Changes between Initial Version and Version 1 of Ticket #9962


Ignore:
Timestamp:
Oct 11, 2023, 9:30:25 AM (2 years ago)
Author:
Eric Pettersen
Comment:

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #9962

    • Property Component Unassigned → Volume Data
    • Property Owner set to Tom Goddard
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → assigned
    • Property Summary ChimeraX bug report submission → Syntax error reading marker file

  • Ticket #9962 – Description

    initial v1  
    33953395ISOLDE: stopped sim 
    33963396
    3397 > select #5.2/l:20
    3398 
    3399 20 atoms, 20 bonds, 1 residue, 1 model selected 
    3400 
    3401 > select #5.2/l:20-29
    3402 
    3403 156 atoms, 159 bonds, 10 residues, 1 model selected 
    3404 
    3405 > isolde sim start #5.2/l:24
    3406 
    3407 ISOLDE: started sim 
    3408 
    3409 > isolde sim stop
    3410 
    3411 Sim termination reason: None 
    3412 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3413 chains... 
    3414 ISOLDE: stopped sim 
    3415 
    3416 > volume #5.1.1.1 level 0.3242
    3417 
    3418 > isolde sim start #5.2/l:28-31
    3419 
    3420 ISOLDE: started sim 
    3421 
    3422 > isolde sim stop
    3423 
    3424 Sim termination reason: None 
    3425 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3426 chains... 
    3427 ISOLDE: stopped sim 
    3428 
    3429 > volume #5.1.1.1 level 0.2491
    3430 
    3431 > isolde sim start #5.2/l:31
    3432 
    3433 ISOLDE: started sim 
    3434 
    3435 > isolde sim pause
    3436 
    3437 > isolde sim stop discardTo start
    3438 
    3439 Sim termination reason: None 
    3440 reverting to start 
    3441 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3442 chains... 
    3443 ISOLDE: stopped sim 
    3444 
    3445 > show #!1 models
    3446 
    3447 > hide #!1 models
    3448 
    3449 > volume #5.1.1.1 level 0.2563
    3450 
    3451 > show #!1 models
    3452 
    3453 > hide #!1 models
    3454 
    3455 > isolde sim start #5.2/l:31-35
    3456 
    3457 ISOLDE: started sim 
    3458 
    3459 > isolde cisflip #5.2/l:32
    3460 
    3461 [Repeated 1 time(s)]
    3462 
    3463 > isolde sim pause
    3464 
    3465 > isolde sim resume
    3466 
    3467 > isolde sim pause
    3468 
    3469 > isolde sim resume
    3470 
    3471 > isolde cisflip #5.2/l:32
    3472 
    3473 [Repeated 1 time(s)]
    3474 
    3475 > isolde sim pause
    3476 
    3477 > isolde sim resume
    3478 
    3479 > isolde sim pause
    3480 
    3481 > isolde sim resume
    3482 
    3483 > isolde sim pause
    3484 
    3485 > isolde sim resume
    3486 
    3487 > isolde sim stop discardTo start
    3488 
    3489 Sim termination reason: None 
    3490 reverting to start 
    3491 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3492 chains... 
    3493 ISOLDE: stopped sim 
    3494 
    3495 > isolde sim start #5.2/l:31-35
    3496 
    3497 ISOLDE: started sim 
    3498 
    3499 > isolde sim pause
    3500 
    3501 > isolde sim stop
    3502 
    3503 Sim termination reason: None 
    3504 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3505 chains... 
    3506 ISOLDE: stopped sim 
    3507 
    3508 > show #!1 models
    3509 
    3510 > hide #!1 models
    3511 
    3512 > volume #5.1.1.1 level 0.06023
    3513 
    3514 > volume #5.1.1.1 level 0.01654
    3515 
    3516 > isolde sim start #5.2/l:38-40
    3517 
    3518 ISOLDE: started sim 
    3519 
    3520 > isolde sim pause
    3521 
    3522 > volume #5.1.1.1 level 0.06996
    3523 
    3524 > volume #5.1.1.2 level 0.01354
    3525 
    3526 > show #!1 models
    3527 
    3528 > hide #!1 models
    3529 
    3530 > show #!1 models
    3531 
    3532 > hide #!1 models
    3533 
    3534 > isolde sim resume
    3535 
    3536 > isolde sim pause
    3537 
    3538 > volume #5.1.1.1 level 0.01221
    3539 
    3540 > volume #5.1.1.1 level 0.02953
    3541 
    3542 > isolde sim resume
    3543 
    3544 > isolde sim stop
    3545 
    3546 Sim termination reason: None 
    3547 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3548 chains... 
    3549 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    3550 standards. 
    3551 ISOLDE: stopped sim 
    3552 
    3553 > isolde sim start #5.2/l:37
    3554 
    3555 ISOLDE: started sim 
    3556 
    3557 > isolde sim pause
    3558 
    3559 > show #!1 models
    3560 
    3561 > hide #!1 models
    3562 
    3563 > isolde sim resume
    3564 
    3565 > isolde sim pause
    3566 
    3567 > isolde sim stop
    3568 
    3569 Sim termination reason: None 
    3570 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3571 chains... 
    3572 ISOLDE: stopped sim 
    3573 
    3574 > isolde sim start #5.2/l:41
    3575 
    3576 ISOLDE: started sim 
    3577 
    3578 > isolde sim stop
    3579 
    3580 Sim termination reason: None 
    3581 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3582 chains... 
    3583 ISOLDE: stopped sim 
    3584 
    3585 > select #5.2/l:40
    3586 
    3587 11 atoms, 10 bonds, 1 residue, 1 model selected 
    3588 
    3589 > select #5.2/l:40-47
    3590 
    3591 136 atoms, 135 bonds, 8 residues, 1 model selected 
    3592 
    3593 > select #5.2/l:39
    3594 
    3595 12 atoms, 11 bonds, 1 residue, 1 model selected 
    3596 
    3597 > select #5.2/l:39-43
    3598 
    3599 71 atoms, 70 bonds, 5 residues, 1 model selected 
    3600 
    3601 > isolde sim start #5.2/l:39-43
    3602 
    3603 ISOLDE: started sim 
    3604 
    3605 > volume #5.1.1.1 level 0.06419
    3606 
    3607 > isolde sim pause
    3608 
    3609 > isolde sim resume
    3610 
    3611 > isolde sim pause
    3612 
    3613 > isolde sim resume
    3614 
    3615 > isolde sim pause
    3616 
    3617 > isolde sim stop
    3618 
    3619 Sim termination reason: None 
    3620 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3621 chains... 
    3622 ISOLDE: stopped sim 
    3623 
    3624 > isolde sim start #5.2/l:46
    3625 
    3626 ISOLDE: started sim 
    3627 
    3628 > isolde sim pause
    3629 
    3630 > isolde sim stop discardTo start
    3631 
    3632 Sim termination reason: None 
    3633 reverting to start 
    3634 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3635 chains... 
    3636 ISOLDE: stopped sim 
    3637 
    3638 > select #5.2/l:46
    3639 
    3640 24 atoms, 23 bonds, 1 residue, 1 model selected 
    3641 
    3642 > select #5.2/l:46-52
    3643 
    3644 129 atoms, 130 bonds, 7 residues, 1 model selected 
    3645 
    3646 > volume #5.1.1.1 level 0.192
    3647 
    3648 > isolde sim start #5.2/l:55-57
    3649 
    3650 ISOLDE: started sim 
    3651 
    3652 > show #!1 models
    3653 
    3654 > hide #!1 models
    3655 
    3656 > isolde sim stop discardTo start
    3657 
    3658 Sim termination reason: None 
    3659 reverting to start 
    3660 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3661 chains... 
    3662 ISOLDE: stopped sim 
    3663 
    3664 > show #!1 models
    3665 
    3666 > hide #!1 models
    3667 
    3668 > isolde sim start #5.2/l:54-58
    3669 
    3670 ISOLDE: started sim 
    3671 
    3672 > isolde sim pause
    3673 
    3674 > isolde sim resume
    3675 
    3676 > isolde sim pause
    3677 
    3678 > isolde sim resume
    3679 
    3680 > isolde sim pause
    3681 
    3682 > volume #5.1.1.2 level 0.1252
    3683 
    3684 > show #!1 models
    3685 
    3686 > hide #!1 models
    3687 
    3688 > show #!1 models
    3689 
    3690 > hide #!1 models
    3691 
    3692 > isolde sim resume
    3693 
    3694 > isolde sim pause
    3695 
    3696 > isolde sim stop
    3697 
    3698 Sim termination reason: None 
    3699 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3700 chains... 
    3701 ISOLDE: stopped sim 
    3702 
    3703 > select #5.2/l:58
    3704 
    3705 22 atoms, 21 bonds, 1 residue, 1 model selected 
    3706 
    3707 > select #5.2/l:58-63
    3708 
    3709 107 atoms, 108 bonds, 6 residues, 1 model selected 
    3710 
    3711 > isolde sim start #5.2/l:62
    3712 
    3713 ISOLDE: started sim 
    3714 
    3715 > isolde sim pause
    3716 
    3717 > isolde sim stop discardTo start
    3718 
    3719 Sim termination reason: None 
    3720 reverting to start 
    3721 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3722 chains... 
    3723 ISOLDE: stopped sim 
    3724 
    3725 > select clear
    3726 
    3727 [Repeated 1 time(s)]
    3728 
    3729 > isolde sim start #5.2/l:69,71-72
    3730 
    3731 ISOLDE: started sim 
    3732 
    3733 > isolde sim pause
    3734 
    3735 > isolde sim resume
    3736 
    3737 > isolde sim pause
    3738 
    3739 > isolde sim stop
    3740 
    3741 Sim termination reason: None 
    3742 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3743 chains... 
    3744 ISOLDE: stopped sim 
    3745 
    3746 > volume #5.1.1.1 level 0.2442
    3747 
    3748 > volume #5.1.1.1 level 0.2055
    3749 
    3750 > volume #5.1.1.2 level 0.1494
    3751 
    3752 > volume #5.1.1.1 level 0.1122
    3753 
    3754 > isolde sim start #5.2/l:77
    3755 
    3756 ISOLDE: started sim 
    3757 
    3758 > isolde sim stop
    3759 
    3760 Sim termination reason: None 
    3761 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3762 chains... 
    3763 ISOLDE: stopped sim 
    3764 
    3765 > isolde sim start #5.2/l:79-81
    3766 
    3767 ISOLDE: started sim 
    3768 
    3769 > isolde sim pause
    3770 
    3771 > isolde sim resume
    3772 
    3773 > isolde sim pause
    3774 
    3775 > isolde sim stop
    3776 
    3777 Sim termination reason: None 
    3778 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3779 chains... 
    3780 ISOLDE: stopped sim 
    3781 
    3782 > isolde sim start #5.2/l:84
    3783 
    3784 ISOLDE: started sim 
    3785 
    3786 > isolde sim pause
    3787 
    3788 > isolde sim stop
    3789 
    3790 Sim termination reason: None 
    3791 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3792 chains... 
    3793 ISOLDE: stopped sim 
    3794 
    3795 > volume #5.1.1.1 level 0.336
    3796 
    3797 > isolde sim start #5.2/l:86
    3798 
    3799 ISOLDE: started sim 
    3800 
    3801 > isolde sim stop discardTo start
    3802 
    3803 Sim termination reason: None 
    3804 reverting to start 
    3805 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3806 chains... 
    3807 ISOLDE: stopped sim 
    3808 
    3809 > isolde sim start #5.2/l:86/n:281
    3810 
    3811 ISOLDE: started sim 
    3812 
    3813 > isolde sim pause
    3814 
    3815 > isolde sim stop discardTo start
    3816 
    3817 Sim termination reason: None 
    3818 reverting to start 
    3819 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3820 chains... 
    3821 ISOLDE: stopped sim 
    3822 
    3823 > select #5.2/l:88
    3824 
    3825 12 atoms, 11 bonds, 1 residue, 1 model selected 
    3826 
    3827 > select #5.2/l:88-93
    3828 
    3829 89 atoms, 90 bonds, 6 residues, 1 model selected 
    3830 
    3831 > isolde sim start #5.2/l:95
    3832 
    3833 ISOLDE: started sim 
    3834 
    3835 > select clear
    3836 
    3837 [Repeated 1 time(s)]
    3838 
    3839 > isolde sim stop
    3840 
    3841 Sim termination reason: None 
    3842 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3843 chains... 
    3844 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    3845 standards. 
    3846 ISOLDE: stopped sim 
    3847 
    3848 > isolde sim start #5.2/l:105
    3849 
    3850 ISOLDE: started sim 
    3851 
    3852 > isolde sim pause
    3853 
    3854 > isolde sim stop
    3855 
    3856 Sim termination reason: None 
    3857 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3858 chains... 
    3859 ISOLDE: stopped sim 
    3860 
    3861 > isolde sim start #5.2/l:107-108
    3862 
    3863 ISOLDE: started sim 
    3864 
    3865 > isolde sim pause
    3866 
    3867 > isolde sim stop
    3868 
    3869 Sim termination reason: None 
    3870 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3871 chains... 
    3872 ISOLDE: stopped sim 
    3873 
    3874 > select #5.2/l:109
    3875 
    3876 7 atoms, 6 bonds, 1 residue, 1 model selected 
    3877 
    3878 > select #5.2/l:109-121
    3879 
    3880 193 atoms, 192 bonds, 13 residues, 1 model selected 
    3881 
    3882 > isolde sim start #5.2/l:125-129
    3883 
    3884 ISOLDE: started sim 
    3885 
    3886 > volume #5.1.1.1 level 0.1988
    3887 
    3888 > isolde sim pause
    3889 
    3890 > isolde sim resume
    3891 
    3892 > isolde sim pause
    3893 
    3894 > isolde sim resume
    3895 
    3896 > isolde sim pause
    3897 
    3898 > isolde sim resume
    3899 
    3900 > isolde sim pause
    3901 
    3902 > isolde sim resume
    3903 
    3904 > isolde sim pause
    3905 
    3906 > show #!1 models
    3907 
    3908 > hide #!1 models
    3909 
    3910 > isolde sim stop
    3911 
    3912 Sim termination reason: None 
    3913 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3914 chains... 
    3915 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    3916 standards. 
    3917 ISOLDE: stopped sim 
    3918 
    3919 > select #5.2/l:129
    3920 
    3921 11 atoms, 10 bonds, 1 residue, 1 model selected 
    3922 
    3923 > select #5.2/l:129-134
    3924 
    3925 91 atoms, 91 bonds, 6 residues, 1 model selected 
    3926 
    3927 > isolde sim start #5.2/l:129-134
    3928 
    3929 ISOLDE: started sim 
    3930 
    3931 > isolde sim pause
    3932 
    3933 > isolde sim resume
    3934 
    3935 > isolde sim pause
    3936 
    3937 > isolde sim stop
    3938 
    3939 Sim termination reason: None 
    3940 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3941 chains... 
    3942 ISOLDE: Corrected atom nomenclature of 2 residues in model #5.2 to IUPAC-IUB
    3943 standards. 
    3944 ISOLDE: stopped sim 
    3945 
    3946 > isolde sim start #5.2/l:129-134,144-146
    3947 
    3948 ISOLDE: started sim 
    3949 
    3950 > isolde sim pause
    3951 
    3952 > isolde sim stop
    3953 
    3954 Sim termination reason: None 
    3955 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3956 chains... 
    3957 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    3958 standards. 
    3959 ISOLDE: stopped sim 
    3960 
    3961 > isolde sim start #5.2/l:129-134,142-146
    3962 
    3963 ISOLDE: started sim 
    3964 
    3965 > isolde sim stop discardTo start
    3966 
    3967 Sim termination reason: None 
    3968 reverting to start 
    3969 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3970 chains... 
    3971 ISOLDE: stopped sim 
    3972 
    3973 > isolde sim start #5.2/l:129-134,139-146
    3974 
    3975 ISOLDE: started sim 
    3976 
    3977 > show #!1 models
    3978 
    3979 > hide #!1 models
    3980 
    3981 > isolde sim stop discardTo start
    3982 
    3983 Sim termination reason: None 
    3984 reverting to start 
    3985 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3986 chains... 
    3987 ISOLDE: stopped sim 
    3988 
    3989 > isolde sim start #5.2/l:172-174
    3990 
    3991 ISOLDE: started sim 
    3992 
    3993 > isolde sim pause
    3994 
    3995 > isolde sim stop
    3996 
    3997 Sim termination reason: None 
    3998 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3999 chains... 
    4000 ISOLDE: stopped sim 
    4001 
    4002 > volume #5.1.1.1 level 0.3729
    4003 
    4004 > isolde sim start #5.2/l:172-176
    4005 
    4006 ISOLDE: started sim 
    4007 
    4008 > isolde sim pause
    4009 
    4010 > isolde sim resume
    4011 
    4012 > isolde sim pause
    4013 
    4014 > isolde sim resume
    4015 
    4016 > isolde sim pause
    4017 
    4018 > isolde sim resume
    4019 
    4020 > isolde sim pause
    4021 
    4022 > volume #5.1.1.1 level 0.152
    4023 
    4024 > isolde sim stop
    4025 
    4026 Sim termination reason: None 
    4027 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4028 chains... 
    4029 ISOLDE: stopped sim 
    4030 
    4031 > volume #5.1.1.1 level 0.3985
    4032 
    4033 > isolde sim start #5.2/l:191,193
    4034 
    4035 ISOLDE: started sim 
    4036 
    4037 > isolde sim pause
    4038 
    4039 > isolde sim resume
    4040 
    4041 > isolde sim pause
    4042 
    4043 > isolde sim resume
    4044 
    4045 > isolde sim pause
    4046 
    4047 > isolde sim resume
    4048 
    4049 > isolde sim pause
    4050 
    4051 > isolde sim resume
    4052 
    4053 > isolde sim pause
    4054 
    4055 > isolde sim stop
    4056 
    4057 Sim termination reason: None 
    4058 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4059 chains... 
    4060 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    4061 standards. 
    4062 ISOLDE: stopped sim 
    4063 
    4064 > select #5.2/l:194
    4065 
    4066 15 atoms, 14 bonds, 1 residue, 1 model selected 
    4067 
    4068 > select #5.2/l:194-204
    4069 
    4070 161 atoms, 161 bonds, 11 residues, 1 model selected 
    4071 
    4072 > isolde sim start #5.2/l:199
    4073 
    4074 ISOLDE: started sim 
    4075 
    4076 > isolde sim stop discardTo start
    4077 
    4078 Sim termination reason: None 
    4079 reverting to start 
    4080 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4081 chains... 
    4082 ISOLDE: stopped sim 
    4083 
    4084 > isolde sim start #5.2/l:199
    4085 
    4086 ISOLDE: started sim 
    4087 
    4088 > isolde sim pause
    4089 
    4090 > select #5.2/l:199
    4091 
    4092 14 atoms, 13 bonds, 1 residue, 1 model selected 
    4093 
    4094 > select #5.2/l:199-206
    4095 
    4096 116 atoms, 116 bonds, 8 residues, 1 model selected 
    4097 
    4098 > isolde sim stop
    4099 
    4100 Sim termination reason: None 
    4101 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4102 chains... 
    4103 ISOLDE: stopped sim 
    4104 
    4105 > volume #5.1.1.1 level 0.2804
    4106 
    4107 > select #5.2/l:205
    4108 
    4109 15 atoms, 14 bonds, 1 residue, 1 model selected 
    4110 
    4111 > select #5.2/l:205-214
    4112 
    4113 165 atoms, 166 bonds, 10 residues, 1 model selected 
    4114 
    4115 > isolde sim start #5.2/l:205-214
    4116 
    4117 ISOLDE: started sim 
    4118 
    4119 > isolde sim pause
    4120 
    4121 > isolde sim resume
    4122 
    4123 > isolde sim pause
    4124 
    4125 > volume #5.1.1.1 level 0.2234
    4126 
    4127 > isolde sim stop
    4128 
    4129 Sim termination reason: None 
    4130 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4131 chains... 
    4132 ISOLDE: stopped sim 
    4133 
    4134 > select clear
    4135 
    4136 > isolde sim start #5.2/l:211-219
    4137 
    4138 ISOLDE: started sim 
    4139 
    4140 > select #5.2/l:211
    4141 
    4142 11 atoms, 10 bonds, 1 residue, 1 model selected 
    4143 
    4144 > select #5.2/l:211-215
    4145 
    4146 88 atoms, 88 bonds, 5 residues, 1 model selected 
    4147 
    4148 > isolde sim resume
    4149 
    4150 > isolde sim stop discardTo start
    4151 
    4152 Sim termination reason: None 
    4153 reverting to start 
    4154 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4155 chains... 
