmap #10 inMap #6.1
    7205 
    7206 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    7207 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7208 average map value = 0.2823, steps = 64 
    7209 shifted from previous position = 1.27 
    7210 rotated from previous position = 1.1 degrees 
    7211 atoms outside contour = 793, contour level = 0.3 
    7212  
    7213 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    7214 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7215 Matrix rotation and translation 
    7216 -0.49745039 0.86453558 -0.07156334 186.76840147 
    7217 -0.85557576 -0.50257131 -0.12414576 663.07557047 
    7218 -0.14329411 -0.00052850 0.98968000 41.81615979 
    7219 Axis 0.07161905 0.04155803 -0.99656592 
    7220 Axis point 285.64439149 278.66624920 0.00000000 
    7221 Rotation angle (degrees) 120.34269498 
    7222 Shift along axis -0.74026892 
    7223  
    7224 
    7225 > view matrix models
    7226 > #10,-0.49745,0.86454,-0.071563,186.57,-0.85558,-0.50257,-0.12415,666.53,-0.14329,-0.0005285,0.98968,41.992
    7227 
    7228 > fitmap #10 inMap #6.1
    7229 
    7230 Fit molecule copy of Terminator_1-coot-1.pdb (#10) to map
    7231 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 1216 atoms 
    7232 average map value = 1.087, steps = 72 
    7233 shifted from previous position = 1.82 
    7234 rotated from previous position = 6.15 degrees 
    7235 atoms outside contour = 204, contour level = 0.3 
    7236  
    7237 Position of copy of Terminator_1-coot-1.pdb (#10) relative to
    7238 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7239 Matrix rotation and translation 
    7240 -0.49916936 0.86650072 0.00253528 171.19651970 
    7241 -0.86560108 -0.49851327 -0.04710910 654.27593302 
    7242 -0.03955620 -0.02570997 0.99888652 18.03256359 
    7243 Axis 0.01234985 0.02429179 -0.99962863 
    7244 Axis point 274.80478327 277.87878760 0.00000000 
    7245 Rotation angle (degrees) 119.96018387 
    7246 Shift along axis -0.01808304 
    7247  
    7248 
    7249 > select add #8
    7250 
    7251 2432 atoms, 2484 bonds, 300 residues, 2 models selected 
    7252 
    7253 > select add #9
    7254 
    7255 3648 atoms, 3726 bonds, 450 residues, 3 models selected 
    7256 
    7257 > select add #11
    7258 
    7259 4864 atoms, 4968 bonds, 600 residues, 4 models selected 
    7260 
    7261 > select add #12
    7262 
    7263 6080 atoms, 6210 bonds, 750 residues, 5 models selected 
    7264 
    7265 > select add #13
    7266 
    7267 7296 atoms, 7452 bonds, 900 residues, 6 models selected 
    7268 
    7269 > color sel yellow
    7270 
    7271 > select subtract #8
    7272 
    7273 6080 atoms, 6210 bonds, 750 residues, 5 models selected 
    7274 
    7275 > select subtract #9
    7276 
    7277 4864 atoms, 4968 bonds, 600 residues, 4 models selected 
    7278 
    7279 > select subtract #10
    7280 
    7281 3648 atoms, 3726 bonds, 450 residues, 3 models selected 
    7282 
    7283 > select subtract #12
    7284 
    7285 2432 atoms, 2484 bonds, 300 residues, 2 models selected 
    7286 
    7287 > select subtract #13
    7288 
    7289 1216 atoms, 1242 bonds, 150 residues, 1 model selected 
    7290 
    7291 > select subtract #11
    7292 
    7293 Nothing selected 
    7294 
    7295 > combine #8-13
    7296 
    7297 Remapping chain ID 'D' in copy of Terminator_1-coot-1.pdb #9 to 'E' 
    7298 Remapping chain ID 'D' in copy of Terminator_1-coot-1.pdb #10 to 'F' 
    7299 Remapping chain ID 'D' in copy of Terminator_1-coot-1.pdb #11 to 'G' 
    7300 Remapping chain ID 'D' in copy of Terminator_1-coot-1.pdb #12 to 'H' 
    7301 Remapping chain ID 'D' in copy of Terminator_1-coot-1.pdb #13 to 'I' 
    7302 
    7303 > select add #14
    7304 
    7305 7296 atoms, 7452 bonds, 900 residues, 1 model selected 
    7306 
    7307 > show #!6.1 models
    7308 
    7309 > hide #!6.1 models
    7310 
    7311 > save "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7312 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7313 > Models/Terminator_1-coot-1_6mer.pdb" models #14 selectedOnly true relModel
    7314 > #2
    7315 
    7316 > select subtract #14
    7317 
    7318 Nothing selected 
    7319 
    7320 > hide #14 models
    7321 
    7322 > hide #13 models
    7323 
    7324 > hide #12 models
    7325 
    7326 > hide #11 models
    7327 
    7328 > hide #10 models
    7329 
    7330 > show #10 models
    7331 
    7332 > hide #9 models
    7333 
    7334 > show #9 models
    7335 
    7336 > hide #8 models
    7337 
    7338 > hide #10 models
    7339 
    7340 > hide #9 models
    7341 
    7342 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7343 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7344 > Models/Terminator_1-coot-1_6mer.pdb"
    7345 
    7346 Chain information for Terminator_1-coot-1_6mer.pdb #16 
    7347 --- 
    7348 Chain | Description 
    7349 D E F G H I | No description available 
    7350  
    7351 
    7352 > hide #16 atoms
    7353 
    7354 > show #16 cartoons
    7355 
    7356 > rainbow #16
    7357 
    7358 > fitmap #14 inMap #6.1
    7359 
    7360 Fit molecule combination (#14) to map P2_J357_007_volume_map_sharp_C6.mrc 0
    7361 (#6.1) using 7296 atoms 
    7362 average map value = 1.093, steps = 28 
    7363 shifted from previous position = 0.00645 
    7364 rotated from previous position = 0.00684 degrees 
    7365 atoms outside contour = 1224, contour level = 0.3 
    7366  
    7367 Position of combination (#14) relative to P2_J357_007_volume_map_sharp_C6.mrc
    7368 0 (#6.1) coordinates: 
    7369 Matrix rotation and translation 
    7370 0.99999860 -0.00151691 0.00070204 0.08460115 
    7371 0.00155049 0.99871799 -0.05059619 12.76073646 