    4156 ISOLDE: stopped sim 
    4157 
    4158 > isolde sim start #5.2/l:211-215
    4159 
    4160 ISOLDE: started sim 
    4161 
    4162 > volume #5.1.1.1 level 0.03169
    4163 
    4164 > select clear
    4165 
    4166 > volume #5.1.1.1 level 0.1722
    4167 
    4168 > isolde sim pause
    4169 
    4170 > isolde sim stop
    4171 
    4172 Sim termination reason: None 
    4173 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4174 chains... 
    4175 ISOLDE: stopped sim 
    4176 
    4177 > isolde sim start #5.2/l:216-220
    4178 
    4179 ISOLDE: started sim 
    4180 
    4181 > isolde sim pause
    4182 
    4183 > volume #5.1.1.1 level 0.1283
    4184 
    4185 > isolde sim stop
    4186 
    4187 Sim termination reason: None 
    4188 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4189 chains... 
    4190 ISOLDE: stopped sim 
    4191 
    4192 > show #!1 models
    4193 
    4194 > hide #!1 models
    4195 
    4196 > show #!1 models
    4197 
    4198 > show #!2 models
    4199 
    4200 > hide #!1 models
    4201 
    4202 > hide #!2 models
    4203 
    4204 > select #5.2/l:219
    4205 
    4206 14 atoms, 13 bonds, 1 residue, 1 model selected 
    4207 
    4208 > select #5.2/l:219-227
    4209 
    4210 132 atoms, 134 bonds, 9 residues, 1 model selected 
    4211 
    4212 > select clear
    4213 
    4214 [Repeated 2 time(s)]
    4215 
    4216 > select #5.2/l:221
    4217 
    4218 14 atoms, 13 bonds, 1 residue, 1 model selected 
    4219 
    4220 > select #5.2/l:221-224
    4221 
    4222 54 atoms, 54 bonds, 4 residues, 1 model selected 
    4223 
    4224 > isolde sim start #5.2/l:221-224
    4225 
    4226 ISOLDE: started sim 
    4227 
    4228 > isolde sim pause
    4229 
    4230 > isolde sim resume
    4231 
    4232 > isolde sim stop discardTo start
    4233 
    4234 Sim termination reason: None 
    4235 reverting to start 
    4236 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4237 chains... 
    4238 ISOLDE: stopped sim 
    4239 
    4240 > isolde sim start #5.2/l:221-224
    4241 
    4242 ISOLDE: started sim 
    4243 
    4244 > isolde sim pause
    4245 
    4246 > isolde sim resume
    4247 
    4248 > isolde sim stop
    4249 
    4250 Sim termination reason: None 
    4251 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4252 chains... 
    4253 ISOLDE: stopped sim 
    4254 
    4255 > volume #5.1.1.1 level 0.1524
    4256 
    4257 > isolde sim start #5.2/l:221-224
    4258 
    4259 ISOLDE: started sim 
    4260 
    4261 > isolde sim pause
    4262 
    4263 > isolde sim resume
    4264 
    4265 > isolde sim pause
    4266 
    4267 > isolde sim resume
    4268 
    4269 > isolde sim pause
    4270 
    4271 > isolde sim resume
    4272 
    4273 > isolde sim pause
    4274 
    4275 > isolde sim resume
    4276 
    4277 > isolde sim pause
    4278 
    4279 > isolde sim stop
    4280 
    4281 Sim termination reason: None 
    4282 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4283 chains... 
    4284 ISOLDE: stopped sim 
    4285 
    4286 > isolde sim start #5.2/l:221
    4287 
    4288 ISOLDE: started sim 
    4289 
    4290 > isolde pepflip #5.2/l:221
    4291 
    4292 > show #!1 models
    4293 
    4294 > hide #!1 models
    4295 
    4296 > show #!1 models
    4297 
    4298 > hide #!1 models
    4299 
    4300 > volume #5.1.1.1 level 0.1043
    4301 
    4302 > isolde sim stop discardTo start
    4303 
    4304 Sim termination reason: None 
    4305 reverting to start 
    4306 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4307 chains... 
    4308 ISOLDE: stopped sim 
    4309 
    4310 > volume #5.1.1.1 level 0.1754
    4311 
    4312 > isolde sim start #5.2/l:219
    4313 
    4314 ISOLDE: started sim 
    4315 
    4316 > volume #5.1.1.1 level 0.289
    4317 
    4318 > isolde sim pause
    4319 
    4320 > volume #5.1.1.1 level 0.1274
    4321 
    4322 > isolde sim resume
    4323 
    4324 > isolde sim pause
    4325 
    4326 > isolde sim resume
    4327 
    4328 > isolde sim pause
    4329 
    4330 > isolde sim resume
    4331 
    4332 > isolde sim pause
    4333 
    4334 > isolde sim stop
    4335 
    4336 Sim termination reason: None 
    4337 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4338 chains... 
    4339 ISOLDE: stopped sim 
    4340 
    4341 > isolde sim start #5.2/l:220-222
    4342 
    4343 ISOLDE: started sim 
    4344 
    4345 > isolde sim stop discardTo start
    4346 
    4347 Sim termination reason: None 
    4348 reverting to start 
    4349 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4350 chains... 
    4351 ISOLDE: stopped sim 
    4352 
    4353 > volume #5.1.1.1 level 0.3242
    4354 
    4355 > select clear
    4356 
    4357 > isolde sim start #5.2/l:233
    4358 
    4359 ISOLDE: started sim 
    4360 
    4361 > isolde sim pause
    4362 
    4363 > volume #5.1.1.1 level 0.1553
    4364 
    4365 > isolde sim stop
    4366 
    4367 Sim termination reason: None 
    4368 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4369 chains... 
    4370 ISOLDE: stopped sim 
    4371 
    4372 > volume #5.1.1.1 level 0.3261
    4373 
    4374 > save
    4375 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_deepemhancer_beta_01.cxs
    4376 
    4377 Taking snapshot of stepper: 230822_Xt_14-3_6dimers-
    4378 rotamercorrect_real_space_refined_037.pdb 
    4379 
    4380 > isolde sim start #5.2/l:238
    4381 
    4382 ISOLDE: started sim 
    4383 
    4384 > isolde sim stop
    4385 
    4386 Sim termination reason: None 
    4387 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4388 chains... 
    4389 ISOLDE: stopped sim 
    4390 
    4391 > volume #5.1.1.1 level 0.2721
    4392 
    4393 > isolde sim start #5.2/l:242
    4394 
    4395 ISOLDE: started sim 
    4396 
    4397 > isolde sim stop discardTo start
    4398 
    4399 Sim termination reason: None 
    4400 reverting to start 
    4401 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4402 chains... 
    4403 ISOLDE: stopped sim 
    4404 
    4405 > select #5.2/l:242-243
    4406 
    4407 34 atoms, 35 bonds, 2 residues, 1 model selected 
    4408 
    4409 > select #5.2/l:242-248
    4410 
    4411 101 atoms, 102 bonds, 7 residues, 1 model selected 
    4412 
    4413 > isolde sim start #5.2/l:249
    4414 
    4415 ISOLDE: started sim 
    4416 
    4417 > isolde sim pause
    4418 
    4419 > isolde sim stop
    4420 
    4421 Sim termination reason: None 
    4422 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4423 chains... 
    4424 ISOLDE: stopped sim 
    4425 
    4426 > select #5.2/l:250
    4427 
    4428 19 atoms, 18 bonds, 1 residue, 1 model selected 
    4429 
    4430 > select #5.2/l:250-255
    4431 
    4432 110 atoms, 109 bonds, 6 residues, 1 model selected 
    4433 
    4434 > select #5.2/l:256
    4435 
    4436 14 atoms, 13 bonds, 1 residue, 1 model selected 
    4437 
    4438 > select #5.2/l:256-339
    4439 
    4440 1334 atoms, 1349 bonds, 84 residues, 1 model selected 
    4441 
    4442 > isolde sim start #5.2/l:258-259
    4443 
    4444 ISOLDE: started sim 
    4445 
    4446 > isolde sim pause
    4447 
    4448 > show #!1 models
    4449 
    4450 > isolde sim resume
    4451 
    4452 > hide #!1 models
    4453 
    4454 > isolde sim stop discardTo start
    4455 
    4456 Sim termination reason: None 
    4457 reverting to start 
    4458 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4459 chains... 
    4460 ISOLDE: stopped sim 
    4461 
    4462 > isolde sim start #5.2/l:259
    4463 
    4464 ISOLDE: started sim 
    4465 
    4466 > isolde pepflip #5.2/l:258
    4467 
    4468 [Repeated 1 time(s)]
    4469 
    4470 > isolde pepflip #5.2/l:259
    4471 
    4472 [Repeated 1 time(s)]Unable to flip peptide bond after 50 rounds. Giving up. 
    4473 
    4474 > isolde pepflip #5.2/l:259
    4475 
    4476 [Repeated 1 time(s)]
    4477 
    4478 > isolde pepflip #5.2/l:260
    4479 
    4480 Unable to flip peptide bond after 50 rounds. Giving up. 
    4481 
    4482 > isolde pepflip #5.2/l:260
    4483 
    4484 [Repeated 1 time(s)]
    4485 
    4486 > isolde sim stop discardTo start
    4487 
    4488 Sim termination reason: None 
    4489 reverting to start 
    4490 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4491 chains... 
    4492 ISOLDE: stopped sim 
    4493 
    4494 > isolde sim start #5.2/l:258-261
    4495 
    4496 ISOLDE: started sim 
    4497 
    4498 > isolde pepflip #5.2/l:260
    4499 
    4500 > isolde pepflip #5.2/l:261
    4501 
    4502 > isolde sim pause
    4503 
    4504 > isolde sim stop
    4505 
    4506 Sim termination reason: None 
    4507 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4508 chains... 
    4509 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    4510 standards. 
    4511 ISOLDE: stopped sim 
    4512 
    4513 > isolde sim start #5.2/l:263
    4514 
    4515 ISOLDE: started sim 
    4516 
    4517 > isolde sim pause
    4518 
    4519 > isolde sim stop
    4520 
    4521 Sim termination reason: None 
    4522 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4523 chains... 
    4524 ISOLDE: stopped sim 
    4525 
    4526 > select #5.2/l:264
    4527 
    4528 18 atoms, 18 bonds, 1 residue, 1 model selected 
    4529 
    4530 > select #5.2/l:264-269
    4531 
    4532 96 atoms, 99 bonds, 6 residues, 1 model selected 
    4533 
    4534 > isolde sim start #5.2/l:271-273
    4535 
    4536 ISOLDE: started sim 
    4537 
    4538 > isolde sim pause
    4539 
    4540 > isolde sim resume
    4541 
    4542 > isolde pepflip #5.2/l:271
    4543 
    4544 [Repeated 1 time(s)]
    4545 
    4546 > isolde pepflip #5.2/l:272
    4547 
    4548 [Repeated 1 time(s)]
    4549 
    4550 > isolde sim stop discardTo start
    4551 
    4552 Sim termination reason: None 
    4553 reverting to start 
    4554 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4555 chains... 
    4556 ISOLDE: stopped sim 
    4557 
    4558 > show #!1 models
    4559 
    4560 > hide #!1 models
    4561 
    4562 > isolde sim start #5.2/l:271
    4563 
    4564 ISOLDE: started sim 
    4565 
    4566 > isolde sim stop discardTo start
    4567 
    4568 Sim termination reason: None 
    4569 reverting to start 
    4570 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4571 chains... 
    4572 ISOLDE: stopped sim 
    4573 
    4574 > isolde sim start #5.2/l:270-277
    4575 
    4576 ISOLDE: started sim 
    4577 
    4578 > isolde sim pause
    4579 
    4580 > isolde sim stop discardTo start
    4581 
    4582 Sim termination reason: None 
    4583 reverting to start 
    4584 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4585 chains... 
    4586 ISOLDE: stopped sim 
    4587 
    4588 > isolde sim start #5.2/l:269-273
    4589 
    4590 ISOLDE: started sim 
    4591 
    4592 > isolde sim pause
    4593 
    4594 > isolde sim resume
    4595 
    4596 > isolde sim pause
    4597 
    4598 > isolde pepflip #5.2/l:271
    4599 
    4600 > isolde sim resume
    4601 
    4602 > isolde pepflip #5.2/l:271
    4603 
    4604 > isolde sim pause
    4605 
    4606 > isolde pepflip #5.2/l:270
    4607 
    4608 > isolde pepflip #5.2/l:268
    4609 
    4610 Peptide bond must be mobile in the simulation! 
    4611 
    4612 > isolde sim resume
    4613 
    4614 > isolde pepflip #5.2/l:269
    4615 
    4616 > isolde sim stop discardTo start
    4617 
    4618 Sim termination reason: None 
    4619 reverting to start 
    4620 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4621 chains... 
    4622 ISOLDE: stopped sim 
    4623 
    4624 > isolde sim start #5.2/l:271-272
    4625 
    4626 ISOLDE: started sim 
    4627 
    4628 > isolde sim stop discardTo start
    4629 
    4630 Sim termination reason: None 
    4631 reverting to start 
    4632 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4633 chains... 
    4634 ISOLDE: stopped sim 
    4635 
    4636 > select #5.2/l:273
    4637 
    4638 19 atoms, 18 bonds, 1 residue, 1 model selected 
    4639 
    4640 > select #5.2/l:273-278
    4641 
    4642 86 atoms, 85 bonds, 6 residues, 1 model selected 
    4643 
    4644 > volume #5.1.1.1 level 0.2324
    4645 
    4646 > select clear
    4647 
    4648 > isolde sim start #5.2/l:272
    4649 
    4650 ISOLDE: started sim 
    4651 
    4652 > isolde cisflip #5.2/l:272
    4653 
    4654 > isolde sim stop discardTo start
    4655 
    4656 Sim termination reason: None 
    4657 reverting to start 
    4658 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4659 chains... 
    4660 ISOLDE: stopped sim 
    4661 
    4662 > isolde sim start #5.2/l:271-273
    4663 
    4664 ISOLDE: started sim 
    4665 
    4666 > isolde cisflip #5.2/l:272
    4667 
    4668 > isolde sim stop discardTo start
    4669 
    4670 Sim termination reason: None 
    4671 reverting to start 
    4672 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4673 chains... 
    4674 ISOLDE: stopped sim 
    4675 
    4676 > isolde sim start #5.2/l:271
    4677 
    4678 ISOLDE: started sim 
    4679 
    4680 > isolde sim pause
    4681 
    4682 > isolde sim resume
    4683 
    4684 > isolde sim pause
    4685 
    4686 > isolde sim resume
    4687 
    4688 > isolde sim stop discardTo start
    4689 
    4690 Sim termination reason: None 
    4691 reverting to start 
    4692 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4693 chains... 
    4694 ISOLDE: stopped sim 
    4695 
    4696 > volume #5.1.1.1 level 0.1617
    4697 
    4698 > isolde sim start #5.2/l:275-278
    4699 
    4700 ISOLDE: started sim 
    4701 
    4702 > isolde sim pause
    4703 
    4704 > isolde sim stop discardTo start
    4705 
    4706 Sim termination reason: None 
    4707 reverting to start 
    4708 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4709 chains... 
    4710 ISOLDE: stopped sim 
    4711 
    4712 > show #!1 models
    4713 
    4714 > isolde sim start #5.2/l:273-279
    4715 
    4716 ISOLDE: started sim 
    4717 
    4718 > hide #!1 models
    4719 
    4720 > select clear
    4721 
    4722 > isolde sim pause
    4723 
    4724 > isolde sim resume
    4725 
    4726 > isolde pepflip #5.2/l:277
    4727 
    4728 > isolde sim pause
    4729 
    4730 > show #!1 models
    4731 
    4732 > hide #!1 models
    4733 
    4734 > isolde sim stop
    4735 
    4736 Sim termination reason: None 
    4737 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4738 chains... 
    4739 ISOLDE: Corrected atom nomenclature of 2 residues in model #5.2 to IUPAC-IUB
    4740 standards. 
    4741 ISOLDE: stopped sim 
    4742 
    4743 > isolde sim start #5.2/l:271-273
    4744 
    4745 ISOLDE: started sim 
    4746 
    4747 > isolde cisflip #5.2/l:272
    4748 
    4749 > isolde sim pause
    4750 
    4751 > isolde sim stop
    4752 
    4753 Sim termination reason: None 
    4754 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4755 chains... 
    4756 ISOLDE: stopped sim 
    4757 
    4758 > isolde sim start #5.2/l:281-285
    4759 
    4760 ISOLDE: started sim 
    4761 
    4762 > isolde sim pause
    4763 
    4764 > show #!1 models
    4765 
    4766 > isolde sim resume
    4767 
    4768 > select clear
    4769 
    4770 > hide #!1 models
    4771 
    4772 > isolde sim pause
    4773 
    4774 > isolde sim resume
    4775 
    4776 > isolde sim pause
    4777 
    4778 > isolde sim resume
    4779 
    4780 > isolde sim pause
    4781 
    4782 > isolde sim resume
    4783 
    4784 > isolde sim pause
    4785 
    4786 > isolde sim resume
    4787 
    4788 > isolde sim pause
    4789 
    4790 > isolde sim stop
    4791 
    4792 Sim termination reason: None 
    4793 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4794 chains... 
    4795 ISOLDE: stopped sim 
    4796 
    4797 > volume #5.1.1.1 level 0.3552
    4798 
    4799 > isolde sim start #5.2/l:297-299
    4800 
    4801 ISOLDE: started sim 
    4802 
    4803 > isolde sim pause
    4804 
    4805 > volume #5.1.1.1 level 0.03994
    4806 
    4807 > isolde sim resume
    4808 
    4809 > isolde sim pause
    4810 
    4811 > volume #5.1.1.1 level 0.2372
    4812 
    4813 > isolde sim stop
    4814 
    4815 Sim termination reason: None 
    4816 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4817 chains... 
    4818 ISOLDE: stopped sim 
    4819 
    4820 > select #5.2/l:307
    4821 
    4822 17 atoms, 17 bonds, 1 residue, 1 model selected 
    4823 
    4824 > select #5.2/l:307-314
    4825 
    4826 128 atoms, 129 bonds, 8 residues, 1 model selected 
    4827 
    4828 > volume #5.1.1.1 level 0.4308
    4829 
    4830 > show #!1 models
    4831 
    4832 > isolde sim start #5.2/l:322-323
    4833 
    4834 ISOLDE: started sim 
    4835 
    4836 > hide #!1 models
    4837 
    4838 > isolde sim pause
    4839 
    4840 > isolde sim stop
    4841 
    4842 Sim termination reason: None 
    4843 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4844 chains... 
    4845 ISOLDE: stopped sim 
    4846 
    4847 > select #5.2/l:323-324
    4848 
    4849 39 atoms, 38 bonds, 2 residues, 1 model selected 
    4850 
    4851 > select #5.2/l:323-328
    4852 
    4853 97 atoms, 96 bonds, 6 residues, 1 model selected 
    4854 
    4855 > show #!1 models
    4856 
    4857 > hide #!1 models
    4858 
    4859 > show #!1 models
    4860 
    4861 > hide #!1 models
    4862 
    4863 > volume #5.1.1.1 level 0.3088
    4864 
    4865 > select #5.2/l:324
    4866 
    4867 22 atoms, 21 bonds, 1 residue, 1 model selected 
    4868 
    4869 > select #5.2/l:324-339
    4870 
    4871 252 atoms, 251 bonds, 16 residues, 1 model selected 
    4872 
    4873 > select #5.2/l:323
    4874 
    4875 17 atoms, 16 bonds, 1 residue, 1 model selected 
    4876 
    4877 > select #5.2/l:323-339
    4878 
    4879 269 atoms, 268 bonds, 17 residues, 1 model selected 
    4880 
    4881 > isolde sim start #5.2/l:323-339
    4882 
    4883 ISOLDE: started sim 
    4884 
    4885 > isolde sim pause
    4886 
    4887 > isolde sim resume
    4888 
    4889 > isolde sim pause
    4890 
    4891 > isolde sim resume
    4892 
    4893 > isolde sim pause
    4894 
    4895 > isolde sim resume
    4896 
    4897 > isolde sim pause
    4898 
    4899 > isolde sim stop
    4900 
    4901 Sim termination reason: None 
    4902 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4903 chains... 
    4904 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    4905 standards. 
    4906 ISOLDE: stopped sim 
    4907 
    4908 > select #5.2/l:339
    4909 
    4910 11 atoms, 10 bonds, 1 residue, 1 model selected 
    4911 
    4912 > select #5.2/l:339-349
    4913 
    4914 184 atoms, 188 bonds, 11 residues, 1 model selected 
    4915 
    4916 > select #5.2/l:348
    4917 
    4918 14 atoms, 13 bonds, 1 residue, 1 model selected 
    4919 
    4920 > select #5.2/l:348-356
    4921 
    4922 134 atoms, 133 bonds, 9 residues, 1 model selected 
    4923 
    4924 > isolde sim start #5.2/l:356
    4925 
    4926 ISOLDE: started sim 
    4927 
    4928 > isolde sim pause
    4929 
    4930 > isolde sim resume
    4931 
    4932 > isolde sim pause
    4933 
    4934 > isolde sim resume
    4935 
    4936 > isolde sim pause
    4937 
    4938 > isolde sim resume
    4939 
    4940 > isolde sim pause
    4941 
    4942 > isolde sim resume
    4943 
    4944 > isolde sim pause
    4945 
    4946 > isolde sim resume
    4947 
    4948 > isolde sim pause
    4949 
    4950 > isolde sim resume
    4951 
    4952 > isolde sim pause
    4953 
    4954 > isolde sim stop
    4955 
    4956 Sim termination reason: None 
    4957 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4958 chains... 
    4959 ISOLDE: stopped sim 
    4960 
    4961 > volume #5.1.1.1 level 0.2591
    4962 
    4963 > show #!1 models
    4964 
    4965 > select clear
    4966 
    4967 > isolde sim start #5.2/l:360-361
    4968 
    4969 ISOLDE: started sim 
    4970 
    4971 > hide #!1 models
    4972 
    4973 > isolde sim pause
    4974 
    4975 > isolde sim stop
    4976 
    4977 Sim termination reason: None 
    4978 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    4979 chains... 
    4980 ISOLDE: stopped sim 
    4981 
    4982 > volume #5.1.1.1 level 0.3744
    4983 
    4984 > isolde sim start #5.2/l:364
    4985 
    4986 ISOLDE: started sim 
    4987 
    4988 > isolde sim pause
    4989 
    4990 > isolde sim resume
    4991 
    4992 > isolde sim pause
    4993 
    4994 > volume #5.1.1.1 level 0.08362
    4995 
    4996 > isolde sim stop
    4997 
    4998 Sim termination reason: None 
    4999 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5000 chains... 
    5001 ISOLDE: stopped sim 
    5002 
    5003 > volume #5.1.1.1 level 0.2073
    5004 
    5005 > isolde sim start #5.2/l:284,363
    5006 
    5007 ISOLDE: started sim 
    5008 
    5009 > isolde sim pause
    5010 
    5011 > isolde sim resume
    5012 
    5013 > isolde sim pause
    5014 
    5015 > ui tool show "Ramachandran Plot"
    5016 
    5017 > isolde sim stop
    5018 
    5019 Sim termination reason: None 
    5020 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5021 chains... 
    5022 ISOLDE: stopped sim 
    5023 
    5024 > select clear
    5025 
    5026 > isolde sim start #5.2/l:292
    5027 
    5028 ISOLDE: started sim 
    5029 
    5030 > isolde sim pause
    5031 
    5032 > isolde sim stop
    5033 
    5034 Sim termination reason: None 
    5035 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5036 chains... 
    5037 ISOLDE: stopped sim 
    5038 
    5039 > isolde sim start #5.2/l:321
    5040 
    5041 ISOLDE: started sim 
    5042 
    5043 > isolde sim stop discardTo start
    5044 
    5045 Sim termination reason: None 
    5046 reverting to start 
    5047 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5048 chains... 
    5049 ISOLDE: stopped sim 
    5050 
    5051 > select clear
    5052 
    5053 > isolde sim start #5.2/l:321
    5054 
    5055 ISOLDE: started sim 
    5056 
    5057 > isolde sim pause
    5058 
    5059 > isolde sim stop
    5060 
    5061 Sim termination reason: None 
    5062 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5063 chains... 
    5064 ISOLDE: stopped sim 
    5065 
    5066 > select #5.2/l:348
    5067 
    5068 14 atoms, 13 bonds, 1 residue, 1 model selected 
    5069 
    5070 > select #5.2/l:348-356
    5071 
    5072 134 atoms, 133 bonds, 9 residues, 1 model selected 
    5073 
    5074 > isolde sim start #5.2/l:353
    5075 
    5076 ISOLDE: started sim 
    5077 
    5078 > isolde sim stop discardTo start
    5079 
    5080 Sim termination reason: None 
    5081 reverting to start 
    5082 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5083 chains... 
    5084 ISOLDE: stopped sim 
    5085 
    5086 > isolde sim start #5.2/l:351-353
    5087 
    5088 ISOLDE: started sim 
    5089 
    5090 > isolde sim stop discardTo start
    5091 
    5092 Sim termination reason: None 
    5093 reverting to start 
    5094 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5095 chains... 
    5096 ISOLDE: stopped sim 
    5097 
    5098 > select #5.2/l:355
    5099 
    5100 12 atoms, 11 bonds, 1 residue, 1 model selected 
    5101 
    5102 > select #5.2/l:355-357
    5103 
    5104 45 atoms, 45 bonds, 3 residues, 1 model selected 
    5105 
    5106 > select #5.2/l:352
    5107 
    5108 10 atoms, 9 bonds, 1 residue, 1 model selected 
    5109 
    5110 > select #5.2/l:352-360
    5111 
    5112 127 atoms, 128 bonds, 9 residues, 1 model selected 
    5113 
    5114 > isolde sim start #5.2/l:352-360
    5115 
    5116 ISOLDE: started sim 
    5117 
    5118 > isolde sim pause
    5119 
    5120 > isolde sim stop discardTo start
    5121 
    5122 Sim termination reason: None 
    5123 reverting to start 
    5124 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5125 chains... 
    5126 ISOLDE: stopped sim 
    5127 
    5128 > volume #5.1.1.1 level 0.2188
    5129 
    5130 > volume #5.1.1.1 level 0.1459
    5131 
    5132 > isolde sim start #5.2/l:376
    5133 
    5134 ISOLDE: started sim 
    5135 
    5136 > isolde sim stop discardTo start
    5137 
    5138 Sim termination reason: None 
    5139 reverting to start 
    5140 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5141 chains... 
    5142 ISOLDE: stopped sim 
    5143 
    5144 > isolde sim start #5.2/l:380
    5145 
    5146 ISOLDE: started sim 
    5147 
    5148 > volume #5.1.1.1 level 0.08303
    5149 
    5150 > isolde sim pause
    5151 
    5152 > volume #5.1.1.1 level 0.1276
    5153 
    5154 > isolde sim resume
    5155 
    5156 > isolde sim stop
    5157 
    5158 Sim termination reason: None 
    5159 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5160 chains... 
    5161 ISOLDE: stopped sim 
    5162 
    5163 > isolde sim start #5.2/l:391
    5164 
    5165 ISOLDE: started sim 
    5166 
    5167 > isolde sim stop
    5168 
    5169 Sim termination reason: None 
    5170 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5171 chains... 
    5172 ISOLDE: stopped sim 
    5173 
    5174 > volume #5.1.1.1 level 0.257
    5175 
    5176 > volume #5.1.1.1 level 0.05166
    5177 
    5178 > isolde sim start #5.2/l:426-429
    5179 
    5180 ISOLDE: started sim 
    5181 
    5182 > isolde sim pause
    5183 
    5184 > isolde sim resume
    5185 
    5186 > isolde sim pause
    5187 
    5188 > isolde sim stop
    5189 
    5190 Sim termination reason: None 
    5191 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5192 chains... 
    5193 ISOLDE: stopped sim 
    5194 
    5195 > isolde sim start #5.2/l:425
    5196 
    5197 ISOLDE: started sim 
    5198 
    5199 > isolde sim pause
    5200 
    5201 > volume #5.1.1.1 level 0.2179
    5202 
    5203 > isolde sim stop
    5204 
    5205 Sim termination reason: None 
    5206 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5207 chains... 
    5208 ISOLDE: stopped sim 
    5209 
    5210 > select up
    5211 
    5212 3232 atoms, 3240 bonds, 215 residues, 2 models selected 
    5213 
    5214 > select up
    5215 
    5216 3314 atoms, 3326 bonds, 215 residues, 2 models selected 
    5217 
    5218 > select up
    5219 
    5220 5791 atoms, 5850 bonds, 374 residues, 2 models selected 
    5221 
    5222 > select up
    5223 
    5224 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5225 
    5226 > ui tool show "Ramachandran Plot"
    5227 
    5228 > isolde sim start #5.2/a:402
    5229 
    5230 ISOLDE: started sim 
    5231 
    5232 > isolde sim stop discardTo start
    5233 
    5234 Sim termination reason: None 
    5235 reverting to start 
    5236 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5237 chains... 
    5238 ISOLDE: stopped sim 
    5239 
    5240 > isolde sim start #5.2/a:401-404
    5241 
    5242 ISOLDE: started sim 
    5243 
    5244 > isolde sim stop discardTo start
    5245 
    5246 Sim termination reason: None 
    5247 reverting to start 
    5248 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5249 chains... 
    5250 ISOLDE: stopped sim 
    5251 
    5252 > show #!1 models
    5253 
    5254 > hide #!1 models
    5255 
    5256 > isolde sim start #5.2/a:401-404
    5257 
    5258 ISOLDE: started sim 
    5259 
    5260 > isolde sim stop discardTo start
    5261 
    5262 Sim termination reason: None 
    5263 reverting to start 
    5264 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5265 chains... 
    5266 ISOLDE: stopped sim 
    5267 
    5268 > isolde sim start #5.2/a:402
    5269 
    5270 ISOLDE: started sim 
    5271 
    5272 > isolde sim pause
    5273 
    5274 > isolde sim resume
    5275 
    5276 > isolde sim pause
    5277 
    5278 > isolde sim stop discardTo start
    5279 
    5280 Sim termination reason: None 
    5281 reverting to start 
    5282 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5283 chains... 
    5284 ISOLDE: stopped sim 
    5285 
    5286 > volume #5.1.1.1 level 0.1237
    5287 
    5288 > isolde sim start #5.2/a:402-404/l:260
    5289 
    5290 ISOLDE: started sim 
    5291 
    5292 > isolde sim pause
    5293 
    5294 > isolde sim resume
    5295 
    5296 > isolde sim pause
    5297 
    5298 > isolde sim resume
    5299 
    5300 > isolde sim pause
    5301 
    5302 > isolde sim resume
    5303 
    5304 > isolde sim pause
    5305 
    5306 > isolde sim resume
    5307 
    5308 > isolde sim pause
    5309 
    5310 > isolde sim resume
    5311 
    5312 > isolde sim stop discardTo start
    5313 
    5314 Sim termination reason: None 
    5315 reverting to start 
    5316 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5317 chains... 
    5318 ISOLDE: stopped sim 
    5319 
    5320 > isolde sim start #5.2/a:402
    5321 
    5322 ISOLDE: started sim 
    5323 
    5324 > isolde pepflip #5.2/a:401
    5325 
    5326 [Repeated 1 time(s)]
    5327 
    5328 > isolde pepflip #5.2/a:402
    5329 
    5330 [Repeated 1 time(s)]
    5331 
    5332 > isolde sim pause
    5333 
    5334 > volume #5.1.1.1 level 0.2988
    5335 
    5336 > show #!1 models
    5337 
    5338 > isolde sim stop
    5339 
    5340 Sim termination reason: None 
    5341 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5342 chains... 
    5343 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    5344 standards. 
    5345 ISOLDE: stopped sim 
    5346 
    5347 > isolde sim start #5.2/l:259
    5348 
    5349 ISOLDE: started sim 
    5350 
    5351 > isolde pepflip #5.2/l:260
    5352 
    5353 > isolde sim pause
    5354 
    5355 > isolde sim resume
    5356 
    5357 > isolde pepflip #5.2/a:402
    5358 
    5359 [Repeated 1 time(s)]
    5360 
    5361 > isolde pepflip #5.2/a:403
    5362 
    5363 > isolde sim pause
    5364 
    5365 > hide #!1 models
    5366 
    5367 > isolde sim stop
    5368 
    5369 Sim termination reason: None 
    5370 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5371 chains... 
    5372 ISOLDE: Corrected atom nomenclature of 1 residues in model #5.2 to IUPAC-IUB
    5373 standards. 
    5374 ISOLDE: stopped sim 
    5375 
    5376 > select up
    5377 
    5378 1834 atoms, 1831 bonds, 122 residues, 1 model selected 
    5379 
    5380 > select up
    5381 
    5382 1849 atoms, 1847 bonds, 122 residues, 1 model selected 
    5383 
    5384 > select up
    5385 
    5386 4301 atoms, 4334 bonds, 277 residues, 2 models selected 
    5387 
    5388 > select up
    5389 
    5390 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5391 
    5392 > isolde sim start #5.2/a:369
    5393 
    5394 ISOLDE: started sim 
    5395 
    5396 > isolde sim pause
    5397 
    5398 > isolde sim stop
    5399 
    5400 Sim termination reason: None 
    5401 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5402 chains... 
    5403 ISOLDE: stopped sim 
    5404 
    5405 > select up
    5406 
    5407 3327 atoms, 3348 bonds, 218 residues, 2 models selected 
    5408 
    5409 > select up
    5410 
    5411 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5412 
    5413 > isolde sim start #5.2/l:221
    5414 
    5415 ISOLDE: started sim 
    5416 
    5417 > volume #5.1.1.1 level 0.1148
    5418 
    5419 > isolde sim stop discardTo start
    5420 
    5421 Sim termination reason: None 
    5422 reverting to start 
    5423 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5424 chains... 
    5425 ISOLDE: stopped sim 
    5426 
    5427 > isolde sim start #5.2/l:221
    5428 
    5429 ISOLDE: started sim 
    5430 
    5431 > isolde pepflip #5.2/l:222
    5432 
    5433 > isolde sim stop discardTo start
    5434 
    5435 Sim termination reason: None 
    5436 reverting to start 
    5437 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5438 chains... 
    5439 ISOLDE: stopped sim 
    5440 
    5441 > volume #5.1.1.1 level 0.2524
    5442 
    5443 > select up
    5444 
    5445 2102 atoms, 2109 bonds, 136 residues, 2 models selected 
    5446 
    5447 > select up
    5448 
    5449 3975 atoms, 4014 bonds, 257 residues, 2 models selected 
    5450 
    5451 > select up
    5452 
    5453 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5454 
    5455 > select up
    5456 
    5457 80898 atoms, 81828 bonds, 5226 residues, 2 models selected 
    5458 
    5459 > select down
    5460 
    5461 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5462 
    5463 > save
    5464 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_deepemhancer_complete_01.cxs
    5465 
    5466 Taking snapshot of stepper: 230822_Xt_14-3_6dimers-
    5467 rotamercorrect_real_space_refined_037.pdb 
    5468 
    5469 > isolde sim start #5.2/l,a
    5470 
    5471 ISOLDE: started sim 
    5472 
    5473 > isolde sim pause
    5474 
    5475 > isolde sim stop discardTo start
    5476 
    5477 Sim termination reason: None 
    5478 reverting to start 
    5479 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5480 chains... 
    5481 ISOLDE: stopped sim 
    5482 
    5483 > select up
    5484 
    5485 4482 atoms, 4521 bonds, 296 residues, 1 model selected 
    5486 
    5487 > select up
    5488 
    5489 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5490 
    5491 > select up
    5492 
    5493 80898 atoms, 81828 bonds, 5226 residues, 2 models selected 
    5494 
    5495 > select down
    5496 
    5497 13398 atoms, 13550 bonds, 868 residues, 2 models selected 
    5498 
    5499 > save
    5500 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_deepemhancer_complete_01.pdb
    5501 > models #5 relModel #5.1.1.1
    5502 
    5503 > select up
    5504 
    5505 2000 atoms, 2020 bonds, 129 residues, 1 model selected 
    5506 
    5507 > select up
    5508 
    5509 6767 atoms, 6844 bonds, 438 residues, 1 model selected 
    5510 
    5511 > select up
    5512 
    5513 80898 atoms, 81828 bonds, 5226 residues, 2 models selected 
    5514 
    5515 > select down
    5516 
    5517 6767 atoms, 6844 bonds, 438 residues, 2 models selected 
    5518 
    5519 > isolde sim start #5.2/a
    5520 
    5521 ISOLDE: started sim 
    5522 
    5523 > isolde sim pause
    5524 
    5525 > isolde sim resume
    5526 
    5527 > isolde sim pause
    5528 
    5529 > isolde sim stop discardTo start
    5530 
    5531 Sim termination reason: None 
    5532 reverting to start 
    5533 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    5534 chains... 