    7372 -0.00062439 0.05059721 0.99871895 -13.22915984 
    7373 Axis 0.99945512 0.01310065 0.03029577 
    7374 Axis point 0.00000000 267.58590245 245.46594319 
    7375 Rotation angle (degrees) 2.90179805 
    7376 Shift along axis -0.14905856 
    7377  
    7378 
    7379 > hide #!6 models
    7380 
    7381 > show #!6 models
    7382 
    7383 > hide #16 models
    7384 
    7385 > show #16 models
    7386 
    7387 > close #16
    7388 
    7389 > close #15
    7390 
    7391 > show #14 models
    7392 
    7393 > show #!17 models
    7394 
    7395 > close #17
    7396 
    7397 > show #!6.1 models
    7398 
    7399 > ui tool show "Color Zone"
    7400 
    7401 > color zone #6.1 near #14 distance 6.37
    7402 
    7403 > volume splitbyzone #6.1
    7404 
    7405 Opened P2_J357_007_volume_map_sharp_C6.mrc 0 0 as #15.1, grid size
    7406 512,505,512, pixel 1.06, shown at level 0.3, step 1, values float32 
    7407 Opened P2_J357_007_volume_map_sharp_C6.mrc 0 1 as #15.2, grid size
    7408 512,505,512, pixel 1.06, shown at level 0.3, step 1, values float32 
    7409 
    7410 > surface dust #15.1 size 10.6
    7411 
    7412 > surface dust #15.2 size 10.6
    7413 
    7414 > save "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7415 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitting_2.cxs"
    7416 > includeMaps true
    7417 
    7418 > hide #14 models
    7419 
    7420 > close #8-14
    7421 
    7422 > undo
    7423 
    7424 > show #!7 models
    7425 
    7426 > hide #!7 models
    7427 
    7428 > show #!7 models
    7429 
    7430 > fitmap #7 inMap #6.1
    7431 
    7432 Fit molecule Stopper_45_1.pdb (#7) to map P2_J357_007_volume_map_sharp_C6.mrc
    7433 0 (#6.1) using 916 atoms 
    7434 average map value = 0.2456, steps = 176 
    7435 shifted from previous position = 0.849 
    7436 rotated from previous position = 3.28 degrees 
    7437 atoms outside contour = 622, contour level = 0.3 
    7438  
    7439 Position of Stopper_45_1.pdb (#7) relative to
    7440 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7441 Matrix rotation and translation 
    7442 -0.18153211 -0.96798647 -0.17334443 568.51505895 
    7443 0.95324795 -0.21651827 0.21080366 28.56985457 
    7444 -0.24158732 -0.12697259 0.96203614 96.91361406 
    7445 Axis -0.17305048 0.03496239 0.98429221 
    7446 Axis point 281.11979904 243.82400751 0.00000000 
    7447 Rotation angle (degrees) 102.59200851 
    7448 Shift along axis -1.99161634 
    7449  
    7450 
    7451 > select add #7
    7452 
    7453 916 atoms, 939 bonds, 119 residues, 1 model selected 
    7454 
    7455 > view matrix models
    7456 > #7,-0.18153,-0.96799,-0.17334,567.32,0.95325,-0.21652,0.2108,30.018,-0.24159,-0.12697,0.96204,96.992
    7457 
    7458 > view matrix models
    7459 > #7,-0.18153,-0.96799,-0.17334,568,0.95325,-0.21652,0.2108,28.339,-0.24159,-0.12697,0.96204,97.863
    7460 
    7461 > view matrix models
    7462 > #7,0.9961,-0.042696,-0.077202,23.457,-0.032435,0.63657,-0.77054,231.04,0.082043,0.77004,0.6327,-151.73
    7463 
    7464 > view matrix models
    7465 > #7,0.84688,0.49972,0.18187,-120.2,-0.32152,0.75356,-0.57339,240.07,-0.42358,0.42711,0.79884,32.539
    7466 
    7467 > view matrix models
    7468 > #7,0.30881,0.63367,0.7093,-110.09,0.55995,0.48169,-0.67412,104.65,-0.76883,0.60534,-0.20607,248.19
    7469 
    7470 > view matrix models
    7471 > #7,-0.70691,-0.014394,0.70716,307.93,0.46011,0.74998,0.47521,-136.5,-0.5372,0.6613,-0.52355,230.94
    7472 
    7473 > view matrix models
    7474 > #7,-0.88698,-0.19435,0.41892,448.17,0.24853,0.56368,0.78772,-90.667,-0.38923,0.80281,-0.45167,145.83
    7475 
    7476 > view matrix models
    7477 > #7,-0.88698,-0.19435,0.41892,451.78,0.24853,0.56368,0.78772,-96.606,-0.38923,0.80281,-0.45167,145.38
    7478 
    7479 > view matrix models
    7480 > #7,0.44325,0.18292,0.87753,-56.06,0.89283,-0.17727,-0.41403,135.77,0.079824,0.96702,-0.24189,-49.833
    7481 
    7482 > view matrix models
    7483 > #7,0.57841,0.16192,0.79952,-71.197,0.80889,-0.24063,-0.53646,193.92,0.10553,0.95702,-0.27015,-48.88
    7484 
    7485 > fitmap #7 inMap #6.1
    7486 
    7487 Fit molecule Stopper_45_1.pdb (#7) to map P2_J357_007_volume_map_sharp_C6.mrc
    7488 0 (#6.1) using 916 atoms 
    7489 average map value = 0.173, steps = 104 
    7490 shifted from previous position = 4.11 
    7491 rotated from previous position = 10.7 degrees 
    7492 atoms outside contour = 708, contour level = 0.3 
    7493  
    7494 Position of Stopper_45_1.pdb (#7) relative to
    7495 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7496 Matrix rotation and translation 
    7497 0.58503650 -0.01082136 0.81093477 -33.52940855 
    7498 0.79699909 -0.17736908 -0.57734968 192.27871230 
    7499 0.15008246 0.98408491 -0.09514277 -96.85513582 
    7500 Axis 0.83137664 0.35186691 0.43011924 
    7501 Axis point 0.00000000 143.60287392 41.33724165 
    7502 Rotation angle (degrees) 110.10475777 
    7503 Shift along axis -1.87830688 
    7504  
    7505 
    7506 > view matrix models
    7507 > #7,-0.36273,-0.083538,0.92814,202.24,0.9291,0.044654,0.36712,-60.007,-0.072114,0.9955,0.061418,-71.059
    7508 
    7509 > view matrix models
    7510 > #7,-0.93746,-0.34483,-0.047465,580.83,-0.075488,0.068292,0.99481,77.517,-0.3398,0.93618,-0.090052,37.203
    7511 
    7512 > view matrix models
    7513 > #7,-0.84739,-0.45408,-0.27521,625.07,-0.2483,-0.11926,0.96131,173.79,-0.46934,0.88294,-0.011689,69.522
    7514 
    7515 > view matrix models
    7516 > #7,-0.74584,-0.53592,-0.39563,640.98,-0.26596,-0.30495,0.91448,232.97,-0.61073,0.78727,0.084911,112.32
    7517 
    7518 > view matrix models
    7519 > #7,-0.67324,-0.64293,-0.36522,644.4,-0.29766,-0.21649,0.9298,216.05,-0.67686,0.73469,-0.045624,164.7
    7520 
    7521 > fitmap #7 inMap #6.1
    7522 
    7523 Fit molecule Stopper_45_1.pdb (#7) to map P2_J357_007_volume_map_sharp_C6.mrc
    7524 0 (#6.1) using 916 atoms 
    7525 average map value = 0.2128, steps = 84 
    7526 shifted from previous position = 2.73 
    7527 rotated from previous position = 12.4 degrees 
    7528 atoms outside contour = 650, contour level = 0.3 
    7529  
    7530 Position of Stopper_45_1.pdb (#7) relative to
    7531 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7532 Matrix rotation and translation 
    7533 -0.77223501 -0.53172675 -0.34773518 638.14417915 
    7534 -0.36744148 -0.07272263 0.92719911 200.94715164 
    7535 -0.51830478 0.84378794 -0.13921950 115.42842215 
    7536 Axis -0.33220979 0.67934422 0.65431498 
    7537 Axis point 373.55781750 -0.00000000 -68.65688695 
    7538 Rotation angle (degrees) 172.78806472 
    7539 Shift along axis 0.04108536 
    7540  
    7541 
    7542 > fitmap #7 inMap #6.1
    7543 
    7544 Fit molecule Stopper_45_1.pdb (#7) to map P2_J357_007_volume_map_sharp_C6.mrc
    7545 0 (#6.1) using 916 atoms 
    7546 average map value = 0.2125, steps = 60 
    7547 shifted from previous position = 0.0248 
    7548 rotated from previous position = 0.0354 degrees 
    7549 atoms outside contour = 650, contour level = 0.3 
    7550  
    7551 Position of Stopper_45_1.pdb (#7) relative to
    7552 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7553 Matrix rotation and translation 
    7554 -0.77231948 -0.53141484 -0.34802428 638.13934064 
    7555 -0.36787024 -0.07248885 0.92704739 201.04713147 
    7556 -0.51787461 0.84400453 -0.13950715 115.32267163 
    7557 Axis -0.33219247 0.67944434 0.65421980 
    7558 Axis point 373.54020642 0.00000000 -68.59512745 
    7559 Rotation angle (degrees) 172.81970104 
    7560 Shift along axis 0.06163044 
    7561  
    7562 
    7563 > save "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7564 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7565 > Models/Stopper_45_1-coot-1.pdb" models #7 selectedOnly true relModel #2
    7566 
    7567 > select subtract #7
    7568 
    7569 1 model selected 
    7570 
    7571 > hide #!7 models
    7572 
    7573 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7574 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7575 > Models/Stopper_45_1-coot-1.pdb"
    7576 
    7577 Chain information for Stopper_45_1-coot-1.pdb #8 
    7578 --- 
    7579 Chain | Description 
    7580 A | No description available 
    7581  
    7582 
    7583 > close #8
    7584 
    7585 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7586 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7587 > Models/Stopper_45_1-coot-2.pdb"
    7588 
    7589 Chain information for Stopper_45_1-coot-2.pdb #8 
    7590 --- 
    7591 Chain | Description 
    7592 A | No description available 
    7593  
    7594 
    7595 > fitmap #8 inMap #6.1
    7596 
    7597 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7598 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7599 average map value = 0.2416, steps = 76 
    7600 shifted from previous position = 2.81 
    7601 rotated from previous position = 5.69 degrees 
    7602 atoms outside contour = 613, contour level = 0.3 
    7603  
    7604 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7605 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7606 Matrix rotation and translation 
    7607 0.99603941 -0.08341334 0.03078486 16.53076653 
    7608 0.08198082 0.99560918 0.04518299 -26.43588346 
    7609 -0.03441855 -0.04248027 0.99850428 22.40508070 
    7610 Axis -0.44225017 0.32894299 0.83439277 
    7611 Axis point 343.75308559 196.10859657 0.00000000 
    7612 Rotation angle (degrees) 5.68795107 
    7613 Shift along axis 2.68800441 
    7614  
    7615 
    7616 > select add #8
    7617 
    7618 916 atoms, 939 bonds, 119 residues, 1 model selected 
    7619 
    7620 > ui mousemode right "translate selected atoms"
    7621 
    7622 > fitmap #8 inMap #6.1
    7623 
    7624 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7625 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7626 average map value = 0.4002, steps = 56 
    7627 shifted from previous position = 2 
    7628 rotated from previous position = 0.404 degrees 
    7629 atoms outside contour = 519, contour level = 0.3 
    7630  
    7631 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7632 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7633 Matrix rotation and translation 
    7634 0.99610739 -0.08010536 0.03678597 13.31621226 
    7635 0.07849236 0.99597047 0.04337942 -23.94051992 
    7636 -0.04011266 -0.04032314 0.99838120 23.81493401 
    7637 Axis -0.42897465 0.39410453 0.81281140 
    7638 Axis point 334.99637541 172.49832643 0.00000000 
    7639 Rotation angle (degrees) 5.59875090 
    7640 Shift along axis 4.20966486 
    7641  
    7642 
    7643 > select #8/A:44
    7644 
    7645 11 atoms, 11 bonds, 1 residue, 1 model selected 
    7646 
    7647 > select up
    7648 
    7649 31 atoms, 31 bonds, 3 residues, 1 model selected 
    7650 
    7651 > color zone #6.1 near #8 distance 6.37
    7652 
    7653 > color single #6.1
    7654 
    7655 > color zone #15.1 near #8 distance 6.37
    7656 
    7657 > select add #8
    7658 
    7659 916 atoms, 939 bonds, 119 residues, 1 model selected 
    7660 
    7661 > color sel yellow
    7662 
    7663 > color single #15.1
    7664 
    7665 > color zone #15.1 near #8 distance 6.37
    7666 
    7667 > color single #15.1
    7668 
    7669 > rainbow sel
    7670 
    7671 > ui tool show "Show Sequence Viewer"