    5535 ISOLDE: stopped sim 
    5536 
    5537 > save
    5538 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_deepemhancer_complete_01.cxs
    5539 
    5540 Taking snapshot of stepper: 230822_Xt_14-3_6dimers-
    5541 rotamercorrect_real_space_refined_037.pdb 
    5542 
    5543 > close session
    5544 
    5545 > open
    5546 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_deepemhancer_complete_01.pdb
    5547 
    5548 Chain information for 231009_Xt_14-3_deepemhancer_complete_01.pdb #1 
    5549 --- 
    5550 Chain | Description 
    5551 Z a b d f h | No description available 
    5552 k l m n o p | No description available 
    5553  
    5554 
    5555 > open
    5556 > /d/emr214/u/tl002/Xtropicalis_2209/deepemhancer/refine10-repeat/Xt_14-3_refine10repeated_deepemhancer.mrc
    5557 
    5558 Opened Xt_14-3_refine10repeated_deepemhancer.mrc as #2, grid size 416,416,416,
    5559 pixel 1.07, shown at level 0.085, step 2, values float32 
    5560 
    5561 > ui tool show "Model Panel"
    5562 
    5563 > hide #!2 models
    5564 
    5565 > select add #1
    5566 
    5567 80898 atoms, 81828 bonds, 30 pseudobonds, 5226 residues, 2 models selected 
    5568 
    5569 > style sel stick
    5570 
    5571 Changed 80898 atom styles 
    5572 
    5573 > hide sel atoms
    5574 
    5575 > show sel cartoons
    5576 
    5577 > select clear
    5578 
    5579 > select up
    5580 
    5581 51831 atoms, 52389 bonds, 3350 residues, 1 model selected 
    5582 
    5583 > select up
    5584 
    5585 66990 atoms, 67750 bonds, 4340 residues, 1 model selected 
    5586 
    5587 > select up
    5588 
    5589 80898 atoms, 81828 bonds, 5226 residues, 1 model selected 
    5590 
    5591 > select down
    5592 
    5593 66990 atoms, 67750 bonds, 4340 residues, 1 model selected 
    5594 
    5595 > delete atoms sel
    5596 
    5597 > delete bonds sel
    5598 
    5599 > style stick
    5600 
    5601 Changed 13908 atom styles 
    5602 
    5603 > select add #1
    5604 
    5605 13908 atoms, 14078 bonds, 5 pseudobonds, 886 residues, 2 models selected 
    5606 
    5607 > style sel stick
    5608 
    5609 Changed 13908 atom styles 
    5610 
    5611 > show sel atoms
    5612 
    5613 > select clear
    5614 
    5615 > select up
    5616 
    5617 421 atoms, 436 bonds, 15 residues, 1 model selected 
    5618 
    5619 > select up
    5620 
    5621 425 atoms, 440 bonds, 15 residues, 1 model selected 
    5622 
    5623 > select up
    5624 
    5625 13908 atoms, 14078 bonds, 886 residues, 1 model selected 
    5626 
    5627 > select down
    5628 
    5629 425 atoms, 440 bonds, 15 residues, 1 model selected 
    5630 
    5631 > delete atoms sel
    5632 
    5633 > delete bonds sel
    5634 
    5635 > save
    5636 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5637 > relModel #2
    5638 
    5639 > open
    5640 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5641 
    5642 Chain information for 231009_Xt_14-3_dEMhcr_1dimer.pdb #3 
    5643 --- 
    5644 Chain | Description 
    5645 a | No description available 
    5646 l | No description available 
    5647  
    5648 
    5649 > open
    5650 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5651 
    5652 Chain information for 231009_Xt_14-3_dEMhcr_1dimer.pdb #4 
    5653 --- 
    5654 Chain | Description 
    5655 a | No description available 
    5656 l | No description available 
    5657  
    5658 
    5659 > open
    5660 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5661 
    5662 Chain information for 231009_Xt_14-3_dEMhcr_1dimer.pdb #5 
    5663 --- 
    5664 Chain | Description 
    5665 a | No description available 
    5666 l | No description available 
    5667  
    5668 
    5669 > open
    5670 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5671 
    5672 Chain information for 231009_Xt_14-3_dEMhcr_1dimer.pdb #6 
    5673 --- 
    5674 Chain | Description 
    5675 a | No description available 
    5676 l | No description available 
    5677  
    5678 
    5679 > open
    5680 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5681 
    5682 Chain information for 231009_Xt_14-3_dEMhcr_1dimer.pdb #7 
    5683 --- 
    5684 Chain | Description 
    5685 a | No description available 
    5686 l | No description available 
    5687  
    5688 
    5689 > open
    5690 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer.pdb
    5691 
    5692 Chain information for 231009_Xt_14-3_dEMhcr_1dimer.pdb #8 
    5693 --- 
    5694 Chain | Description 
    5695 a | No description available 
    5696 l | No description available 
    5697  
    5698 
    5699 > show #!2 models
    5700 
    5701 > select add #3
    5702 
    5703 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    5704 
    5705 > ui mousemode right "translate selected models"
    5706 
    5707 > select subtract #3
    5708 
    5709 Nothing selected 
    5710 
    5711 > close #4-8
    5712 
    5713 > hide #!1 models
    5714 
    5715 > hide #!2 models
    5716 
    5717 > close #1
    5718 
    5719 > rename #3/l #3/B
    5720 
    5721 No name or id option specified for renaming 
    5722 
    5723 > rename #3/l B
    5724 
    5725 > select up
    5726 
    5727 263 atoms, 265 bonds, 18 residues, 1 model selected 
    5728 
    5729 > select up
    5730 
    5731 6631 atoms, 6706 bonds, 430 residues, 1 model selected 
    5732 
    5733 > select clear
    5734 
    5735 > ui tool show "Show Sequence Viewer"
    5736 
    5737 > sequence chain /a
    5738 
    5739 Alignment identifier is 3/a 
    5740 
    5741 > alter #3/l "B"
    5742 
    5743 Unknown command: alter #3/l "B" 
    5744 
    5745 > changechains #3/l #3/B
    5746 
    5747 Missing or invalid "fromIds" argument: Expected a text string 
    5748 
    5749 > changechains #3/l B
    5750 
    5751 Chain IDs of 430 residues changed 
    5752 
    5753 > changechains #3/F u
    5754 
    5755 Chain IDs of 1 residues changed 
    5756 
    5757 > changechains #3/u n
    5758 
    5759 Chain IDs of 1 residues changed 
    5760 
    5761 > changechains #3/n nt
    5762 
    5763 Chain IDs of 1 residues changed 
    5764 
    5765 > changechains #3/X Nt
    5766 
    5767 Chain IDs of 1 residues changed 
    5768 
    5769 > save
    5770 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5771 > relModel #2
    5772 
    5773 > open
    5774 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5775 
    5776 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #1 
    5777 --- 
    5778 Chain | Description 
    5779 B | No description available 
    5780 a | No description available 
    5781  
    5782 
    5783 > open
    5784 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5785 
    5786 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #4 
    5787 --- 
    5788 Chain | Description 
    5789 B | No description available 
    5790 a | No description available 
    5791  
    5792 
    5793 > open
    5794 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5795 
    5796 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 
    5797 --- 
    5798 Chain | Description 
    5799 B | No description available 
    5800 a | No description available 
    5801  
    5802 
    5803 > open
    5804 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5805 
    5806 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 
    5807 --- 
    5808 Chain | Description 
    5809 B | No description available 
    5810 a | No description available 
    5811  
    5812 
    5813 > open
    5814 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5815 
    5816 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 
    5817 --- 
    5818 Chain | Description 
    5819 B | No description available 
    5820 a | No description available 
    5821  
    5822 
    5823 > open
    5824 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5825 
    5826 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 
    5827 --- 
    5828 Chain | Description 
    5829 B | No description available 
    5830 a | No description available 
    5831  
    5832 
    5833 > open
    5834 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    5835 
    5836 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 
    5837 --- 
    5838 Chain | Description 
    5839 B | No description available 
    5840 a | No description available 
    5841  
    5842 
    5843 > select add #4
    5844 
    5845 13485 atoms, 13639 bonds, 5 pseudobonds, 872 residues, 3 models selected 
    5846 
    5847 > ui mousemode right "translate selected models"
    5848 
    5849 > select add #2
    5850 
    5851 13485 atoms, 13639 bonds, 5 pseudobonds, 872 residues, 5 models selected 
    5852 
    5853 > select subtract #2
    5854 
    5855 13485 atoms, 13639 bonds, 5 pseudobonds, 872 residues, 3 models selected 
    5856 
    5857 > show #!2 models
    5858 
    5859 > select add #3
    5860 
    5861 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    5862 
    5863 > select subtract #3
    5864 
    5865 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    5866 
    5867 > view matrix models #4,1,0,0,-22.579,0,1,0,47.444,0,0,1,-71.264
    5868 
    5869 > view matrix models #4,1,0,0,-21.42,0,1,0,49.646,0,0,1,-75.879
    5870 
    5871 > view matrix models #4,1,0,0,-19.525,0,1,0,46.307,0,0,1,-69.977
    5872 
    5873 > select add #5
    5874 
    5875 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    5876 
    5877 > view matrix models
    5878 > #4,1,0,0,-20.325,0,1,0,47.211,0,0,1,-73.546,#5,1,0,0,-0.80011,0,1,0,0.9043,0,0,1,-3.5689
    5879 
    5880 > select subtract #4
    5881 
    5882 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    5883 
    5884 > view matrix models #5,1,0,0,-0.31573,0,1,0,-4.9415,0,0,1,-79.536
    5885 
    5886 > select add #6
    5887 
    5888 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    5889 
    5890 > select subtract #5
    5891 
    5892 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    5893 
    5894 > select add #9
    5895 
    5896 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    5897 
    5898 > view matrix models
    5899 > #6,1,0,0,27.558,0,1,0,-40.023,0,0,1,-7.967,#9,1,0,0,27.558,0,1,0,-40.023,0,0,1,-7.967
    5900 
    5901 > view matrix models
    5902 > #6,1,0,0,33.949,0,1,0,-32.175,0,0,1,-4.2184,#9,1,0,0,33.949,0,1,0,-32.175,0,0,1,-4.2184
    5903 
    5904 > select subtract #9
    5905 
    5906 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    5907 
    5908 > view matrix models #6,1,0,0,37.94,0,1,0,-32.997,0,0,1,-91.497
    5909 
    5910 > select add #8
    5911 
    5912 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    5913 
    5914 > select subtract #6
    5915 
    5916 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    5917 
    5918 > view matrix models #8,1,0,0,-10.621,0,1,0,51.961,0,0,1,8.8295
    5919 
    5920 > ui mousemode right "rotate selected models"
    5921 
    5922 > view matrix models
    5923 > #8,0.91279,0.40204,-0.071999,-45.995,-0.40497,0.91378,-0.031653,124.06,0.053066,0.05805,0.9969,-6.2759
    5924 
    5925 > ui mousemode right "translate selected models"
    5926 
    5927 > view matrix models
    5928 > #8,0.91279,0.40204,-0.071999,-53.237,-0.40497,0.91378,-0.031653,120.3,0.053066,0.05805,0.9969,-4.4944
    5929 
    5930 > ui tool show "Fit in Map"
    5931 
    5932 > fitmap #4 inMap #2
    5933 
    5934 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) to map
    5935 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    5936 average map value = 0.1827, steps = 132 
    5937 shifted from previous position = 1.17 
    5938 rotated from previous position = 24.6 degrees 
    5939 atoms outside contour = 5510, contour level = 0.085003 
    5940  
    5941 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) relative to
    5942 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    5943 Matrix rotation and translation 
    5944 0.90927753 0.41617495 -0.00357668 -71.42299439 
    5945 -0.41618618 0.90927322 -0.00335753 113.23103296 
    5946 0.00185486 0.00454149 0.99998797 -74.03085494 
    5947 Axis 0.00948927 -0.00652502 -0.99993369 
    5948 Axis point 224.75324293 222.26752299 0.00000000 
    5949 Rotation angle (degrees) 24.59542336 
    5950 Shift along axis 72.60935880 
    5951  
    5952 
    5953 > fitmap #5 inMap #2
    5954 
    5955 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) to map
    5956 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    5957 average map value = 0.2277, steps = 56 
    5958 shifted from previous position = 3.52 
    5959 rotated from previous position = 0.507 degrees 
    5960 atoms outside contour = 4746, contour level = 0.085003 
    5961  
    5962 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) relative to
    5963 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    5964 Matrix rotation and translation 
    5965 0.99996277 -0.00802522 -0.00317206 2.96060465 
    5966 0.00801892 0.99996586 -0.00199420 -2.61563942 
    5967 0.00318795 0.00196869 0.99999298 -81.73309330 
    5968 Axis 0.22379300 -0.35916296 0.90604562 
    5969 Axis point 3581.36700243 2372.70633756 0.00000000 
    5970 Rotation angle (degrees) 0.50729967 
    5971 Shift along axis -72.45190761 
    5972  
    5973 
    5974 > fitmap #6 inMap #2
    5975 
    5976 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) to map
    5977 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    5978 average map value = 0.1108, steps = 92 
    5979 shifted from previous position = 1.14 
    5980 rotated from previous position = 3.78 degrees 
    5981 atoms outside contour = 8219, contour level = 0.085003 
    5982  
    5983 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) relative to
    5984 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    5985 Matrix rotation and translation 
    5986 0.99791113 -0.06374892 0.01046185 45.16738554 
    5987 0.06360179 0.99787938 0.01384046 -43.38054481 
    5988 -0.01132198 -0.01314616 0.99984948 -89.04244874 
    5989 Axis -0.20446162 0.16504314 0.96486072 
    5990 Axis point 428.79513309 366.33696669 0.00000000 
    5991 Rotation angle (degrees) 3.78394760 
    5992 Shift along axis -102.30821912 
    5993  
    5994 
    5995 > fitmap #7 inMap #2
    5996 
    5997 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#7) to map
    5998 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    5999 average map value = 0.2314, steps = 48 
    6000 shifted from previous position = 0.167 
    6001 rotated from previous position = 0.232 degrees 
    6002 atoms outside contour = 4690, contour level = 0.085003 
    6003  
    6004 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#7) relative to
    6005 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6006 Matrix rotation and translation 
    6007 0.99999618 -0.00096541 -0.00258957 0.66695892 
    6008 0.00095773 0.99999514 -0.00296639 0.39202863 
    6009 0.00259242 0.00296390 0.99999225 -0.76327765 
    6010 Axis 0.73152263 -0.63921682 0.23722668 
    6011 Axis point 0.00000000 262.40231940 143.84493388 
    6012 Rotation angle (degrees) 0.23224239 
    6013 Shift along axis 0.05623443 
    6014  
    6015 
    6016 > fitmap #8 inMap #2
    6017 
    6018 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#8) to map
    6019 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6020 average map value = 0.1816, steps = 60 
    6021 shifted from previous position = 3.11 
    6022 rotated from previous position = 4.32 degrees 
    6023 atoms outside contour = 5511, contour level = 0.085003 
    6024  
    6025 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#8) relative to
    6026 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6027 Matrix rotation and translation 
    6028 0.90624613 0.42272074 -0.00501242 -72.38351885 
    6029 -0.42274008 0.90624326 -0.00373880 116.59850087 
    6030 0.00296200 0.00550722 0.99998045 6.67842804 
    6031 Axis 0.01093493 -0.00943105 -0.99989574 
    6032 Axis point 226.55366002 221.25742026 0.00000000 
    6033 Rotation angle (degrees) 25.00987709 
    6034 Shift along axis -8.56888720 
    6035  
    6036 
    6037 > fitmap #9 inMap #2
    6038 
    6039 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#9) to map
    6040 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6041 average map value = 0.1189, steps = 188 
    6042 shifted from previous position = 8.22 
    6043 rotated from previous position = 25.9 degrees 
    6044 atoms outside contour = 7855, contour level = 0.085003 
    6045  
    6046 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#9) relative to
    6047 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6048 Matrix rotation and translation 
    6049 0.89984896 -0.43619330 0.00269247 120.11233580 
    6050 0.43598998 0.89920299 -0.03669757 -65.11344719 
    6051 0.01358615 0.03419616 0.99932279 -10.04069920 
    6052 Axis 0.08100959 -0.01244811 0.99663559 
    6053 Axis point 202.23491524 228.83214774 0.00000000 
    6054 Rotation angle (degrees) 25.94854419 
    6055 Shift along axis 0.53387244 
    6056  
    6057 
    6058 > select subtract #8
    6059 
    6060 Nothing selected 
    6061 
    6062 > select add #2
    6063 
    6064 4 models selected 
    6065 
    6066 > select subtract #2
    6067 
    6068 Nothing selected 
    6069 
    6070 > select add #2
    6071 
    6072 4 models selected 
    6073 
    6074 > transparency #2.1 40
    6075 
    6076 > volume #2 step 1
    6077 
    6078 > select clear
    6079 
    6080 > volume #2 level 0.228
    6081 
    6082 > select add #6
    6083 
    6084 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    6085 
    6086 > view matrix models
    6087 > #6,0.99791,-0.063749,0.010462,48.895,0.063602,0.99788,0.01384,-48.589,-0.011322,-0.013146,0.99985,-91.152
    6088 
    6089 > view matrix models
    6090 > #6,0.99791,-0.063749,0.010462,52.705,0.063602,0.99788,0.01384,-45.701,-0.011322,-0.013146,0.99985,-90.668
    6091 
    6092 > select add #9
    6093 
    6094 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    6095 
    6096 > view matrix models
    6097 > #6,0.99791,-0.063749,0.010462,55.14,0.063602,0.99788,0.01384,-43.771,-0.011322,-0.013146,0.99985,-89.551,#9,0.89985,-0.43619,0.0026925,122.55,0.43599,0.8992,-0.036698,-63.184,0.013586,0.034196,0.99932,-8.9237
    6098 
    6099 > view matrix models
    6100 > #6,0.99791,-0.063749,0.010462,53.257,0.063602,0.99788,0.01384,-45.588,-0.011322,-0.013146,0.99985,-93.547,#9,0.89985,-0.43619,0.0026925,120.66,0.43599,0.8992,-0.036698,-65,0.013586,0.034196,0.99932,-12.92
    6101 
    6102 > select subtract #6
    6103 
    6104 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    6105 
    6106 > view matrix models
    6107 > #9,0.89985,-0.43619,0.0026925,118.48,0.43599,0.8992,-0.036698,-63.949,0.013586,0.034196,0.99932,-15.772
    6108 
    6109 > ui mousemode right "rotate selected models"
    6110 
    6111 > view matrix models
    6112 > #9,0.77859,-0.62291,0.076103,146.53,0.62607,0.77933,-0.02622,-71.819,-0.042976,0.06806,0.99676,-13.271
    6113 
    6114 > select add #6
    6115 
    6116 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    6117 
    6118 > select subtract #9
    6119 
    6120 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    6121 
    6122 > ui mousemode right "rotate selected models"
    6123 
    6124 > view matrix models
    6125 > #6,0.90053,-0.43374,0.030229,118.87,0.43479,0.89867,-0.057958,-61.253,-0.0020271,0.065336,0.99786,-106.51
    6126 
    6127 > ui mousemode right "translate selected models"
    6128 
    6129 > view matrix models
    6130 > #6,0.90053,-0.43374,0.030229,117.96,0.43479,0.89867,-0.057958,-58.063,-0.0020271,0.065336,0.99786,-99.02
    6131 
    6132 > fitmap #9 inMap #2
    6133 
    6134 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#9) to map
    6135 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6136 average map value = 0.2068, steps = 76 
    6137 shifted from previous position = 2.83 
    6138 rotated from previous position = 13.9 degrees 
    6139 atoms outside contour = 8856, contour level = 0.228 
    6140  
    6141 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#9) relative to
    6142 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6143 Matrix rotation and translation 
    6144 0.90186856 -0.43199588 0.00355729 117.86366547 
    6145 0.43199178 0.90187556 0.00188863 -74.73025663 
    6146 -0.00402411 -0.00016658 0.99999189 -7.44055541 
    6147 Axis -0.00237866 0.00877453 0.99995867 
    6148 Axis point 223.26248207 222.07311904 0.00000000 
    6149 Rotation angle (degrees) 25.59529472 
    6150 Shift along axis -8.37632790 
    6151  
    6152 
    6153 > fitmap #6 inMap #2
    6154 
    6155 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) to map
    6156 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6157 average map value = 0.2107, steps = 76 
    6158 shifted from previous position = 6.42 
    6159 rotated from previous position = 3.77 degrees 
    6160 atoms outside contour = 8792, contour level = 0.228 
    6161  
    6162 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) relative to
    6163 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6164 Matrix rotation and translation 
    6165 0.89927581 -0.43736394 0.00397652 120.21648837 
    6166 0.43735856 0.89928457 0.00218009 -76.65766086 
    6167 -0.00452951 -0.00022134 0.99998972 -88.42217994 
    6168 Axis -0.00274523 0.00972376 0.99994895 
    6169 Axis point 224.54330296 222.59234931 0.00000000 
    6170 Rotation angle (degrees) 25.93706162 
    6171 Shift along axis -89.49308936 
    6172  
    6173 
    6174 > fitmap #6 inMap #2
    6175 
    6176 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) to map
    6177 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6178 average map value = 0.2107, steps = 28 
    6179 shifted from previous position = 0.0192 
    6180 rotated from previous position = 0.0148 degrees 