    7672 
    7673 > sequence chain #8/A
    7674 
    7675 Alignment identifier is 8/A 
    7676 
    7677 Already setting window visible! 
    7678 
    7679 > select subtract #8
    7680 
    7681 Nothing selected 
    7682 
    7683 > select #8/A:21
    7684 
    7685 9 atoms, 8 bonds, 1 residue, 1 model selected 
    7686 
    7687 > select up
    7688 
    7689 74 atoms, 76 bonds, 11 residues, 1 model selected 
    7690 
    7691 > select #8/A:15
    7692 
    7693 8 atoms, 7 bonds, 1 residue, 1 model selected 
    7694 
    7695 > select #8/A:15
    7696 
    7697 8 atoms, 7 bonds, 1 residue, 1 model selected 
    7698 
    7699 > select #8/A:8-15
    7700 
    7701 64 atoms, 65 bonds, 8 residues, 1 model selected 
    7702 
    7703 > select #8/A:27
    7704 
    7705 9 atoms, 8 bonds, 1 residue, 1 model selected 
    7706 
    7707 > select #8/A:27-34
    7708 
    7709 59 atoms, 58 bonds, 8 residues, 1 model selected 
    7710 
    7711 > select #8/A:16
    7712 
    7713 4 atoms, 3 bonds, 1 residue, 1 model selected 
    7714 
    7715 > select #8/A:16-19
    7716 
    7717 23 atoms, 23 bonds, 4 residues, 1 model selected 
    7718 
    7719 > select #8/A:16
    7720 
    7721 4 atoms, 3 bonds, 1 residue, 1 model selected 
    7722 
    7723 > select #8/A:16-26
    7724 
    7725 74 atoms, 76 bonds, 11 residues, 1 model selected 
    7726 
    7727 > fitmap #8 inMap #6.1
    7728 
    7729 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7730 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7731 average map value = 0.3604, steps = 48 
    7732 shifted from previous position = 0.207 
    7733 rotated from previous position = 1.94 degrees 
    7734 atoms outside contour = 559, contour level = 0.3 
    7735  
    7736 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7737 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7738 Matrix rotation and translation 
    7739 0.99694464 -0.06849311 0.03755115 10.12297075 
    7740 0.06555064 0.99505174 0.07466692 -25.43997213 
    7741 -0.04247951 -0.07197728 0.99650126 32.78897434 
    7742 Axis -0.68464691 0.37364416 0.62581839 
    7743 Axis point 0.00000000 401.19159414 387.73605137 
    7744 Rotation angle (degrees) 6.14786817 
    7745 Shift along axis 4.08378528 
    7746  
    7747 
    7748 > select #8/A:15
    7749 
    7750 8 atoms, 7 bonds, 1 residue, 1 model selected 
    7751 
    7752 > select #8/A:8-15
    7753 
    7754 64 atoms, 65 bonds, 8 residues, 1 model selected 
    7755 
    7756 > fitmap #8 inMap #6.1
    7757 
    7758 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7759 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7760 average map value = 0.3377, steps = 68 
    7761 shifted from previous position = 0.226 
    7762 rotated from previous position = 2.66 degrees 
    7763 atoms outside contour = 593, contour level = 0.3 
    7764  
    7765 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7766 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7767 Matrix rotation and translation 
    7768 0.99533281 -0.09099092 0.03214408 17.06278739 
    7769 0.08985284 0.99533152 0.03523675 -25.38667083 
    7770 -0.03520024 -0.03218405 0.99886192 20.41710196 
    7771 Axis -0.32982397 0.32944982 0.88469145 
    7772 Axis point 307.15568915 186.52529576 0.00000000 
    7773 Rotation angle (degrees) 5.86628782 
    7774 Shift along axis 4.07148510 
    7775  
    7776 
    7777 > fitmap #8 inMap #6.1
    7778 
    7779 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7780 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7781 average map value = 0.3378, steps = 44 
    7782 shifted from previous position = 0.0172 
    7783 rotated from previous position = 0.0248 degrees 
    7784 atoms outside contour = 591, contour level = 0.3 
    7785  
    7786 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7787 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7788 Matrix rotation and translation 
    7789 0.99529842 -0.09126146 0.03244072 17.08034056 
    7790 0.09011909 0.99531269 0.03508856 -25.43981493 
    7791 -0.03549090 -0.03200006 0.99885754 20.44930297 
    7792 Axis -0.32730247 0.33141519 0.88489382 
    7793 Axis point 306.94490874 185.95590636 0.00000000 
    7794 Rotation angle (degrees) 5.88241146 
    7795 Shift along axis 4.07388294 
    7796  
    7797 
    7798 > select #8/A:1
    7799 
    7800 8 atoms, 7 bonds, 1 residue, 1 model selected 
    7801 
    7802 > select #8/A:1-7
    7803 
    7804 48 atoms, 49 bonds, 7 residues, 1 model selected 
    7805 
    7806 > select #8/A:37
    7807 
    7808 6 atoms, 5 bonds, 1 residue, 1 model selected 
    7809 
    7810 > select #8/A:37-46
    7811 
    7812 91 atoms, 93 bonds, 10 residues, 1 model selected 
    7813 
    7814 > select #8/A:37
    7815 
    7816 6 atoms, 5 bonds, 1 residue, 1 model selected 
    7817 
    7818 > select #8/A:37-54
    7819 
    7820 155 atoms, 158 bonds, 18 residues, 1 model selected 
    7821 
    7822 > select #8/A:55-56
    7823 
    7824 12 atoms, 11 bonds, 2 residues, 1 model selected 
    7825 
    7826 > select #8/A:55-59
    7827 
    7828 43 atoms, 44 bonds, 5 residues, 1 model selected 
    7829 
    7830 > select #8/A:38
    7831 
    7832 11 atoms, 10 bonds, 1 residue, 1 model selected 
    7833 
    7834 > select #8/A:38-63
    7835 
    7836 223 atoms, 228 bonds, 26 residues, 1 model selected 
    7837 
    7838 > fitmap #8 inMap #6.1
    7839 
    7840 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7841 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7842 average map value = 0.2906, steps = 64 
    7843 shifted from previous position = 0.442 
    7844 rotated from previous position = 1.86 degrees 
    7845 atoms outside contour = 604, contour level = 0.3 
    7846  
    7847 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7848 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7849 Matrix rotation and translation 
    7850 0.99399572 -0.10911283 0.00817865 25.64220567 
    7851 0.10889540 0.99377564 0.02348974 -27.76895518 
    7852 -0.01069078 -0.02245809 0.99969062 11.86059920 
    7853 Axis -0.20549554 0.08439099 0.97501269 
    7854 Axis point 271.07350788 227.53149565 0.00000000 
    7855 Rotation angle (degrees) 6.41895192 