    6181 atoms outside contour = 8796, contour level = 0.228 
    6182  
    6183 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) relative to
    6184 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6185 Matrix rotation and translation 
    6186 0.89933439 -0.43724539 0.00375689 120.24269167 
    6187 0.43724018 0.89934219 0.00215515 -76.65069961 
    6188 -0.00432106 -0.00029554 0.99999062 -88.41900835 
    6189 Axis -0.00280231 0.00923693 0.99995341 
    6190 Axis point 224.68371772 222.69891567 0.00000000 
    6191 Rotation angle (degrees) 25.92938976 
    6192 Shift along axis -89.45986421 
    6193  
    6194 
    6195 > hide #!1 models
    6196 
    6197 > fitmap #4 inMap #2
    6198 
    6199 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) to map
    6200 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6201 average map value = 0.1827, steps = 48 
    6202 shifted from previous position = 0.00491 
    6203 rotated from previous position = 0.0248 degrees 
    6204 atoms outside contour = 9446, contour level = 0.228 
    6205  
    6206 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) relative to
    6207 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6208 Matrix rotation and translation 
    6209 0.90928978 0.41614780 -0.00361878 -71.41091068 
    6210 -0.41615838 0.90928743 -0.00292816 113.12518140 
    6211 0.00207197 0.00416853 0.99998917 -73.99873420 
    6212 Axis 0.00852602 -0.00683692 -0.99994028 
    6213 Axis point 224.62336106 222.05003957 0.00000000 
    6214 Rotation angle (degrees) 24.59351935 
    6215 Shift along axis 72.61203568 
    6216  
    6217 
    6218 > fitmap #5 inMap #2
    6219 
    6220 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) to map
    6221 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6222 average map value = 0.2277, steps = 40 
    6223 shifted from previous position = 0.00381 
    6224 rotated from previous position = 0.015 degrees 
    6225 atoms outside contour = 8516, contour level = 0.228 
    6226  
    6227 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) relative to
    6228 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6229 Matrix rotation and translation 
    6230 0.99996338 -0.00800961 -0.00301512 2.92297229 
    6231 0.00800299 0.99996555 -0.00220346 -2.56635404 
    6232 0.00303267 0.00217925 0.99999303 -81.74918750 
    6233 Axis 0.24804734 -0.34228600 0.90626310 
    6234 Axis point 3431.91464568 2593.93915056 0.00000000 
    6235 Rotation angle (degrees) 0.50618108 
    6236 Shift along axis -72.48280982 
    6237  
    6238 
    6239 > fitmap #6 inMap #2
    6240 
    6241 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) to map
    6242 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6243 average map value = 0.2107, steps = 40 
    6244 shifted from previous position = 0.00122 
    6245 rotated from previous position = 0.00961 degrees 
    6246 atoms outside contour = 8796, contour level = 0.228 
    6247  
    6248 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#6) relative to
    6249 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6250 Matrix rotation and translation 
    6251 0.89926721 -0.43738392 0.00371449 120.28172204 
    6252 0.43737894 0.89927484 0.00210421 -76.64623236 
    6253 -0.00426070 -0.00026761 0.99999089 -88.42975218 
    6254 Axis -0.00271127 0.00911655 0.99995477 
    6255 Axis point 224.66308739 222.70653660 0.00000000 
    6256 Rotation angle (degrees) 25.93818546 
    6257 Shift along axis -89.45061771 
    6258  
    6259 
    6260 > fitmap #7 inMap #2
    6261 
    6262 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#7) to map
    6263 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6264 average map value = 0.2313, steps = 44 
    6265 shifted from previous position = 0.0157 
    6266 rotated from previous position = 0.0186 degrees 
    6267 atoms outside contour = 8391, contour level = 0.228 
    6268  
    6269 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#7) relative to
    6270 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6271 Matrix rotation and translation 
    6272 0.99999562 -0.00102630 -0.00277473 0.72291447 
    6273 0.00101879 0.99999582 -0.00270701 0.31246423 
    6274 0.00277750 0.00270417 0.99999249 -0.74092397 
    6275 Axis 0.67486817 -0.69245785 0.25505897 
    6276 Axis point 274.98731741 0.00000000 240.02994251 
    6277 Rotation angle (degrees) 0.22970342 
    6278 Shift along axis 0.08252435 
    6279  
    6280 
    6281 > fitmap #8 inMap #2
    6282 
    6283 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#8) to map
    6284 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6285 average map value = 0.1816, steps = 44 
    6286 shifted from previous position = 0.00457 
    6287 rotated from previous position = 0.00164 degrees 
    6288 atoms outside contour = 9523, contour level = 0.228 
    6289  
    6290 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#8) relative to
    6291 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6292 Matrix rotation and translation 
    6293 0.90625709 0.42269715 -0.00502122 -72.37947487 
    6294 -0.42271656 0.90625420 -0.00374681 116.59274764 
    6295 0.00296674 0.00551813 0.99998037 6.67969942 
    6296 Axis 0.01095791 -0.00944759 -0.99989533 
    6297 Axis point 226.55851759 221.25481916 0.00000000 
    6298 Rotation angle (degrees) 25.00839837 
    6299 Shift along axis -8.57364900 
    6300  
    6301 
    6302 > fitmap #9 inMap #2
    6303 
    6304 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#9) to map
    6305 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    6306 average map value = 0.2068, steps = 36 
    6307 shifted from previous position = 0.00541 
    6308 rotated from previous position = 0.0098 degrees 
    6309 atoms outside contour = 8862, contour level = 0.228 
    6310  
    6311 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#9) relative to
    6312 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6313 Matrix rotation and translation 
    6314 0.90186365 -0.43200678 0.00347788 117.88500322 
    6315 0.43200329 0.90187035 0.00173774 -74.69689225 
    6316 -0.00388731 -0.00006475 0.99999244 -7.46810848 
    6317 Axis -0.00208611 0.00852410 0.99996149 
    6318 Axis point 223.20119566 222.13408793 0.00000000 
    6319 Rotation angle (degrees) 25.59592919 
    6320 Shift along axis -8.35046606 
    6321  
    6322 
    6323 > select clear
    6324 
    6325 > combine #4-9
    6326 
    6327 Remapping chain ID 'B' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'C' 
    6328 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'N' 
    6329 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'Nu' 
    6330 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'b' 
    6331 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'nu' 
    6332 Remapping chain ID 'B' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'D' 
    6333 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'O' 
    6334 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'Nv' 
    6335 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'c' 
    6336 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'nv' 
    6337 Remapping chain ID 'B' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'E' 
    6338 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'P' 
    6339 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'Nw' 
    6340 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'd' 
    6341 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'nw' 
    6342 Remapping chain ID 'B' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'F' 
    6343 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Q' 
    6344 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Nx' 
    6345 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'e' 
    6346 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'nx' 
    6347 Remapping chain ID 'B' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'G' 
    6348 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'R' 
    6349 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'Ny' 
    6350 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'f' 
    6351 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'ny' 
    6352 
    6353 > hide #!4-9 target m
    6354 
    6355 > hide #!3 models
    6356 
    6357 > hide #!2 models
    6358 
    6359 > show #!2 models
    6360 
    6361 > hide #!2 models
    6362 
    6363 > show #!2 models
    6364 
    6365 > hide #!2 models
    6366 
    6367 > show #!2 models
    6368 
    6369 > split #10
    6370 
    6371 Split combination (#10) into 30 models 
    6372 Chain information for combination B #10.1 
    6373 --- 
    6374 Chain | Description 
    6375 B | No description available 
    6376  
    6377 Chain information for combination C #10.2 
    6378 --- 
    6379 Chain | Description 
    6380 C | No description available 
    6381  
    6382 Chain information for combination D #10.3 
    6383 --- 
    6384 Chain | Description 
    6385 D | No description available 
    6386  
    6387 Chain information for combination E #10.4 
    6388 --- 
    6389 Chain | Description 
    6390 E | No description available 
    6391  
    6392 Chain information for combination F #10.5 
    6393 --- 
    6394 Chain | Description 
    6395 F | No description available 
    6396  
    6397 Chain information for combination G #10.6 
    6398 --- 
    6399 Chain | Description 
    6400 G | No description available 
    6401  
    6402 Chain information for combination a #10.19 
    6403 --- 
    6404 Chain | Description 
    6405 a | No description available 
    6406  
    6407 Chain information for combination b #10.20 
    6408 --- 
    6409 Chain | Description 
    6410 b | No description available 
    6411  
    6412 Chain information for combination c #10.21 
    6413 --- 
    6414 Chain | Description 
    6415 c | No description available 
    6416  
    6417 Chain information for combination d #10.22 
    6418 --- 
    6419 Chain | Description 
    6420 d | No description available 
    6421  
    6422 Chain information for combination e #10.23 
    6423 --- 
    6424 Chain | Description 
    6425 e | No description available 
    6426  
    6427 Chain information for combination f #10.24 
    6428 --- 
    6429 Chain | Description 
    6430 f | No description available 
    6431  
    6432 
    6433 > fitmap #10 #3 eachModel true
    6434 
    6435 Missing required "in_map" argument 
    6436 Must specify one map, got 0 
    6437 Must specify one map, got 0 
    6438 
    6439 > fitmap #10 inMap #2 eachModel true
    6440 
    6441 Fit molecule combination B (#10.1) to map
    6442 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6443 average map value = 0.1856, steps = 48 
    6444 shifted from previous position = 0.118 
    6445 rotated from previous position = 0.303 degrees 
    6446 atoms outside contour = 4617, contour level = 0.228 
    6447  
    6448 Position of combination B (#10.1) relative to
    6449 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6450 Matrix rotation and translation 
    6451 0.90856223 0.41774747 0.00131220 -72.45859781 
    6452 -0.41774068 0.90855895 -0.00365354 113.61423851 
    6453 -0.00271846 0.00277131 0.99999246 -73.20969250 
    6454 Axis 0.00768961 0.00482412 -0.99995880 
    6455 Axis point 222.21854498 223.43792249 0.00000000 
    6456 Rotation angle (degrees) 24.69332879 
    6457 Shift along axis 73.19758639 
    6458  
    6459 Fit molecule combination C (#10.2) to map
    6460 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6461 average map value = 0.2259, steps = 44 
    6462 shifted from previous position = 0.0358 
    6463 rotated from previous position = 0.124 degrees 
    6464 atoms outside contour = 4197, contour level = 0.228 
    6465  
    6466 Position of combination C (#10.2) relative to
    6467 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6468 Matrix rotation and translation 
    6469 0.90841180 0.41805997 -0.00372220 -71.48911868 
    6470 -0.41806992 0.90841152 -0.00246033 113.48008830 
    6471 0.00235273 0.00379113 0.99999005 -74.00456354 
    6472 Axis 0.00747626 -0.00726513 -0.99994566 
    6473 Axis point 224.19352647 221.41724436 0.00000000 
    6474 Rotation angle (degrees) 24.71391262 
    6475 Shift along axis 72.64162276 
    6476  
    6477 Fit molecule combination D (#10.3) to map
    6478 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6479 average map value = 0.2103, steps = 36 
    6480 shifted from previous position = 0.0972 
    6481 rotated from previous position = 0.207 degrees 
    6482 atoms outside contour = 4323, contour level = 0.228 
    6483  
    6484 Position of combination D (#10.3) relative to
    6485 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6486 Matrix rotation and translation 
    6487 0.90846584 0.41791405 -0.00613712 -71.03049628 
    6488 -0.41792839 0.90847916 -0.00121646 113.29141762 
    6489 0.00506708 0.00366999 0.99998043 -74.60713379 
    6490 Axis 0.00584551 -0.01340325 -0.99989309 
    6491 Axis point 225.16655815 220.29815584 0.00000000 
    6492 Rotation angle (degrees) 24.70623321 
    6493 Shift along axis 72.66547535 
    6494  
    6495 Fit molecule combination E (#10.4) to map
    6496 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6497 average map value = 0.2277, steps = 48 
    6498 shifted from previous position = 0.0821 
    6499 rotated from previous position = 0.245 degrees 
    6500 atoms outside contour = 4147, contour level = 0.228 
    6501  
    6502 Position of combination E (#10.4) relative to
    6503 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6504 Matrix rotation and translation 
    6505 0.90760803 0.41978943 -0.00494892 -71.23798631 
    6506 -0.41980792 0.90760596 -0.00356842 114.13288484 
    6507 0.00299369 0.00531632 0.99998139 -74.34404603 
    6508 Axis 0.01058107 -0.00945907 -0.99989928 
    6509 Axis point 224.86017439 221.01657486 0.00000000 
    6510 Rotation angle (degrees) 24.82454721 
    6511 Shift along axis 72.50319218 
    6512  
    6513 Fit molecule combination F (#10.5) to map
    6514 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6515 average map value = 0.1861, steps = 48 
    6516 shifted from previous position = 0.117 
    6517 rotated from previous position = 0.321 degrees 
    6518 atoms outside contour = 4633, contour level = 0.228 
    6519  
    6520 Position of combination F (#10.5) relative to
    6521 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6522 Matrix rotation and translation 
    6523 0.90886080 0.41709533 0.00188102 -72.96251634 
    6524 -0.41708981 0.90886114 -0.00274199 113.27406769 
    6525 -0.00285325 0.00170754 0.99999447 -73.03957239 
    6526 Axis 0.00533382 0.00567515 -0.99996967 
    6527 Axis point 221.57616952 224.28377039 0.00000000 
    6528 Rotation angle (degrees) 24.65196237 
    6529 Shift along axis 73.29103580 
    6530  
    6531 Fit molecule combination G (#10.6) to map
    6532 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6533 average map value = 0.2085, steps = 40 
    6534 shifted from previous position = 0.104 
    6535 rotated from previous position = 0.18 degrees 
    6536 atoms outside contour = 4329, contour level = 0.228 
    6537  
    6538 Position of combination G (#10.6) relative to
    6539 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6540 Matrix rotation and translation 
    6541 0.90834012 0.41820221 -0.00501391 -71.13412774 
    6542 -0.41821275 0.90834828 -0.00122854 113.22854144 
    6543 0.00404059 0.00321281 0.99998668 -74.36842227 
    6544 Axis 0.00530960 -0.01082458 -0.99992732 
    6545 Axis point 224.37104405 220.19557474 0.00000000 
    6546 Rotation angle (degrees) 24.72338719 
    6547 Shift along axis 72.75967100 
    6548  
    6549 Fit molecule combination M (#10.7) to map
    6550 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    6551 average map value = 1.074, steps = 60 
    6552 shifted from previous position = 3.74 
    6553 rotated from previous position = 0 degrees 
    6554 atoms outside contour = 0, contour level = 0.228 
    6555  
    6556 Position of combination M (#10.7) relative to
    6557 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6558 Matrix rotation and translation 
    6559 0.90928978 0.41614780 -0.00361878 -74.20933506 
    6560 -0.41615838 0.90928743 -0.00292816 113.43152161 
    6561 0.00207197 0.00416853 0.99998917 -71.53435666 
    6562 Axis 0.00852602 -0.00683692 -0.99994028 
    6563 Axis point 223.89833435 228.56557478 0.00000000 
    6564 Rotation angle (degrees) 24.59351935 
    6565 Shift along axis 70.12185146 
    6566  
    6567 Fit molecule combination N (#10.8) to map
    6568 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    6569 average map value = 1.121, steps = 60 
    6570 shifted from previous position = 3.39 
    6571 rotated from previous position = 0 degrees 
    6572 atoms outside contour = 0, contour level = 0.228 
    6573  
    6574 Position of combination N (#10.8) relative to
    6575 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6576 Matrix rotation and translation 
    6577 0.90928978 0.41614780 -0.00361878 -73.18594767 
    6578 -0.41615838 0.90928743 -0.00292816 113.07289435 
    6579 0.00207197 0.00416853 0.99998917 -71.11045068 
    6580 Axis 0.00852602 -0.00683692 -0.99994028 
    6581 Axis point 223.58268335 226.02912291 0.00000000 
    6582 Rotation angle (degrees) 24.59351935 
    6583 Shift along axis 69.70914813 
    6584  
    6585 Fit molecule combination Nt (#10.9) to map
    6586 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    6587 average map value = 0.4218, steps = 56 
    6588 shifted from previous position = 0.377 
    6589 rotated from previous position = 25.8 degrees 
    6590 atoms outside contour = 12, contour level = 0.228 
    6591  
    6592 Position of combination Nt (#10.9) relative to
    6593 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6594 Matrix rotation and translation 
    6595 0.80616691 0.42674619 0.40985682 -138.74654998 
    6596 -0.40861688 0.90251929 -0.13598227 138.25381467 
    6597 -0.42793360 -0.05785001 0.90195688 8.93206795 
    6598 Axis 0.06589677 0.70659271 -0.70454550 
    6599 Axis point 68.30381417 0.00000000 384.05194148 
    6600 Rotation angle (degrees) 36.35868068 
    6601 Shift along axis 82.25314023 
    6602  
    6603 Fit molecule combination Nu (#10.10) to map
    6604 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    6605 average map value = 0.4531, steps = 48 
    6606 shifted from previous position = 0.337 
    6607 rotated from previous position = 6.89 degrees 
    6608 atoms outside contour = 15, contour level = 0.228 
    6609  
    6610 Position of combination Nu (#10.10) relative to
    6611 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6612 Matrix rotation and translation 
    6613 0.89660600 0.42771262 0.11471525 -92.03697372 
    6614 -0.43144064 0.90209981 0.00865446 114.22015120 
    6615 -0.09978298 -0.05725246 0.99336072 -48.61268252 
    6616 Axis -0.07422169 0.24155918 -0.96754344 
    6617 Axis point 164.49055982 240.81224848 0.00000000 
    6618 Rotation angle (degrees) 26.35854046 
    6619 Shift along axis 81.45694823 
    6620  
    6621 Fit molecule combination Nv (#10.11) to map
    6622 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    6623 average map value = 0.436, steps = 52 
    6624 shifted from previous position = 1.14 
    6625 rotated from previous position = 5.11 degrees 
    6626 atoms outside contour = 13, contour level = 0.228 
    6627  
    6628 Position of combination Nv (#10.11) relative to
    6629 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6630 Matrix rotation and translation 
    6631 0.92261392 0.37979103 0.06739682 -82.26997792 
    6632 -0.37790961 0.92500986 -0.03925676 110.29876059 
    6633 -0.07725209 0.01074893 0.99695365 -56.42770740 
    6634 Axis 0.06469014 0.18712586 -0.98020360 
    6635 Axis point 203.30124948 270.07383924 0.00000000 
    6636 Rotation angle (degrees) 22.73699698 
    6637 Shift along axis 70.62833656 
    6638  
    6639 Fit molecule combination Nw (#10.12) to map
    6640 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    6641 average map value = 0.4695, steps = 48 
    6642 shifted from previous position = 0.111 
    6643 rotated from previous position = 3.82 degrees 
    6644 atoms outside contour = 11, contour level = 0.228 
    6645  
    6646 Position of combination Nw (#10.12) relative to
    6647 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6648 Matrix rotation and translation 
    6649 0.90552068 0.42070578 0.05512666 -86.83096373 
    6650 -0.42256964 0.90590837 0.02765718 106.40887665 
    6651 -0.03830417 -0.04833900 0.99809625 -60.52961345 
    6652 Axis -0.08921496 0.10968220 -0.98995480 
    6653 Axis point 180.00879263 229.99402096 0.00000000 
    6654 Rotation angle (degrees) 25.20866476 
    6655 Shift along axis 79.33936171 
    6656  
    6657 Fit molecule combination Nx (#10.13) to map
    6658 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    6659 average map value = 0.448, steps = 52 
    6660 shifted from previous position = 0.365 
    6661 rotated from previous position = 24.6 degrees 
    6662 atoms outside contour = 11, contour level = 0.228 
    6663  
    6664 Position of combination Nx (#10.13) relative to
    6665 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6666 Matrix rotation and translation 
    6667 0.80604779 0.44737797 0.38747892 -169.36782338 
    6668 -0.42770804 0.89283321 -0.14111939 154.45884113 
    6669 -0.40908776 -0.05197888 0.91101339 10.82197215 
    6670 Axis 0.07511675 0.67124922 -0.73741573 
    6671 Axis point 119.56929163 444.34813777 0.00000000 
    6672 Rotation angle (degrees) 36.39484390 
    6673 Shift along axis 82.97772220 
    6674  
    6675 Fit molecule combination Ny (#10.14) to map
    6676 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    6677 average map value = 0.4045, steps = 68 