    7856 Shift along axis 3.95142619 
    7857  
    7858 
    7859 > select #8/A:35
    7860 
    7861 7 atoms, 7 bonds, 1 residue, 1 model selected 
    7862 
    7863 > select #8/A:35-38
    7864 
    7865 28 atoms, 28 bonds, 4 residues, 1 model selected 
    7866 
    7867 > select #8/A:42-43
    7868 
    7869 15 atoms, 14 bonds, 2 residues, 1 model selected 
    7870 
    7871 > select #8/A:42-55
    7872 
    7873 115 atoms, 116 bonds, 14 residues, 1 model selected 
    7874 
    7875 > fitmap #8 inMap #6.1
    7876 
    7877 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7878 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7879 average map value = 0.2941, steps = 64 
    7880 shifted from previous position = 0.274 
    7881 rotated from previous position = 1.97 degrees 
    7882 atoms outside contour = 595, contour level = 0.3 
    7883  
    7884 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7885 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7886 Matrix rotation and translation 
    7887 0.99548296 -0.09048207 0.02875190 16.97681714 
    7888 0.08919315 0.99507135 0.04333108 -26.45323088 
    7889 -0.03253088 -0.04057088 0.99864696 22.08301571 
    7890 Axis -0.40424330 0.29526311 0.86568300 
    7891 Axis point 321.87015241 191.40983093 -0.00000000 
    7892 Rotation angle (degrees) 5.95668389 
    7893 Shift along axis 4.44346352 
    7894  
    7895 
    7896 > fitmap #8 inMap #6.1
    7897 
    7898 Fit molecule Stopper_45_1-coot-2.pdb (#8) to map
    7899 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7900 average map value = 0.2941, steps = 44 
    7901 shifted from previous position = 0.00411 
    7902 rotated from previous position = 0.00967 degrees 
    7903 atoms outside contour = 595, contour level = 0.3 
    7904  
    7905 Position of Stopper_45_1-coot-2.pdb (#8) relative to
    7906 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7907 Matrix rotation and translation 
    7908 0.99549307 -0.09035452 0.02880308 16.93131273 
    7909 0.08906053 0.99507915 0.04342467 -26.43820711 
    7910 -0.03258496 -0.04066374 0.99864142 22.12352547 
    7911 Axis -0.40537309 0.29593921 0.86492349 
    7912 Axis point 322.20359280 191.26969057 0.00000000 
    7913 Rotation angle (degrees) 5.95326956 
    7914 Shift along axis 4.44755592 
    7915  
    7916 
    7917 > select add #8
    7918 
    7919 916 atoms, 939 bonds, 119 residues, 1 model selected 
    7920 
    7921 > select subtract #8
    7922 
    7923 Nothing selected 
    7924 
    7925 > select add #8
    7926 
    7927 916 atoms, 939 bonds, 119 residues, 1 model selected 
    7928 
    7929 > save "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7930 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7931 > Models/Stopper/Stopper_45_1-coot-3.pdb" models #8 selectedOnly true relModel
    7932 > #2
    7933 
    7934 > select subtract #8
    7935 
    7936 Nothing selected 
    7937 
    7938 > hide #8 models
    7939 
    7940 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7941 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7942 > Models/Stopper/Stopper_45_1-coot-3.pdb"
    7943 
    7944 Chain information for Stopper_45_1-coot-3.pdb #9 
    7945 --- 
    7946 Chain | Description 
    7947 A | No description available 
    7948  
    7949 
    7950 > close #9
    7951 
    7952 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    7953 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    7954 > Models/Stopper/Stopper_45_1-coot-4.pdb"
    7955 
    7956 Chain information for Stopper_45_1-coot-4.pdb #9 
    7957 --- 
    7958 Chain | Description 
    7959 A | No description available 
    7960  
    7961 
    7962 > fitmap #9 inMap #6.1
    7963 
    7964 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    7965 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7966 average map value = 0.9066, steps = 76 
    7967 shifted from previous position = 4.31 
    7968 rotated from previous position = 2.83 degrees 
    7969 atoms outside contour = 195, contour level = 0.3 
    7970  
    7971 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    7972 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7973 Matrix rotation and translation 
    7974 0.99998878 -0.00165271 0.00444027 -0.53652593 
    7975 0.00186894 0.99879000 -0.04914314 12.38716759 
    7976 -0.00435368 0.04915089 0.99878188 -11.86586289 
    7977 Axis 0.99538822 0.08905324 0.03566252 
    7978 Axis point 0.00000000 247.61224516 245.70191070 
    7979 Rotation angle (degrees) 2.83011369 
    7980 Shift along axis 0.14589924 
    7981  
    7982 
    7983 > select add #9
    7984 
    7985 916 atoms, 939 bonds, 119 residues, 1 model selected 
    7986 
    7987 > fitmap #9 inMap #6.1
    7988 
    7989 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    7990 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    7991 average map value = 0.9067, steps = 56 
    7992 shifted from previous position = 2.77 
    7993 rotated from previous position = 0.0233 degrees 
    7994 atoms outside contour = 194, contour level = 0.3 
    7995  
    7996 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    7997 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    7998 Matrix rotation and translation 
    7999 0.99998807 -0.00154974 0.00463339 -0.42827439 
    8000 0.00177403 0.99880695 -0.04880083 15.03300112 
    8001 -0.00455223 0.04880847 0.99879778 -11.06755944 
    8002 Axis 0.99502957 0.09363829 0.03388247 
    8003 Axis point 0.00000000 234.59364008 301.14909209 
    8004 Rotation angle (degrees) 2.81139679 
    8005 Shift along axis 0.60652254 
    8006  
    8007 
    8008 > fitmap #9 inMap #6.1
    8009 
    8010 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8011 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8012 average map value = 0.9067, steps = 64 
    8013 shifted from previous position = 0.41 
    8014 rotated from previous position = 8.56 degrees 
    8015 atoms outside contour = 196, contour level = 0.3 
    8016  
    8017 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8018 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8019 Matrix rotation and translation 
    8020 0.99363048 0.10264051 0.04651239 -31.50835306 