    6678 shifted from previous position = 0.552 
    6679 rotated from previous position = 1.74 degrees 
    6680 atoms outside contour = 16, contour level = 0.228 
    6681  
    6682 Position of combination Ny (#10.14) relative to
    6683 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6684 Matrix rotation and translation 
    6685 0.91967062 0.39269058 -0.00023709 -71.51290318 
    6686 -0.39262523 0.91950622 -0.01880779 110.97235066 
    6687 -0.00716763 0.01739006 0.99982309 -73.33260200 
    6688 Axis 0.04604269 0.00881547 -0.99890057 
    6689 Axis point 232.26798631 237.94052953 0.00000000 
    6690 Rotation angle (degrees) 23.14691008 
    6691 Shift along axis 70.93760504 
    6692  
    6693 Fit molecule combination O (#10.15) to map
    6694 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    6695 average map value = 1.017, steps = 60 
    6696 shifted from previous position = 3.99 
    6697 rotated from previous position = 0 degrees 
    6698 atoms outside contour = 0, contour level = 0.228 
    6699  
    6700 Position of combination O (#10.15) relative to
    6701 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6702 Matrix rotation and translation 
    6703 0.90928978 0.41614780 -0.00361878 -73.20523421 
    6704 -0.41615838 0.90928743 -0.00292816 111.18782736 
    6705 0.00207197 0.00416853 0.99998917 -71.00271048 
    6706 Axis 0.00852602 -0.00683692 -0.99994028 
    6707 Axis point 219.24772724 225.12860553 0.00000000 
    6708 Rotation angle (degrees) 24.59351935 
    6709 Shift along axis 69.61413799 
    6710  
    6711 Fit molecule combination P (#10.16) to map
    6712 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    6713 average map value = 1.02, steps = 56 
    6714 shifted from previous position = 3.08 
    6715 rotated from previous position = 0 degrees 
    6716 atoms outside contour = 0, contour level = 0.228 
    6717  
    6718 Position of combination P (#10.16) relative to
    6719 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6720 Matrix rotation and translation 
    6721 0.90928978 0.41614780 -0.00361878 -73.16527361 
    6722 -0.41615838 0.90928743 -0.00292816 112.39091563 
    6723 0.00207197 0.00416853 0.99998917 -71.57271029 
    6724 Axis 0.00852602 -0.00683692 -0.99994028 
    6725 Axis point 222.03393815 225.65142342 0.00000000 
    6726 Rotation angle (degrees) 24.59351935 
    6727 Shift along axis 70.17621904 
    6728  
    6729 Fit molecule combination Q (#10.17) to map
    6730 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    6731 average map value = 0.9125, steps = 52 
    6732 shifted from previous position = 2.84 
    6733 rotated from previous position = 0 degrees 
    6734 atoms outside contour = 0, contour level = 0.228 
    6735  
    6736 Position of combination Q (#10.17) relative to
    6737 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6738 Matrix rotation and translation 
    6739 0.90928978 0.41614780 -0.00361878 -72.76481018 
    6740 -0.41615838 0.90928743 -0.00292816 113.62907102 
    6741 0.00207197 0.00416853 0.99998917 -71.54917300 
    6742 Axis 0.00852602 -0.00683692 -0.99994028 
    6743 Axis point 225.07410986 225.35121152 0.00000000 
    6744 Rotation angle (degrees) 24.59351935 
    6745 Shift along axis 70.14763235 
    6746  
    6747 Fit molecule combination R (#10.18) to map
    6748 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    6749 average map value = 1.119, steps = 100 
    6750 shifted from previous position = 4.45 
    6751 rotated from previous position = 0 degrees 
    6752 atoms outside contour = 0, contour level = 0.228 
    6753  
    6754 Position of combination R (#10.18) relative to
    6755 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6756 Matrix rotation and translation 
    6757 0.90928978 0.41614780 -0.00361878 -73.77314814 
    6758 -0.41615838 0.90928743 -0.00292816 112.32889120 
    6759 0.00207197 0.00416853 0.99998917 -70.30660236 
    6760 Axis 0.00852602 -0.00683692 -0.99994028 
    6761 Axis point 221.57318595 226.98567245 0.00000000 
    6762 Rotation angle (degrees) 24.59351935 
    6763 Shift along axis 68.90542803 
    6764  
    6765 Fit molecule combination a (#10.19) to map
    6766 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    6767 average map value = 0.1785, steps = 48 
    6768 shifted from previous position = 0.0904 
    6769 rotated from previous position = 0.354 degrees 
    6770 atoms outside contour = 4777, contour level = 0.228 
    6771  
    6772 Position of combination a (#10.19) relative to
    6773 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6774 Matrix rotation and translation 
    6775 0.90952886 0.41563963 -0.00097397 -72.10041078 
    6776 -0.41563608 0.90952723 0.00262122 111.65053740 
    6777 0.00197533 -0.00197926 0.99999609 -73.05988315 
    6778 Axis -0.00553413 -0.00354784 -0.99997839 
    6779 Axis point 221.22019854 220.64817031 0.00000000 
    6780 Rotation angle (degrees) 24.56005735 
    6781 Shift along axis 73.06119923 
    6782  
    6783 Fit molecule combination b (#10.20) to map
    6784 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    6785 average map value = 0.2266, steps = 48 
    6786 shifted from previous position = 0.0353 
    6787 rotated from previous position = 0.262 degrees 
    6788 atoms outside contour = 4310, contour level = 0.228 
    6789  
    6790 Position of combination b (#10.20) relative to
    6791 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6792 Matrix rotation and translation 
    6793 0.90973018 0.41514705 -0.00662710 -70.64433653 
    6794 -0.41515411 0.90975104 0.00033682 112.10146925 
    6795 0.00616884 0.00244485 0.99997798 -74.45483545 
    6796 Axis 0.00253857 -0.01540932 -0.99987805 
    6797 Axis point 224.99261610 219.53311262 0.00000000 
    6798 Rotation angle (degrees) 24.53198871 
    6799 Shift along axis 72.53901263 
    6800  
    6801 Fit molecule combination c (#10.21) to map
    6802 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    6803 average map value = 0.2097, steps = 48 
    6804 shifted from previous position = 0.0862 
    6805 rotated from previous position = 0.505 degrees 
    6806 atoms outside contour = 4429, contour level = 0.228 
    6807  
    6808 Position of combination c (#10.21) relative to
    6809 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6810 Matrix rotation and translation 
    6811 0.90936721 0.41581517 -0.01220724 -69.34182733 
    6812 -0.41585667 0.90942966 -0.00096416 112.58113962 
    6813 0.01070071 0.00595324 0.99992502 -76.03681029 
    6814 Axis 0.00831403 -0.02753306 -0.99958632 
    6815 Axis point 228.04980749 217.91403935 0.00000000 
    6816 Rotation angle (degrees) 24.58281204 
    6817 Shift along axis 72.32914190 
    6818  
    6819 Fit molecule combination d (#10.22) to map
    6820 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    6821 average map value = 0.2324, steps = 40 
    6822 shifted from previous position = 0.0447 
    6823 rotated from previous position = 0.308 degrees 
    6824 atoms outside contour = 4190, contour level = 0.228 
    6825  
    6826 Position of combination d (#10.22) relative to
    6827 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6828 Matrix rotation and translation 
    6829 0.91010358 0.41432092 -0.00704616 -70.20582340 
    6830 -0.41432671 0.91012796 0.00068572 111.54853368 
    6831 0.00669702 0.00229533 0.99997494 -74.51276825 
    6832 Axis 0.00194218 -0.01658275 -0.99986061 
    6833 Axis point 224.72548010 218.54720469 0.00000000 
    6834 Rotation angle (degrees) 24.48037757 
    6835 Shift along axis 72.51624789 
    6836  
    6837 Fit molecule combination e (#10.23) to map
    6838 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    6839 average map value = 0.1755, steps = 44 
    6840 shifted from previous position = 0.126 
    6841 rotated from previous position = 0.352 degrees 
    6842 atoms outside contour = 4846, contour level = 0.228 
    6843  
    6844 Position of combination e (#10.23) relative to
    6845 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6846 Matrix rotation and translation 
    6847 0.90959606 0.41549344 -0.00045561 -72.50176212 
    6848 -0.41549146 0.90959422 0.00228300 111.27544500 
    6849 0.00136299 -0.00188731 0.99999729 -72.96282638 
    6850 Axis -0.00501844 -0.00218846 -0.99998501 
    6851 Axis point 220.00943368 221.48297554 0.00000000 
    6852 Rotation angle (degrees) 24.55072445 
    6853 Shift along axis 73.08205675 
    6854  
    6855 Fit molecule combination f (#10.24) to map
    6856 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    6857 average map value = 0.2043, steps = 48 
    6858 shifted from previous position = 0.0826 
    6859 rotated from previous position = 0.539 degrees 
    6860 atoms outside contour = 4483, contour level = 0.228 
    6861  
    6862 Position of combination f (#10.24) relative to
    6863 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6864 Matrix rotation and translation 
    6865 0.90940990 0.41570493 -0.01276912 -68.47308569 
    6866 -0.41574825 0.90947937 -0.00082333 112.35465745 
    6867 0.01127099 0.00605748 0.99991813 -76.14029759 
    6868 Axis 0.00827190 -0.02890030 -0.99954807 
    6869 Axis point 228.26496082 215.89743424 0.00000000 
    6870 Rotation angle (degrees) 24.57692330 
    6871 Shift along axis 72.29240204 
    6872  
    6873 Fit molecule combination nt (#10.25) to map
    6874 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    6875 average map value = 0.448, steps = 80 
    6876 shifted from previous position = 0.698 
    6877 rotated from previous position = 29.8 degrees 
    6878 atoms outside contour = 15, contour level = 0.228 
    6879  
    6880 Position of combination nt (#10.25) relative to
    6881 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6882 Matrix rotation and translation 
    6883 0.85560450 0.26168898 0.44660925 -144.83446021 
    6884 -0.21815367 0.96472727 -0.14734409 112.69354848 
    6885 -0.46941444 0.02863882 0.88251340 9.48242345 
    6886 Axis 0.16776885 0.87326796 -0.45744582 
    6887 Axis point 0.43498194 0.00000000 350.64966867 
    6888 Rotation angle (degrees) 31.63326406 
    6889 Shift along axis 69.77525988 
    6890  
    6891 Fit molecule combination nu (#10.26) to map
    6892 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    6893 average map value = 0.5339, steps = 48 
    6894 shifted from previous position = 0.382 
    6895 rotated from previous position = 3.95 degrees 
    6896 atoms outside contour = 15, contour level = 0.228 
    6897  
    6898 Position of combination nu (#10.26) relative to
    6899 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6900 Matrix rotation and translation 
    6901 0.92463087 0.37738666 0.05135237 -81.31758102 
    6902 -0.37784159 0.92586981 -0.00091358 104.41182953 
    6903 -0.04789038 -0.01855834 0.99868018 -62.83622997 
    6904 Axis -0.02315813 0.13025260 -0.99121035 
    6905 Axis point 200.34055852 250.71404816 0.00000000 
    6906 Rotation angle (degrees) 22.39332428 
    6907 Shift along axis 77.76699657 
    6908  
    6909 Fit molecule combination nv (#10.27) to map
    6910 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    6911 average map value = 0.4159, steps = 68 
    6912 shifted from previous position = 0.533 
    6913 rotated from previous position = 9.42 degrees 
    6914 atoms outside contour = 17, contour level = 0.228 
    6915  
    6916 Position of combination nv (#10.27) relative to
    6917 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6918 Matrix rotation and translation 
    6919 0.83831842 0.53820258 -0.08694942 -50.32844541 
    6920 -0.54062255 0.84124926 -0.00519064 147.97494329 
    6921 0.07035252 0.05135822 0.99619921 -92.69125234 
    6922 Axis 0.05179898 -0.14408919 -0.98820806 
    6923 Axis point 241.10704368 172.45594180 0.00000000 
    6924 Rotation angle (degrees) 33.08271327 
    6925 Shift along axis 67.66969117 
    6926  
    6927 Fit molecule combination nw (#10.28) to map
    6928 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    6929 average map value = 0.4921, steps = 60 
    6930 shifted from previous position = 0.337 
    6931 rotated from previous position = 1.79 degrees 
    6932 atoms outside contour = 15, contour level = 0.228 
    6933  
    6934 Position of combination nw (#10.28) relative to
    6935 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6936 Matrix rotation and translation 
    6937 0.91644614 0.39971760 0.01876985 -77.13359508 
    6938 -0.39993344 0.91649496 0.00949912 105.71683789 
    6939 -0.01340551 -0.01621212 0.99977871 -69.03877846 
    6940 Axis -0.03211052 0.04018349 -0.99867622 
    6941 Axis point 208.60580025 230.49657860 0.00000000 
    6942 Rotation angle (degrees) 23.60040447 
    6943 Shift along axis 75.67225796 
    6944  
    6945 Fit molecule combination nx (#10.29) to map
    6946 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    6947 average map value = 0.4107, steps = 72 
    6948 shifted from previous position = 1.55 
    6949 rotated from previous position = 25.7 degrees 
    6950 atoms outside contour = 17, contour level = 0.228 
    6951  
    6952 Position of combination nx (#10.29) relative to
    6953 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6954 Matrix rotation and translation 
    6955 0.88318469 0.26749340 0.38526885 -165.36860977 
    6956 -0.23788891 0.96340122 -0.12355951 119.91915233 
    6957 -0.40421984 0.01747468 0.91449492 2.24660493 
    6958 Axis 0.14877932 0.83284480 -0.53313624 
    6959 Axis point 6.02218437 0.00000000 459.65980041 
    6960 Rotation angle (degrees) 28.29237781 
    6961 Shift along axis 74.07286677 
    6962  
    6963 Fit molecule combination ny (#10.30) to map
    6964 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    6965 average map value = 0.3749, steps = 60 
    6966 shifted from previous position = 0.27 
    6967 rotated from previous position = 6.07 degrees 
    6968 atoms outside contour = 17, contour level = 0.228 
    6969  
    6970 Position of combination ny (#10.30) relative to
    6971 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6972 Matrix rotation and translation 
    6973 0.88098155 0.46735459 -0.07383225 -49.62521202 
    6974 -0.47148310 0.88021208 -0.05413297 143.41431711 
    6975 0.03968875 0.08250080 0.99580039 -89.03503240 
    6976 Axis 0.14299778 -0.11880848 -0.98256612 
    6977 Axis point 270.72174857 194.50899727 0.00000000 
    6978 Rotation angle (degrees) 28.53841323 
    6979 Shift along axis 63.34767344 
    6980  
    6981 
    6982 > fitmap #10 inMap #2 eachModel true
    6983 
    6984 Fit molecule combination B (#10.1) to map
    6985 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    6986 average map value = 0.1856, steps = 40 
    6987 shifted from previous position = 0.0202 
    6988 rotated from previous position = 0.0514 degrees 
    6989 atoms outside contour = 4614, contour level = 0.228 
    6990  
    6991 Position of combination B (#10.1) relative to
    6992 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    6993 Matrix rotation and translation 
    6994 0.90849900 0.41788571 0.00104788 -72.41877733 
    6995 -0.41788162 0.90849714 -0.00280979 113.48845139 
    6996 -0.00212617 0.00211480 0.99999550 -73.18992727 
    6997 Axis 0.00589216 0.00379768 -0.99997543 
    6998 Axis point 222.09399755 222.96015086 0.00000000 
    6999 Rotation angle (degrees) 24.70169393 
    7000 Shift along axis 73.19241890 
    7001  
    7002 Fit molecule combination C (#10.2) to map
    7003 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7004 average map value = 0.2259, steps = 44 
    7005 shifted from previous position = 0.00159 
    7006 rotated from previous position = 0.035 degrees 
    7007 atoms outside contour = 4198, contour level = 0.228 
    7008  
    7009 Position of combination C (#10.2) relative to
    7010 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7011 Matrix rotation and translation 
    7012 0.90830133 0.41830372 -0.00326849 -71.58804993 
    7013 -0.41831258 0.90829891 -0.00276970 113.59482967 
    7014 0.00181019 0.00388297 0.99999082 -73.92349900 
    7015 Axis 0.00795147 -0.00607019 -0.99994996 
    7016 Axis point 224.02436028 221.62974438 0.00000000 
    7017 Rotation angle (degrees) 24.72914038 
    7018 Shift along axis 72.66102751 
    7019  
    7020 Fit molecule combination D (#10.3) to map
    7021 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7022 average map value = 0.2103, steps = 40 
    7023 shifted from previous position = 0.0143 
    7024 rotated from previous position = 0.0215 degrees 
    7025 atoms outside contour = 4328, contour level = 0.228 
    7026  
    7027 Position of combination D (#10.3) relative to
    7028 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7029 Matrix rotation and translation 
    7030 0.90844255 0.41796985 -0.00577346 -71.09897180 
    7031 -0.41798256 0.90845433 -0.00114680 113.29558010 
    7032 0.00476559 0.00345501 0.99998268 -74.53374721 
    7033 Axis 0.00550436 -0.01260605 -0.99990539 
    7034 Axis point 224.98624931 220.34686037 0.00000000 
    7035 Rotation angle (degrees) 24.70937699 
    7036 Shift along axis 72.70713190 
    7037  
    7038 Fit molecule combination E (#10.4) to map
    7039 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7040 average map value = 0.2277, steps = 36 
    7041 shifted from previous position = 0.0217 
    7042 rotated from previous position = 0.0181 degrees 
    7043 atoms outside contour = 4141, contour level = 0.228 
    7044  
    7045 Position of combination E (#10.4) relative to
    7046 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7047 Matrix rotation and translation 
    7048 0.90772138 0.41954389 -0.00498150 -71.21600829 
    7049 -0.41956304 0.90771854 -0.00372973 114.12370596 
    7050 0.00295702 0.00547561 0.99998064 -74.33497807 
    7051 Axis 0.01096924 -0.00945968 -0.99989509 
    7052 Axis point 225.00309564 221.13034346 0.00000000 
    7053 Rotation angle (degrees) 24.80917775 
    7054 Shift along axis 72.46642020 
    7055  
    7056 Fit molecule combination F (#10.5) to map
    7057 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7058 average map value = 0.1861, steps = 44 
    7059 shifted from previous position = 0.00333 
    7060 rotated from previous position = 0.00207 degrees 
    7061 atoms outside contour = 4635, contour level = 0.228 
    7062  
    7063 Position of combination F (#10.5) relative to
    7064 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7065 Matrix rotation and translation 
    7066 0.90886195 0.41709295 0.00185249 -72.95458499 
    7067 -0.41708755 0.90886224 -0.00272002 113.27021525 
    7068 -0.00281816 0.00169947 0.99999458 -73.04439246 
    7069 Axis 0.00529785 0.00559893 -0.99997029 
    7070 Axis point 221.58701471 224.26145623 0.00000000 
    7071 Rotation angle (degrees) 24.65179987 
    7072 Shift along axis 73.28991165 
    7073  
    7074 Fit molecule combination G (#10.6) to map
    7075 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7076 average map value = 0.2085, steps = 40 
    7077 shifted from previous position = 0.0189 
    7078 rotated from previous position = 0.014 degrees 
    7079 atoms outside contour = 4320, contour level = 0.228 
    7080  
    7081 Position of combination G (#10.6) relative to
    7082 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7083 Matrix rotation and translation 
    7084 0.90830358 0.41827968 -0.00516843 -71.09467049 
    7085 -0.41829142 0.90831181 -0.00139736 113.29610625 
    7086 0.00411006 0.00343114 0.99998567 -74.38696201 
    7087 Axis 0.00577132 -0.01109023 -0.99992185 
    7088 Axis point 224.51701561 220.19174882 0.00000000 
    7089 Rotation angle (degrees) 24.72845659 
    7090 Shift along axis 72.71435896 
    7091  
    7092 Fit molecule combination M (#10.7) to map
    7093 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7094 average map value = 1.071, steps = 40 
    7095 shifted from previous position = 0.0116 
    7096 rotated from previous position = 0 degrees 
    7097 atoms outside contour = 0, contour level = 0.228 
    7098  
    7099 Position of combination M (#10.7) relative to
    7100 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7101 Matrix rotation and translation 
    7102 0.90928978 0.41614780 -0.00361878 -74.21653397 
    7103 -0.41615838 0.90928743 -0.00292816 113.43786770 
    7104 0.00207197 0.00416853 0.99998917 -71.54086290 
    7105 Axis 0.00852602 -0.00683692 -0.99994028 
    7106 Axis point 223.90936528 228.58540933 0.00000000 
    7107 Rotation angle (degrees) 24.59351935 
    7108 Shift along axis 70.12825255 
    7109  
    7110 Fit molecule combination N (#10.8) to map
    7111 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7112 average map value = 1.122, steps = 40 
    7113 shifted from previous position = 0.0412 
    7114 rotated from previous position = 0 degrees 
    7115 atoms outside contour = 0, contour level = 0.228 
    7116  
    7117 Position of combination N (#10.8) relative to
    7118 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7119 Matrix rotation and translation 
    7120 0.90928978 0.41614780 -0.00361878 -73.21073778 
    7121 -0.41615838 0.90928743 -0.00292816 113.09661235 
    7122 0.00207197 0.00416853 0.99998917 -71.08767031 
    7123 Axis 0.00852602 -0.00683692 -0.99994028 
    7124 Axis point 223.62443063 226.09731890 0.00000000 
    7125 Rotation angle (degrees) 24.59351935 
    7126 Shift along axis 69.68599560 
    7127  
    7128 Fit molecule combination Nt (#10.9) to map
    7129 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7130 average map value = 0.4218, steps = 44 
    7131 shifted from previous position = 0.00203 
    7132 rotated from previous position = 0.0825 degrees 
    7133 atoms outside contour = 12, contour level = 0.228 
    7134  
    7135 Position of combination Nt (#10.9) relative to