    8021 -0.10480455 0.99339325 0.04675323 27.53534136 
    8022 -0.04140632 -0.05133015 0.99782300 22.79562012 
    8023 Axis -0.39915013 0.35778500 -0.84419729 
    8024 Axis point 232.37979572 309.01531263 0.00000000 
    8025 Rotation angle (degrees) 7.05749476 
    8026 Shift along axis 3.18429456 
    8027  
    8028 
    8029 > fitmap #9 inMap #6.1
    8030 
    8031 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8032 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8033 average map value = 0.9068, steps = 36 
    8034 shifted from previous position = 0.00875 
    8035 rotated from previous position = 0.022 degrees 
    8036 atoms outside contour = 196, contour level = 0.3 
    8037  
    8038 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8039 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8040 Matrix rotation and translation 
    8041 0.99363103 0.10247723 0.04685922 -31.53451562 
    8042 -0.10466085 0.99340649 0.04679376 27.48518390 
    8043 -0.04175496 -0.05140005 0.99780487 22.90150633 
    8044 Axis -0.39954269 0.36056393 -0.84282815 
    8045 Axis point 232.05489383 309.63878139 0.00000000 
    8046 Rotation angle (degrees) 7.05850365 
    8047 Shift along axis 3.20751680 
    8048  
    8049 
    8050 > fitmap #9 inMap #6.1
    8051 
    8052 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8053 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8054 average map value = 0.2434, steps = 64 
    8055 shifted from previous position = 1.95 
    8056 rotated from previous position = 6.78 degrees 
    8057 atoms outside contour = 630, contour level = 0.3 
    8058  
    8059 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8060 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8061 Matrix rotation and translation 
    8062 0.99134972 0.11210214 -0.06825565 -12.05044408 
    8063 -0.10717022 0.99162426 0.07208244 23.73010592 
    8064 0.07576456 -0.06414393 0.99506044 -2.92412366 
    8065 Axis -0.46084577 -0.48721191 -0.74178550 
    8066 Axis point 193.17166540 138.18357904 0.00000000 
    8067 Rotation angle (degrees) 8.49947699 
    8068 Shift along axis -3.83912137 
    8069  
    8070 
    8071 > fitmap #9 inMap #6.1
    8072 
    8073 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8074 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8075 average map value = 0.2434, steps = 40 
    8076 shifted from previous position = 0.00635 
    8077 rotated from previous position = 0.00449 degrees 
    8078 atoms outside contour = 630, contour level = 0.3 
    8079  
    8080 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8081 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8082 Matrix rotation and translation 
    8083 0.99135085 0.11207039 -0.06829145 -12.03885371 
    8084 -0.10714104 0.99163207 0.07201834 23.73763516 
    8085 0.07579111 -0.06407863 0.99506263 -2.94652898 
    8086 Axis -0.46052398 -0.48754557 -0.74176612 
    8087 Axis point 193.27741062 138.13193473 0.00000000 
    8088 Rotation angle (degrees) 8.49732112 
    8089 Shift along axis -3.84336275 
    8090  
    8091 
    8092 > undo
    8093 
    8094 > fitmap #9 inMap #6.1
    8095 
    8096 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8097 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8098 average map value = 0.2485, steps = 80 
    8099 shifted from previous position = 2.33 
    8100 rotated from previous position = 7.2 degrees 
    8101 atoms outside contour = 616, contour level = 0.3 
    8102  
    8103 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8104 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8105 Matrix rotation and translation 
    8106 0.98049727 0.19644182 0.00597577 -43.10986304 
    8107 -0.19652265 0.98030121 0.01970738 58.89626124 
    8108 -0.00198670 -0.02049741 0.99978793 7.50543461 
    8109 Axis -0.10175951 0.02015325 -0.99460487 
    8110 Axis point 275.05321296 247.74049165 0.00000000 
    8111 Rotation angle (degrees) 11.39361126 
    8112 Shift along axis -1.89115211 
    8113  
    8114 
    8115 > fitmap #9 inMap #6.1
    8116 
    8117 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8118 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8119 average map value = 0.286, steps = 120 
    8120 shifted from previous position = 2.51 
    8121 rotated from previous position = 8.29 degrees 
    8122 atoms outside contour = 593, contour level = 0.3 
    8123  
    8124 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8125 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8126 Matrix rotation and translation 
    8127 0.99551759 0.07449111 -0.05827349 -6.31468898 
    8128 -0.07116064 0.99581877 0.05728119 18.63194411 
    8129 0.06229678 -0.05287765 0.99665594 1.36739008 
    8130 Axis -0.50339902 -0.55097675 -0.66559300 
    8131 Axis point 191.07820417 150.31195357 0.00000000 
    8132 Rotation angle (degrees) 6.28159556 
    8133 Shift along axis -7.99708501 
    8134  
    8135 
    8136 > fitmap #9 inMap #6.1
    8137 
    8138 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8139 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8140 average map value = 0.2481, steps = 76 
    8141 shifted from previous position = 2.53 
    8142 rotated from previous position = 8.22 degrees 
    8143 atoms outside contour = 613, contour level = 0.3 
    8144  
    8145 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8146 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8147 Matrix rotation and translation 
    8148 0.98056440 0.19613975 0.00475943 -43.27036552 
    8149 -0.19619676 0.98033824 0.02106569 62.59484585 
    8150 -0.00053403 -0.02159005 0.99976677 9.59363230 
    8151 Axis -0.10807565 0.01341189 -0.99405220 
    8152 Axis point 294.06554965 251.96439449 0.00000000 
    8153 Rotation angle (degrees) 11.38156938 
    8154 Shift along axis -4.02058319 
    8155  
    8156 
    8157 > fitmap #9 inMap #6.1
    8158 
    8159 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8160 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8161 average map value = 0.9064, steps = 88 
    8162 shifted from previous position = 4.46 
    8163 rotated from previous position = 20 degrees 
    8164 atoms outside contour = 194, contour level = 0.3 
    8165  
    8166 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8167 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8168 Matrix rotation and translation 
    8169 0.96394944 0.00558817 0.26602679 -35.43599628 
    8170 -0.05138556 0.98486890 0.16550762 3.04913866 
    8171 -0.26107663 -0.17321091 0.94965098 117.83981345 
    8172 Axis -0.53838535 0.83781883 -0.09055844 
    8173 Axis point 422.70555403 0.00000000 168.30365370 
    8174 Rotation angle (degrees) 18.33478806 
    8175 Shift along axis 10.96145756 
    8176  
    8177 
    8178 > fitmap #9 inMap #6.1
    8179 
    8180 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8181 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8182 average map value = 0.9068, steps = 28 
    8183 shifted from previous position = 0.0234 
    8184 rotated from previous position = 0.0366 degrees 
    8185 atoms outside contour = 196, contour level = 0.3 
    8186  
    8187 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8188 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8189 Matrix rotation and translation 
    8190 0.96384217 0.00550877 0.26641683 -35.46414005 
    8191 -0.05150511 0.98478443 0.16597241 3.00107032 
    8192 -0.26144884 -0.17369304 0.94946049 118.08800480 
    8193 Axis -0.53890352 0.83749663 -0.09045660 
    8194 Axis point 422.90595617 0.00000000 168.37570285 
    8195 Rotation angle (degrees) 18.36956483 
    8196 Shift along axis 10.94329695 
    8197  
    8198 
    8199 > select subtract #9
    8200 
    8201 Nothing selected 
    8202 
    8203 > select add #9
    8204 
    8205 916 atoms, 939 bonds, 119 residues, 1 model selected 
    8206 
    8207 > fitmap #9 inMap #6.1
    8208 
    8209 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8210 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8211 average map value = 0.9067, steps = 116 
    8212 shifted from previous position = 0.00623 
    8213 rotated from previous position = 28.9 degrees 
    8214 atoms outside contour = 196, contour level = 0.3 
    8215  
    8216 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8217 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8218 Matrix rotation and translation 
    8219 0.83152977 -0.10197232 0.54604019 -22.95500990 
    8220 -0.21100519 0.85133809 0.48031267 22.83163520 
    8221 -0.51384342 -0.51461160 0.68639628 308.15525095 
    8222 Axis -0.68249383 0.72705436 -0.07479389 
    8223 Axis point 490.13191991 0.00000000 181.73785601 
    8224 Rotation angle (degrees) 46.79332164 
    8225 Shift along axis 9.21836142 
    8226  
    8227 
    8228 > fitmap #9 inMap #6.1
    8229 
    8230 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8231 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8232 average map value = 0.9068, steps = 24 
    8233 shifted from previous position = 0.00587 
    8234 rotated from previous position = 0.0354 degrees 
    8235 atoms outside contour = 196, contour level = 0.3 
    8236  
    8237 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8238 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8239 Matrix rotation and translation 
    8240 0.83135753 -0.10220999 0.54625798 -22.89156230 
    8241 -0.21121047 0.85107517 0.48068825 22.87804983 
    8242 -0.51403774 -0.51499920 0.68595993 308.37168534 
    8243 Axis -0.68263427 0.72692910 -0.07472974 
    8244 Axis point 490.21394721 0.00000000 181.73375794 
    8245 Rotation angle (degrees) 46.82756559 
    8246 Shift along axis 9.21274983 
    8247  
    8248 
    8249 > fitmap #9 inMap #6.1
    8250 
    8251 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8252 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8253 average map value = 0.9064, steps = 120 
    8254 shifted from previous position = 0.0259 
    8255 rotated from previous position = 29 degrees 
    8256 atoms outside contour = 194, contour level = 0.3 
    8257  
    8258 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8259 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8260 Matrix rotation and translation 
    8261 0.82803450 -0.09573857 0.55244276 -24.61847151 
    8262 -0.44134639 0.49638404 0.74754013 121.59486495 
    8263 -0.34579219 -0.86280763 0.36876924 401.76938757 
    8264 Axis -0.85838034 0.47879547 -0.18422292 
    8265 Axis point 0.00000000 390.71829465 103.98362892 
    8266 Rotation angle (degrees) 69.72087719 
    8267 Shift along axis 5.33595516 
    8268  
    8269 
    8270 > fitmap #9 inMap #6.1
    8271 
    8272 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8273 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8274 average map value = 0.9063, steps = 28 
    8275 shifted from previous position = 0.00552 
    8276 rotated from previous position = 0.014 degrees 
    8277 atoms outside contour = 195, contour level = 0.3 
    8278  
    8279 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8280 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8281 Matrix rotation and translation 
    8282 0.82801598 -0.09598125 0.55242841 -24.54838425 
    8283 -0.44124585 0.49636896 0.74760950 121.56290722 
    8284 -0.34596481 -0.86278935 0.36865010 401.83075371 
    8285 Axis -0.85838175 0.47886543 -0.18403443 
    8286 Axis point 0.00000000 390.74117925 104.03893053 
    8287 Rotation angle (degrees) 69.72554177 
    8288 Shift along axis 5.33346647 
    8289  
    8290 
    8291 > fitmap #9 inMap #6.1
    8292 
    8293 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8294 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8295 average map value = 0.9067, steps = 76 
    8296 shifted from previous position = 0.029 
    8297 rotated from previous position = 13.9 degrees 
    8298 atoms outside contour = 196, contour level = 0.3 
    8299  
    8300 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8301 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8302 Matrix rotation and translation 
    8303 0.72744524 -0.19738184 0.65716348 7.75308376 
    8304 -0.56898629 0.36176947 0.73849675 187.84403111 
    8305 -0.38350753 -0.91113295 0.15085992 459.54414875 
    8306 Axis -0.83082221 0.52412525 -0.18715548 
    8307 Axis point 0.00000000 409.14416376 103.49706392 
    8308 Rotation angle (degrees) 83.10574372 
    8309 Shift along axis 6.00616277 