    7136 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7137 Matrix rotation and translation 
    7138 0.80601658 0.42597690 0.41095129 -138.82006206 
    7139 -0.40776827 0.90288217 -0.13612065 138.11674463 
    7140 -0.42902484 -0.05785740 0.90143786 9.16923965 
    7141 Axis 0.06598409 0.70818755 -0.70293420 
    7142 Axis point 68.04779047 0.00000000 383.12223920 
    7143 Rotation angle (degrees) 36.37348804 
    7144 Shift along axis 82.20727101 
    7145  
    7146 Fit molecule combination Nu (#10.10) to map
    7147 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7148 average map value = 0.4536, steps = 40 
    7149 shifted from previous position = 0.0138 
    7150 rotated from previous position = 0.124 degrees 
    7151 atoms outside contour = 15, contour level = 0.228 
    7152  
    7153 Position of combination Nu (#10.10) relative to
    7154 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7155 Matrix rotation and translation 
    7156 0.89753205 0.42603282 0.11372009 -91.80967522 
    7157 -0.42973377 0.90291017 0.00906138 113.76639162 
    7158 -0.09881858 -0.05700224 0.99347151 -48.83670945 
    7159 Axis -0.07471265 0.24036415 -0.96780323 
    7160 Axis point 164.75593069 240.83851104 0.00000000 
    7161 Rotation angle (degrees) 26.23910061 
    7162 Shift along axis 81.46903169 
    7163  
    7164 Fit molecule combination Nv (#10.11) to map
    7165 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7166 average map value = 0.4358, steps = 40 
    7167 shifted from previous position = 0.00719 
    7168 rotated from previous position = 0.146 degrees 
    7169 atoms outside contour = 13, contour level = 0.228 
    7170  
    7171 Position of combination Nv (#10.11) relative to
    7172 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7173 Matrix rotation and translation 
    7174 0.92221720 0.38049467 0.06884221 -82.51012941 
    7175 -0.37844296 0.92470554 -0.04123812 110.79959952 
    7176 -0.07934966 0.01197766 0.99677488 -56.06405904 
    7177 Axis 0.06865672 0.19119080 -0.97914878 
    7178 Axis point 203.26490903 271.10771811 0.00000000 
    7179 Rotation angle (degrees) 22.80212008 
    7180 Shift along axis 70.41404502 
    7181  
    7182 Fit molecule combination Nw (#10.12) to map
    7183 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7184 average map value = 0.4692, steps = 40 
    7185 shifted from previous position = 0.0166 
    7186 rotated from previous position = 0.397 degrees 
    7187 atoms outside contour = 12, contour level = 0.228 
    7188  
    7189 Position of combination Nw (#10.12) relative to
    7190 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7191 Matrix rotation and translation 
    7192 0.90649657 0.41787460 0.06037199 -88.03580760 
    7193 -0.42014801 0.90691857 0.03121478 104.93358841 
    7194 -0.04170861 -0.05366126 0.99768776 -59.22215232 
    7195 Axis -0.10003387 0.12031097 -0.98768340 
    7196 Axis point 175.72122009 230.86169766 0.00000000 
    7197 Rotation angle (degrees) 25.10234330 
    7198 Shift along axis 79.92396148 
    7199  
    7200 Fit molecule combination Nx (#10.13) to map
    7201 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7202 average map value = 0.4481, steps = 44 
    7203 shifted from previous position = 0.0163 
    7204 rotated from previous position = 0.531 degrees 
    7205 atoms outside contour = 13, contour level = 0.228 
    7206  
    7207 Position of combination Nx (#10.13) relative to
    7208 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7209 Matrix rotation and translation 
    7210 0.80458788 0.44353568 0.39486003 -170.61117650 
    7211 -0.42302324 0.89475172 -0.14307589 154.09387888 
    7212 -0.41676095 -0.05191785 0.90753228 12.72570939 
    7213 Axis 0.07655306 0.68158630 -0.72772230 
    7214 Axis point 118.73781787 451.24990515 -0.00000000 
    7215 Rotation angle (degrees) 36.54052570 
    7216 Shift along axis 82.70668691 
    7217  
    7218 Fit molecule combination Ny (#10.14) to map
    7219 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7220 average map value = 0.4048, steps = 28 
    7221 shifted from previous position = 0.0292 
    7222 rotated from previous position = 0.32 degrees 
    7223 atoms outside contour = 16, contour level = 0.228 
    7224  
    7225 Position of combination Ny (#10.14) relative to
    7226 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7227 Matrix rotation and translation 
    7228 0.91900311 0.39424974 -0.00065066 -71.44430258 
    7229 -0.39414965 0.91873001 -0.02410858 112.76156093 
    7230 -0.00890702 0.02241231 0.99970913 -73.46264744 
    7231 Axis 0.05890108 0.01045355 -0.99820909 
    7232 Axis point 234.74881526 239.94707578 0.00000000 
    7233 Rotation angle (degrees) 23.26016996 
    7234 Shift along axis 70.30169420 
    7235  
    7236 Fit molecule combination O (#10.15) to map
    7237 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7238 average map value = 1.011, steps = 28 
    7239 shifted from previous position = 0.0284 
    7240 rotated from previous position = 0 degrees 
    7241 atoms outside contour = 0, contour level = 0.228 
    7242  
    7243 Position of combination O (#10.15) relative to
    7244 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7245 Matrix rotation and translation 
    7246 0.90928978 0.41614780 -0.00361878 -73.18171501 
    7247 -0.41615838 0.90928743 -0.00292816 111.17258748 
    7248 0.00207197 0.00416853 0.99998917 -70.99835885 
    7249 Axis 0.00852602 -0.00683692 -0.99994028 
    7250 Axis point 219.22448213 225.06693929 0.00000000 
    7251 Rotation angle (degrees) 24.59351935 
    7252 Shift along axis 69.61009133 
    7253  
    7254 Fit molecule combination P (#10.16) to map
    7255 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7256 average map value = 1.023, steps = 28 
    7257 shifted from previous position = 0.0196 
    7258 rotated from previous position = 0 degrees 
    7259 atoms outside contour = 0, contour level = 0.228 
    7260  
    7261 Position of combination P (#10.16) relative to
    7262 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7263 Matrix rotation and translation 
    7264 0.90928978 0.41614780 -0.00361878 -73.17464654 
    7265 -0.41615838 0.90928743 -0.00292816 112.40577943 
    7266 0.00207197 0.00416853 0.99998917 -71.58142004 
    7267 Axis 0.00852602 -0.00683692 -0.99994028 
    7268 Axis point 222.06344536 225.68055308 0.00000000 
    7269 Rotation angle (degrees) 24.59351935 
    7270 Shift along axis 70.18474673 
    7271  
    7272 Fit molecule combination Q (#10.17) to map
    7273 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7274 average map value = 0.9099, steps = 28 
    7275 shifted from previous position = 0.0282 
    7276 rotated from previous position = 0 degrees 
    7277 atoms outside contour = 0, contour level = 0.228 
    7278  
    7279 Position of combination Q (#10.17) relative to
    7280 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7281 Matrix rotation and translation 
    7282 0.90928978 0.41614780 -0.00361878 -72.76235516 
    7283 -0.41615838 0.90928743 -0.00292816 113.60740572 
    7284 0.00207197 0.00416853 0.99998917 -71.53125873 
    7285 Axis 0.00852602 -0.00683692 -0.99994028 
    7286 Axis point 225.02543596 225.33433884 0.00000000 
    7287 Rotation angle (degrees) 24.59351935 
    7288 Shift along axis 70.12988820 
    7289  
    7290 Fit molecule combination R (#10.18) to map
    7291 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7292 average map value = 1.116, steps = 44 
    7293 shifted from previous position = 0.00777 
    7294 rotated from previous position = 0 degrees 
    7295 atoms outside contour = 0, contour level = 0.228 
    7296  
    7297 Position of combination R (#10.18) relative to
    7298 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7299 Matrix rotation and translation 
    7300 0.90928978 0.41614780 -0.00361878 -73.76908638 
    7301 -0.41615838 0.90928743 -0.00292816 112.32683857 
    7302 0.00207197 0.00416853 0.99998917 -70.30030308 
    7303 Axis 0.00852602 -0.00683692 -0.99994028 
    7304 Axis point 221.57043698 226.97518480 0.00000000 
    7305 Rotation angle (degrees) 24.59351935 
    7306 Shift along axis 68.89917778 
    7307  
    7308 Fit molecule combination a (#10.19) to map
    7309 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    7310 average map value = 0.1785, steps = 44 
    7311 shifted from previous position = 0.00347 
    7312 rotated from previous position = 0.00879 degrees 
    7313 atoms outside contour = 4774, contour level = 0.228 
    7314  
    7315 Position of combination a (#10.19) relative to
    7316 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7317 Matrix rotation and translation 
    7318 0.90955812 0.41557525 -0.00111010 -72.06084847 
    7319 -0.41557144 0.90955677 0.00261753 111.63600816 
    7320 0.00209748 -0.00191947 0.99999596 -73.08229439 
    7321 Axis -0.00545861 -0.00385913 -0.99997766 
    7322 Axis point 221.29984642 220.60242361 0.00000000 
    7323 Rotation angle (degrees) 24.55601303 
    7324 Shift along axis 73.04319600 
    7325  
    7326 Fit molecule combination b (#10.20) to map
    7327 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    7328 average map value = 0.2266, steps = 28 
    7329 shifted from previous position = 0.0288 
    7330 rotated from previous position = 0.0327 degrees 
    7331 atoms outside contour = 4308, contour level = 0.228 
    7332  
    7333 Position of combination b (#10.20) relative to
    7334 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7335 Matrix rotation and translation 
    7336 0.90982425 0.41493302 -0.00710039 -70.52139594 
    7337 -0.41494270 0.90984754 0.00012016 112.11414147 
    7338 0.00651014 0.00283693 0.99997478 -74.52882994 
    7339 Axis 0.00327324 -0.01639839 -0.99986018 
    7340 Axis point 225.36377386 219.50744149 0.00000000 
    7341 Rotation angle (degrees) 24.51905747 
    7342 Shift along axis 72.44908389 
    7343  
    7344 Fit molecule combination c (#10.21) to map
    7345 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    7346 average map value = 0.2097, steps = 40 
    7347 shifted from previous position = 0.0169 
    7348 rotated from previous position = 0.0251 degrees 
    7349 atoms outside contour = 4425, contour level = 0.228 
    7350  
    7351 Position of combination c (#10.21) relative to
    7352 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7353 Matrix rotation and translation 
    7354 0.90937758 0.41580330 -0.01183342 -69.43046023 
    7355 -0.41584023 0.90943739 -0.00073595 112.52807069 
    7356 0.01045574 0.00559007 0.99992971 -75.96361649 
    7357 Axis 0.00760370 -0.02679095 -0.99961214 
    7358 Axis point 227.80207536 217.95131985 0.00000000 
    7359 Rotation angle (degrees) 24.58124279 
    7360 Shift along axis 72.39149106 
    7361  
    7362 Fit molecule combination d (#10.22) to map
    7363 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    7364 average map value = 0.2323, steps = 40 
    7365 shifted from previous position = 0.000463 
    7366 rotated from previous position = 0.0189 degrees 
    7367 atoms outside contour = 4192, contour level = 0.228 
    7368  
    7369 Position of combination d (#10.22) relative to
    7370 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7371 Matrix rotation and translation 
    7372 0.91016900 0.41417258 -0.00731185 -70.11411517 
    7373 -0.41417824 0.91019545 0.00079435 111.48195459 
    7374 0.00698421 0.00230542 0.99997295 -74.56038364 
    7375 Axis 0.00182392 -0.01725587 -0.99984944 
    7376 Axis point 224.83602085 218.37174438 0.00000000 
    7377 Rotation angle (degrees) 24.47132484 
    7378 Shift along axis 72.49755708 
    7379  
    7380 Fit molecule combination e (#10.23) to map
    7381 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    7382 average map value = 0.1755, steps = 40 
    7383 shifted from previous position = 0.0188 
    7384 rotated from previous position = 0.0257 degrees 
    7385 atoms outside contour = 4846, contour level = 0.228 
    7386  
    7387 Position of combination e (#10.23) relative to
    7388 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7389 Matrix rotation and translation 
    7390 0.90958175 0.41552492 -0.00029825 -72.55646050 
    7391 -0.41552268 0.90957880 0.00270213 111.15604736 
    7392 0.00139408 -0.00233388 0.99999630 -72.91285893 
    7393 Axis -0.00605971 -0.00203634 -0.99997957 
    7394 Axis point 219.69884413 221.35407099 0.00000000 
    7395 Rotation angle (degrees) 24.55284187 
    7396 Shift along axis 73.12468895 
    7397  
    7398 Fit molecule combination f (#10.24) to map
    7399 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    7400 average map value = 0.2043, steps = 40 
    7401 shifted from previous position = 0.0165 
    7402 rotated from previous position = 0.0132 degrees 
    7403 atoms outside contour = 4487, contour level = 0.228 
    7404  
    7405 Position of combination f (#10.24) relative to
    7406 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7407 Matrix rotation and translation 
    7408 0.90940934 0.41570946 -0.01266095 -68.50828375 
    7409 -0.41575438 0.90947635 -0.00102636 112.41990622 
    7410 0.01108817 0.00619723 0.99991932 -76.13234657 
    7411 Axis 0.00868394 -0.02855030 -0.99955464 
    7412 Axis point 228.32000124 216.06373624 0.00000000 
    7413 Rotation angle (degrees) 24.57708757 
    7414 Shift along axis 72.29389583 
    7415  
    7416 Fit molecule combination nt (#10.25) to map
    7417 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    7418 average map value = 0.4478, steps = 60 
    7419 shifted from previous position = 0.0122 
    7420 rotated from previous position = 0.117 degrees 
    7421 atoms outside contour = 15, contour level = 0.228 
    7422  
    7423 Position of combination nt (#10.25) relative to
    7424 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7425 Matrix rotation and translation 
    7426 0.85495221 0.26090184 0.44831568 -145.02313292 
    7427 -0.21721172 0.96494221 -0.14732822 112.54802678 
    7428 -0.47103692 0.02857917 0.88165041 9.89140913 
    7429 Axis 0.16736052 0.87468373 -0.45488331 
    7430 Axis point 0.43619013 0.00000000 349.63526083 
    7431 Rotation angle (degrees) 31.70421873 
    7432 Shift along axis 69.67334420 
    7433  
    7434 Fit molecule combination nu (#10.26) to map
    7435 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    7436 average map value = 0.5341, steps = 40 
    7437 shifted from previous position = 0.0211 
    7438 rotated from previous position = 0.51 degrees 
    7439 atoms outside contour = 13, contour level = 0.228 
    7440  
    7441 Position of combination nu (#10.26) relative to
    7442 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7443 Matrix rotation and translation 
    7444 0.92596880 0.37298157 0.05887723 -82.72016884 
    7445 -0.37352591 0.92761783 -0.00188565 103.70085792 
    7446 -0.05531888 -0.02024612 0.99826345 -61.32433482 
    7447 Axis -0.02430517 0.15117011 -0.98820891 
    7448 Axis point 196.40046559 255.66175075 0.00000000 
    7449 Rotation angle (degrees) 22.19174097 
    7450 Shift along axis 78.28825148 
    7451  
    7452 Fit molecule combination nv (#10.27) to map
    7453 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    7454 average map value = 0.416, steps = 44 
    7455 shifted from previous position = 0.00693 
    7456 rotated from previous position = 0.516 degrees 
    7457 atoms outside contour = 17, contour level = 0.228 
    7458  
    7459 Position of combination nv (#10.27) relative to
    7460 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7461 Matrix rotation and translation 
    7462 0.83582480 0.54082604 -0.09436152 -48.46544471 
    7463 -0.54390244 0.83910597 -0.00844399 149.61353526 
    7464 0.07461259 0.05838116 0.99550219 -94.19691743 
    7465 Axis 0.06075882 -0.15363481 -0.98625793 
    7466 Axis point 243.39997080 171.02508161 0.00000000 
    7467 Rotation angle (degrees) 33.36161362 
    7468 Shift along axis 66.97190589 
    7469  
    7470 Fit molecule combination nw (#10.28) to map
    7471 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    7472 average map value = 0.4926, steps = 44 
    7473 shifted from previous position = 0.0204 
    7474 rotated from previous position = 0.218 degrees 
    7475 atoms outside contour = 15, contour level = 0.228 
    7476  
    7477 Position of combination nw (#10.28) relative to
    7478 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7479 Matrix rotation and translation 
    7480 0.91605241 0.40068524 0.01730078 -76.74108656 
    7481 -0.40083499 0.91612969 0.00613973 106.94576502 
    7482 -0.01338965 -0.01255907 0.99983148 -69.50949876 
    7483 Axis -0.02330575 0.03825184 -0.99899632 
    7484 Axis point 211.20330261 231.39291659 0.00000000 
    7485 Rotation angle (degrees) 23.65088814 
    7486 Shift along axis 75.31911448 
    7487  
    7488 Fit molecule combination nx (#10.29) to map
    7489 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    7490 average map value = 0.4119, steps = 40 
    7491 shifted from previous position = 0.0531 
    7492 rotated from previous position = 0.121 degrees 
    7493 atoms outside contour = 16, contour level = 0.228 
    7494  
    7495 Position of combination nx (#10.29) relative to
    7496 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7497 Matrix rotation and translation 
    7498 0.88254549 0.26760375 0.38665449 -165.69732501 
    7499 -0.23738019 0.96335227 -0.12491221 120.30834321 
    7500 -0.40591145 0.01845659 0.91372602 2.57139747 
    7501 Axis 0.15081228 0.83371470 -0.53120190 
    7502 Axis point 5.53605084 0.00000000 459.06562261 
    7503 Rotation angle (degrees) 28.38031978 
    7504 Shift along axis 73.94771168 
    7505  
    7506 Fit molecule combination ny (#10.30) to map
    7507 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    7508 average map value = 0.3751, steps = 40 
    7509 shifted from previous position = 0.00543 
    7510 rotated from previous position = 0.254 degrees 
    7511 atoms outside contour = 17, contour level = 0.228 
    7512  
    7513 Position of combination ny (#10.30) relative to
    7514 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7515 Matrix rotation and translation 
    7516 0.88229574 0.46538247 -0.07052226 -50.68493438 
    7517 -0.46918237 0.88153628 -0.05255184 142.30623372 
    7518 0.03771122 0.07945406 0.99612495 -88.38389840 
    7519 Axis 0.13894961 -0.11392673 -0.98372441 
    7520 Axis point 269.27617630 196.03150341 0.00000000 
    7521 Rotation angle (degrees) 28.36023228 
    7522 Shift along axis 63.69026229 
    7523  
    7524 
    7525 > show #!4 models
    7526 
    7527 > select add #5
    7528 
    7529 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    7530 
    7531 > select subtract #5
    7532 
    7533 Nothing selected 
    7534 
    7535 > show #!5 models
    7536 
    7537 > show #!6 models
    7538 
    7539 > show #!7 models
    7540 
    7541 > show #!8 models
    7542 
    7543 > show #!9 models
    7544 
    7545 > hide #!2 models
    7546 
    7547 > hide #!10 models
    7548 
    7549 > show #!10 models
    7550 
    7551 > hide #!10 models
    7552 
    7553 > show #!10 models
    7554 
    7555 > hide #!10 models
    7556 
    7557 > show #!10 models
    7558 
    7559 > hide #!10 models
    7560 
    7561 > show #!10 models
    7562 
    7563 > hide #!10 models
    7564 
    7565 > show #!10 models
    7566 
    7567 > hide #!10 models
    7568 
    7569 > show #!10 models
    7570 
    7571 > hide #!10 models
    7572 
    7573 > show #!10 models
    7574 
    7575 > hide #!10 models
    7576 
    7577 > show #!10 models
    7578 
    7579 > hide #!10 models
    7580 
    7581 > show #!10 models
    7582 
    7583 > hide #!10 models
    7584 
    7585 > show #!10 models
    7586 
    7587 > hide #!10 models
    7588 
    7589 > select clear
    7590 
    7591 > show #!10 models
    7592 
    7593 > hide #!10 models
    7594 
    7595 > show #!10 models
    7596 
    7597 > hide #!10 models
    7598 
    7599 > hide #!4 models
    7600 
    7601 > hide #!5 models
    7602 
    7603 > hide #!6 models
    7604 
    7605 > hide #!7 models
    7606 
    7607 > hide #!8 models
    7608 
    7609 > hide #!9 models
    7610 
    7611 > show #!10 models
    7612 
    7613 > hide #!10 models
    7614 
    7615 > show #!10 models
    7616 
    7617 > show #!9 models
    7618 
    7619 > show #!8 models
    7620 
    7621 > hide #!10 models
    7622 
    7623 > show #!7 models
    7624 
    7625 > show #!6 models
    7626 
    7627 > show #!5 models
    7628 
    7629 > show #!4 models
    7630 
    7631 > changechains #4/B A
    7632 
    7633 Chain IDs of 430 residues changed 
    7634 
    7635 > changechains #4-9/B A
    7636 
    7637 Chain IDs of 2150 residues changed 
    7638 
    7639 > close #10
    7640 
    7641 > select add #4
    7642 
    7643 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    7644 
    7645 > select add #5
    7646 
    7647 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    7648 
    7649 > select add #6
    7650 
    7651 40449 atoms, 40914 bonds, 15 pseudobonds, 2613 residues, 6 models selected 
    7652 
    7653 > select add #7
    7654 
    7655 53932 atoms, 54552 bonds, 20 pseudobonds, 3484 residues, 8 models selected 
    7656 
    7657 > select add #8
    7658 
    7659 67415 atoms, 68190 bonds, 25 pseudobonds, 4355 residues, 10 models selected 
    7660 
    7661 > select add #9
    7662 
    7663 80898 atoms, 81828 bonds, 30 pseudobonds, 5226 residues, 12 models selected 
    7664 
    7665 > select subtract #9
    7666 
    7667 67415 atoms, 68190 bonds, 25 pseudobonds, 4355 residues, 10 models selected 
    7668 
    7669 > select subtract #8
    7670 
    7671 53932 atoms, 54552 bonds, 20 pseudobonds, 3484 residues, 8 models selected 
    7672 
    7673 > select subtract #7
    7674 
    7675 40449 atoms, 40914 bonds, 15 pseudobonds, 2613 residues, 6 models selected 