    8310  
    8311 
    8312 > select subtract #9
    8313 
    8314 Nothing selected 
    8315 
    8316 > select add #9
    8317 
    8318 916 atoms, 939 bonds, 119 residues, 1 model selected 
    8319 
    8320 > fitmap #9 inMap #6.1
    8321 
    8322 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8323 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8324 average map value = 0.1606, steps = 252 
    8325 shifted from previous position = 1.07 
    8326 rotated from previous position = 14.9 degrees 
    8327 atoms outside contour = 725, contour level = 0.3 
    8328  
    8329 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8330 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8331 Matrix rotation and translation 
    8332 0.54281469 -0.13782653 0.82846609 12.48098161 
    8333 -0.73896719 0.39037855 0.54911936 255.58567637 
    8334 -0.39909860 -0.91027932 0.11005393 469.26870655 
    8335 Axis -0.72987000 0.61392589 -0.30064063 
    8336 Axis point -0.00000000 462.95865761 56.03406926 
    8337 Rotation angle (degrees) 88.76096323 
    8338 Shift along axis 6.71993150 
    8339  
    8340 
    8341 > fitmap #9 inMap #6.1
    8342 
    8343 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8344 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8345 average map value = 0.1606, steps = 84 
    8346 shifted from previous position = 0.00483 
    8347 rotated from previous position = 0.0446 degrees 
    8348 atoms outside contour = 725, contour level = 0.3 
    8349  
    8350 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8351 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8352 Matrix rotation and translation 
    8353 0.54235976 -0.13733501 0.82884558 12.42255095 
    8354 -0.73931907 0.39058871 0.54849592 255.72344796 
    8355 -0.39906541 -0.91026345 0.11030521 469.21524516 
    8356 Axis -0.72955032 0.61409912 -0.30106245 
    8357 Axis point 0.00000000 463.11557667 55.83855011 
    8358 Rotation angle (degrees) 88.76077680 
    8359 Shift along axis 6.71357949 
    8360  
    8361 
    8362 > fitmap #9 inMap #6.1
    8363 
    8364 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8365 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8366 average map value = 0.2191, steps = 76 
    8367 shifted from previous position = 2.5 
    8368 rotated from previous position = 10.8 degrees 
    8369 atoms outside contour = 670, contour level = 0.3 
    8370  
    8371 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8372 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8373 Matrix rotation and translation 
    8374 0.44748585 -0.01290420 0.89419791 -1.76073653 
    8375 -0.84390955 0.32477968 0.42700682 317.59911970 
    8376 -0.29592749 -0.94570167 0.13444433 448.64933686 
    8377 Axis -0.68710214 0.59571111 -0.41595543 
    8378 Axis point 0.00000000 470.72073868 5.85058388 
    8379 Rotation angle (degrees) 92.67353563 
    8380 Shift along axis 3.78900228 
    8381  
    8382 
    8383 > fitmap #9 inMap #6.1
    8384 
    8385 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8386 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8387 average map value = 0.2191, steps = 44 
    8388 shifted from previous position = 0.00244 
    8389 rotated from previous position = 0.00195 degrees 
    8390 atoms outside contour = 670, contour level = 0.3 
    8391  
    8392 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8393 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8394 Matrix rotation and translation 
    8395 0.44747174 -0.01289895 0.89420504 -1.76086100 
    8396 -0.84392580 0.32475178 0.42699592 317.60985205 
    8397 -0.29590248 -0.94571132 0.13443149 448.64651888 
    8398 Axis -0.68710239 0.59570293 -0.41596673 
    8399 Axis point 0.00000000 470.71541919 5.84784759 
    8400 Rotation angle (degrees) 92.67510873 
    8401 Shift along axis 3.78898865 
    8402  
    8403 
    8404 > undo
    8405 
    8406 > close #9
    8407 
    8408 > open "/Users/melvinshen/Desktop/Sinica /Protein Purification/New Phage
    8409 > Proteins/Structure/CryoEM/cryosparc/Corndog /Connector/Fitted
    8410 > Models/Stopper/Stopper_45_1-coot-4.pdb"
    8411 
    8412 Chain information for Stopper_45_1-coot-4.pdb #9 
    8413 --- 
    8414 Chain | Description 
    8415 A | No description available 
    8416  
    8417 
    8418 > fitmap #9 inMap #6.1
    8419 
    8420 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8421 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8422 average map value = 0.9066, steps = 76 
    8423 shifted from previous position = 4.31 
    8424 rotated from previous position = 2.83 degrees 
    8425 atoms outside contour = 195, contour level = 0.3 
    8426  
    8427 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8428 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8429 Matrix rotation and translation 
    8430 0.99998878 -0.00165271 0.00444027 -0.53652593 
    8431 0.00186894 0.99879000 -0.04914314 12.38716759 
    8432 -0.00435368 0.04915089 0.99878188 -11.86586289 
    8433 Axis 0.99538822 0.08905324 0.03566252 
    8434 Axis point 0.00000000 247.61224516 245.70191070 
    8435 Rotation angle (degrees) 2.83011369 
    8436 Shift along axis 0.14589924 
    8437  
    8438 
    8439 > fitmap #9 inMap #6.1
    8440 
    8441 Fit molecule Stopper_45_1-coot-4.pdb (#9) to map
    8442 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) using 916 atoms 
    8443 average map value = 0.9064, steps = 28 
    8444 shifted from previous position = 0.00555 
    8445 rotated from previous position = 0.011 degrees 
    8446 atoms outside contour = 195, contour level = 0.3 
    8447  
    8448 Position of Stopper_45_1-coot-4.pdb (#9) relative to
    8449 P2_J357_007_volume_map_sharp_C6.mrc 0 (#6.1) coordinates: 
    8450 Matrix rotation and translation 
    8451 0.99998802 -0.00166174 0.00460471 -0.55917319 
    8452 0.00188559 0.99879488 -0.04904308 12.36929059 
    8453 -0.00451767 0.04905118 0.99878605 -11.80053844 
    8454 Axis 0.99505887 0.09253656 0.03598373 
    8455 Axis point 0.00000000 246.78025237 245.84007410 
    8456 Rotation angle (degrees) 2.82529290 
    8457 Shift along axis 0.16357397 
     1754[deleted to fit within ticket limits]
    84581755 
    84591756