    7676 
    7677 > select subtract #6
    7678 
    7679 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    7680 
    7681 > select subtract #5
    7682 
    7683 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    7684 
    7685 > select subtract #4
    7686 
    7687 Nothing selected 
    7688 
    7689 > combine #4-9
    7690 
    7691 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'B' 
    7692 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'N' 
    7693 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'Nu' 
    7694 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'b' 
    7695 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'nu' 
    7696 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'C' 
    7697 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'O' 
    7698 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'Nv' 
    7699 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'c' 
    7700 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'nv' 
    7701 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'D' 
    7702 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'P' 
    7703 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'Nw' 
    7704 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'd' 
    7705 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'nw' 
    7706 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'E' 
    7707 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Q' 
    7708 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Nx' 
    7709 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'e' 
    7710 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'nx' 
    7711 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'F' 
    7712 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'R' 
    7713 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'Ny' 
    7714 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'f' 
    7715 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'ny' 
    7716 
    7717 > fitmap #10 inMap #2 eachModel true
    7718 
    7719 Fit molecule combination (#10) to map
    7720 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 80898 atoms 
    7721 average map value = 0.2068, steps = 40 
    7722 shifted from previous position = 0.0171 
    7723 rotated from previous position = 0.00713 degrees 
    7724 atoms outside contour = 53538, contour level = 0.228 
    7725  
    7726 Position of combination (#10) relative to
    7727 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7728 Matrix rotation and translation 
    7729 0.90926574 0.41620027 -0.00362732 -71.41045964 
    7730 -0.41621065 0.90926385 -0.00281805 113.11383137 
    7731 0.00212532 0.00407209 0.99998945 -74.01213011 
    7732 Axis 0.00827684 -0.00691042 -0.99994187 
    7733 Axis point 224.58330054 221.98219535 0.00000000 
    7734 Rotation angle (degrees) 24.59677765 
    7735 Shift along axis 72.63511037 
    7736  
    7737 
    7738 > hide #!9 models
    7739 
    7740 > hide #!8 models
    7741 
    7742 > hide #!7 models
    7743 
    7744 > hide #!6 models
    7745 
    7746 > hide #!5 models
    7747 
    7748 > hide #!4 models
    7749 
    7750 > show #!9 models
    7751 
    7752 > show #!8 models
    7753 
    7754 > show #!7 models
    7755 
    7756 > show #!6 models
    7757 
    7758 > show #!5 models
    7759 
    7760 > show #!4 models
    7761 
    7762 > hide #!10 models
    7763 
    7764 > show #!10 models
    7765 
    7766 > hide #!10 models
    7767 
    7768 > show #!10 models
    7769 
    7770 > split #10
    7771 
    7772 Split combination (#10) into 30 models 
    7773 Chain information for combination A #10.1 
    7774 --- 
    7775 Chain | Description 
    7776 A | No description available 
    7777  
    7778 Chain information for combination B #10.2 
    7779 --- 
    7780 Chain | Description 
    7781 B | No description available 
    7782  
    7783 Chain information for combination C #10.3 
    7784 --- 
    7785 Chain | Description 
    7786 C | No description available 
    7787  
    7788 Chain information for combination D #10.4 
    7789 --- 
    7790 Chain | Description 
    7791 D | No description available 
    7792  
    7793 Chain information for combination E #10.5 
    7794 --- 
    7795 Chain | Description 
    7796 E | No description available 
    7797  
    7798 Chain information for combination F #10.6 
    7799 --- 
    7800 Chain | Description 
    7801 F | No description available 
    7802  
    7803 Chain information for combination a #10.19 
    7804 --- 
    7805 Chain | Description 
    7806 a | No description available 
    7807  
    7808 Chain information for combination b #10.20 
    7809 --- 
    7810 Chain | Description 
    7811 b | No description available 
    7812  
    7813 Chain information for combination c #10.21 
    7814 --- 
    7815 Chain | Description 
    7816 c | No description available 
    7817  
    7818 Chain information for combination d #10.22 
    7819 --- 
    7820 Chain | Description 
    7821 d | No description available 
    7822  
    7823 Chain information for combination e #10.23 
    7824 --- 
    7825 Chain | Description 
    7826 e | No description available 
    7827  
    7828 Chain information for combination f #10.24 
    7829 --- 
    7830 Chain | Description 
    7831 f | No description available 
    7832  
    7833 
    7834 > hide #!10 models
    7835 
    7836 > show #!10 models
    7837 
    7838 > fitmap #10 inMap #2 eachModel true
    7839 
    7840 Fit molecule combination A (#10.1) to map
    7841 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7842 average map value = 0.1856, steps = 48 
    7843 shifted from previous position = 0.119 
    7844 rotated from previous position = 0.288 degrees 
    7845 atoms outside contour = 4615, contour level = 0.228 
    7846  
    7847 Position of combination A (#10.1) relative to
    7848 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7849 Matrix rotation and translation 
    7850 0.90841347 0.41807182 0.00095782 -72.41773225 
    7851 -0.41806730 0.90841075 -0.00310660 113.59053109 
    7852 -0.00216887 0.00242164 0.99999472 -73.22992330 
    7853 Axis 0.00661143 0.00373934 -0.99997115 
    7854 Axis point 222.18431480 223.04924769 0.00000000 
    7855 Rotation angle (degrees) 24.71353133 
    7856 Shift along axis 73.17377914 
    7857  
    7858 Fit molecule combination B (#10.2) to map
    7859 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7860 average map value = 0.2259, steps = 44 
    7861 shifted from previous position = 0.0381 
    7862 rotated from previous position = 0.14 degrees 
    7863 atoms outside contour = 4205, contour level = 0.228 
    7864  
    7865 Position of combination B (#10.2) relative to
    7866 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7867 Matrix rotation and translation 
    7868 0.90825798 0.41839674 -0.00340663 -71.56444011 
    7869 -0.41840578 0.90825651 -0.00259241 113.57975058 
    7870 0.00200944 0.00377993 0.99999084 -73.96911493 
    7871 Axis 0.00761472 -0.00647202 -0.99995006 
    7872 Axis point 224.01726618 221.48766029 0.00000000 
    7873 Rotation angle (degrees) 24.73501163 
    7874 Shift along axis 72.68538790 
    7875  
    7876 Fit molecule combination C (#10.3) to map
    7877 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7878 average map value = 0.2103, steps = 40 
    7879 shifted from previous position = 0.0979 
    7880 rotated from previous position = 0.19 degrees 
    7881 atoms outside contour = 4329, contour level = 0.228 
    7882  
    7883 Position of combination C (#10.3) relative to
    7884 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7885 Matrix rotation and translation 
    7886 0.90837713 0.41811269 -0.00572345 -71.11014288 
    7887 -0.41812605 0.90838806 -0.00132168 113.36494734 
    7888 0.00464650 0.00359371 0.99998275 -74.50915888 
    7889 Axis 0.00587742 -0.01239953 -0.99990585 
    7890 Axis point 224.99179342 220.39918887 0.00000000 
    7891 Rotation angle (degrees) 24.71839549 
    7892 Shift along axis 72.67852684 
    7893  
    7894 Fit molecule combination D (#10.4) to map
    7895 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7896 average map value = 0.2277, steps = 48 
    7897 shifted from previous position = 0.0496 
    7898 rotated from previous position = 0.234 degrees 
    7899 atoms outside contour = 4140, contour level = 0.228 
    7900  
    7901 Position of combination D (#10.4) relative to
    7902 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7903 Matrix rotation and translation 
    7904 0.90770277 0.41958459 -0.00494593 -71.22596174 
    7905 -0.41960372 0.90769948 -0.00379086 114.14765389 
    7906 0.00289883 0.00551631 0.99998058 -74.32372691 
    7907 Axis 0.01108951 -0.00934705 -0.99989482 
    7908 Axis point 225.00155061 221.16283998 0.00000000 
    7909 Rotation angle (degrees) 24.81175334 
    7910 Shift along axis 72.45910402 
    7911  
    7912 Fit molecule combination E (#10.5) to map
    7913 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7914 average map value = 0.1861, steps = 60 
    7915 shifted from previous position = 0.11 
    7916 rotated from previous position = 0.314 degrees 
    7917 atoms outside contour = 4633, contour level = 0.228 
    7918  
    7919 Position of combination E (#10.5) relative to
    7920 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7921 Matrix rotation and translation 
    7922 0.90882687 0.41716985 0.00174537 -72.93199536 
    7923 -0.41716516 0.90882720 -0.00251899 113.23933354 
    7924 -0.00263709 0.00156122 0.99999530 -73.04711015 
    7925 Axis 0.00489025 0.00525250 -0.99997425 
    7926 Axis point 221.54818315 224.10443248 0.00000000 
    7927 Rotation angle (degrees) 24.65656626 
    7928 Shift along axis 73.28336304 
    7929  
    7930 Fit molecule combination F (#10.6) to map
    7931 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6631 atoms 
    7932 average map value = 0.2085, steps = 36 
    7933 shifted from previous position = 0.0959 
    7934 rotated from previous position = 0.177 degrees 
    7935 atoms outside contour = 4324, contour level = 0.228 
    7936  
    7937 Position of combination F (#10.6) relative to
    7938 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7939 Matrix rotation and translation 
    7940 0.90829132 0.41830757 -0.00506551 -71.12248198 
    7941 -0.41831880 0.90829925 -0.00135929 113.29285442 
    7942 0.00403240 0.00335363 0.99998625 -74.36319296 
    7943 Axis 0.00563282 -0.01087370 -0.99992501 
    7944 Axis point 224.44641850 220.21072927 0.00000000 
    7945 Rotation angle (degrees) 24.73011624 
    7946 Shift along axis 72.72508468 
    7947  
    7948 Fit molecule combination M (#10.7) to map
    7949 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7950 average map value = 1.07, steps = 64 
    7951 shifted from previous position = 3.76 
    7952 rotated from previous position = 0 degrees 
    7953 atoms outside contour = 0, contour level = 0.228 
    7954  
    7955 Position of combination M (#10.7) relative to
    7956 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7957 Matrix rotation and translation 
    7958 0.90926574 0.41620027 -0.00362732 -74.21847588 
    7959 -0.41621065 0.90926385 -0.00281805 113.42512820 
    7960 0.00212532 0.00407209 0.99998945 -71.53530874 
    7961 Axis 0.00827684 -0.00691042 -0.99994187 
    7962 Axis point 223.86389116 228.52239274 0.00000000 
    7963 Rotation angle (degrees) 24.59677765 
    7964 Shift along axis 70.13304029 
    7965  
    7966 Fit molecule combination N (#10.8) to map
    7967 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    7968 average map value = 1.12, steps = 60 
    7969 shifted from previous position = 3.4 
    7970 rotated from previous position = 0 degrees 
    7971 atoms outside contour = 0, contour level = 0.228 
    7972  
    7973 Position of combination N (#10.8) relative to
    7974 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7975 Matrix rotation and translation 
    7976 0.90926574 0.41620027 -0.00362732 -73.18297287 
    7977 -0.41621065 0.90926385 -0.00281805 113.05807713 
    7978 0.00212532 0.00407209 0.99998945 -71.11574533 
    7979 Axis 0.00827684 -0.00691042 -0.99994187 
    7980 Axis point 223.53501864 225.95458197 0.00000000 
    7981 Rotation angle (degrees) 24.59677765 
    7982 Shift along axis 69.72460844 
    7983  
    7984 Fit molecule combination Nt (#10.9) to map
    7985 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    7986 average map value = 0.4218, steps = 52 
    7987 shifted from previous position = 0.368 
    7988 rotated from previous position = 25.8 degrees 
    7989 atoms outside contour = 12, contour level = 0.228 
    7990  
    7991 Position of combination Nt (#10.9) relative to
    7992 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    7993 Matrix rotation and translation 
    7994 0.80600240 0.42756479 0.40932688 -138.74623179 
    7995 -0.40868192 0.90222981 -0.13769701 138.64326572 
    7996 -0.42818130 -0.05630038 0.90193738 8.71302247 
    7997 Axis 0.06861274 0.70597186 -0.70490852 
    7998 Axis point 67.57983618 0.00000000 384.77235136 
    7999 Rotation angle (degrees) 36.38155497 
    8000 Shift along axis 82.21660191 
    8001  
    8002 Fit molecule combination Nu (#10.10) to map
    8003 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    8004 average map value = 0.4529, steps = 48 
    8005 shifted from previous position = 0.336 
    8006 rotated from previous position = 6.9 degrees 
    8007 atoms outside contour = 15, contour level = 0.228 
    8008  
    8009 Position of combination Nu (#10.10) relative to
    8010 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8011 Matrix rotation and translation 
    8012 0.89722610 0.42631956 0.11505194 -92.03805400 
    8013 -0.43012736 0.90271992 0.00933777 113.80053392 
    8014 -0.09987880 -0.05786508 0.99331559 -48.51513188 
    8015 Axis -0.07588759 0.24270659 -0.96712697 
    8016 Axis point 164.08133370 240.93334357 0.00000000 
    8017 Rotation angle (degrees) 26.28132363 
    8018 Shift along axis 81.52497800 
    8019  
    8020 Fit molecule combination Nv (#10.11) to map
    8021 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    8022 average map value = 0.4354, steps = 60 
    8023 shifted from previous position = 1.16 
    8024 rotated from previous position = 5.06 degrees 
    8025 atoms outside contour = 12, contour level = 0.228 
    8026  
    8027 Position of combination Nv (#10.11) relative to
    8028 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8029 Matrix rotation and translation 
    8030 0.92292073 0.37918780 0.06658784 -82.12258346 
    8031 -0.37742645 0.92526849 -0.03778221 109.90538753 
    8032 -0.07593818 0.00973797 0.99706497 -56.61115485 
    8033 Axis 0.06160360 0.18476606 -0.98084989 
    8034 Axis point 203.21142920 269.38090529 0.00000000 
    8035 Rotation angle (degrees) 22.68678135 
    8036 Shift along axis 70.77478425 
    8037  
    8038 Fit molecule combination Nw (#10.12) to map
    8039 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    8040 average map value = 0.4686, steps = 48 
    8041 shifted from previous position = 0.148 
    8042 rotated from previous position = 4.14 degrees 
    8043 atoms outside contour = 13, contour level = 0.228 
    8044  
    8045 Position of combination Nw (#10.12) relative to
    8046 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8047 Matrix rotation and translation 
    8048 0.90613154 0.41861718 0.06070658 -88.15348033 
    8049 -0.42084668 0.90664399 0.02974481 105.46936694 
    8050 -0.04258757 -0.05250087 0.99771236 -59.20878221 
    8051 Axis -0.09678417 0.12155336 -0.98785505 
    8052 Axis point 176.17009667 231.62662080 0.00000000 
    8053 Rotation angle (degrees) 25.14384164 
    8054 Shift along axis 79.84171208 
    8055  
    8056 Fit molecule combination Nx (#10.13) to map
    8057 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    8058 average map value = 0.4482, steps = 56 
    8059 shifted from previous position = 0.38 
    8060 rotated from previous position = 25 degrees 
    8061 atoms outside contour = 13, contour level = 0.228 
    8062  
    8063 Position of combination Nx (#10.13) relative to
    8064 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8065 Matrix rotation and translation 
    8066 0.80473021 0.44588684 0.39191097 -170.17878207 
    8067 -0.42469817 0.89369279 -0.14472268 154.92914476 
    8068 -0.41477795 -0.04998116 0.90854892 11.90605594 
    8069 Axis 0.07957144 0.67752126 -0.73118625 
    8070 Axis point 120.40449330 449.15512845 0.00000000 
    8071 Rotation angle (degrees) 36.53571131 
    8072 Shift along axis 82.72087386 
    8073  
    8074 Fit molecule combination Ny (#10.14) to map
    8075 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 40 atoms 
    8076 average map value = 0.4047, steps = 80 
    8077 shifted from previous position = 0.549 
    8078 rotated from previous position = 1.74 degrees 
    8079 atoms outside contour = 16, contour level = 0.228 
    8080  
    8081 Position of combination Ny (#10.14) relative to
    8082 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8083 Matrix rotation and translation 
    8084 0.91921546 0.39375493 -0.00001290 -71.58787000 
    8085 -0.39367268 0.91902278 -0.02046818 111.68276132 
    8086 -0.00804759 0.01881974 0.99979050 -73.28614380 
    8087 Axis 0.04982943 0.01019052 -0.99870575 
    8088 Axis point 232.79886039 238.52516716 0.00000000 
    8089 Rotation angle (degrees) 23.21758768 
    8090 Shift along axis 70.76221650 
    8091  
    8092 Fit molecule combination O (#10.15) to map
    8093 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    8094 average map value = 1.01, steps = 64 
    8095 shifted from previous position = 4 
    8096 rotated from previous position = 0 degrees 
    8097 atoms outside contour = 0, contour level = 0.228 
    8098  
    8099 Position of combination O (#10.15) relative to
    8100 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8101 Matrix rotation and translation 
    8102 0.90926574 0.41620027 -0.00362732 -73.17717378 
    8103 -0.41621065 0.90926385 -0.00281805 111.16188668 
    8104 0.00212532 0.00407209 0.99998945 -70.99808167 
    8105 Axis 0.00827684 -0.00691042 -0.99994187 
    8106 Axis point 219.18755103 224.99079513 0.00000000 
    8107 Rotation angle (degrees) 24.59677765 
    8108 Shift along axis 69.62010309 
    8109  
    8110 Fit molecule combination P (#10.16) to map
    8111 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    8112 average map value = 1.02, steps = 60 
    8113 shifted from previous position = 3.1 
    8114 rotated from previous position = 0 degrees 
    8115 atoms outside contour = 0, contour level = 0.228 
    8116  
    8117 Position of combination P (#10.16) relative to
    8118 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8119 Matrix rotation and translation 
    8120 0.90926574 0.41620027 -0.00362732 -73.16713364 
    8121 -0.41621065 0.90926385 -0.00281805 112.37297695 
    8122 0.00212532 0.00407209 0.99998945 -71.57278177 
    8123 Axis 0.00827684 -0.00691042 -0.99994187 
    8124 Axis point 221.97698731 225.58604979 0.00000000 
    8125 Rotation angle (degrees) 24.59677765 
    8126 Shift along axis 70.18648374 
    8127  
    8128 Fit molecule combination Q (#10.17) to map
    8129 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    8130 average map value = 0.912, steps = 52 
    8131 shifted from previous position = 2.86 
    8132 rotated from previous position = 0 degrees 
    8133 atoms outside contour = 0, contour level = 0.228 
    8134  
    8135 Position of combination Q (#10.17) relative to
    8136 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8137 Matrix rotation and translation 
    8138 0.90926574 0.41620027 -0.00362732 -72.76782688 
    8139 -0.41621065 0.90926385 -0.00281805 113.60003733 
    8140 0.00212532 0.00407209 0.99998945 -71.53799663 
    8141 Axis 0.00827684 -0.00691042 -0.99994187 
    8142 Axis point 224.99059867 225.28283117 0.00000000 
    8143 Rotation angle (degrees) 24.59677765 
    8144 Shift along axis 70.14652611 
    8145  
    8146 Fit molecule combination R (#10.18) to map
    8147 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 1 atoms 
    8148 average map value = 1.118, steps = 92 
    8149 shifted from previous position = 4.47 
    8150 rotated from previous position = 0 degrees 
    8151 atoms outside contour = 0, contour level = 0.228 
    8152  
    8153 Position of combination R (#10.18) relative to
    8154 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8155 Matrix rotation and translation 
    8156 0.90926574 0.41620027 -0.00362732 -73.76791172 
    8157 -0.41621065 0.90926385 -0.00281805 112.30902850 
    8158 0.00212532 0.00407209 0.99998945 -70.30536870 
    8159 Axis 0.00827684 -0.00691042 -0.99994187 
    8160 Axis point 221.51500901 226.90352553 0.00000000 
    8161 Rotation angle (degrees) 24.59677765 
    8162 Shift along axis 68.91461371 
    8163  
    8164 Fit molecule combination a (#10.19) to map
    8165 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8166 average map value = 0.1785, steps = 48 
    8167 shifted from previous position = 0.0944 
    8168 rotated from previous position = 0.356 degrees 
    8169 atoms outside contour = 4778, contour level = 0.228 
    8170  
    8171 Position of combination a (#10.19) relative to
    8172 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8173 Matrix rotation and translation 
    8174 0.90956486 0.41556066 -0.00105117 -72.07318261 
    8175 -0.41555660 0.90956304 0.00278917 111.59248085 
    8176 0.00211517 -0.00210011 0.99999556 -73.06139702 
    8177 Axis -0.00588264 -0.00380965 -0.99997544 
    8178 Axis point 221.21088971 220.54215648 0.00000000 
    8179 Rotation angle (degrees) 24.55514401 
    8180 Shift along axis 73.05845538 
    8181  
    8182 Fit molecule combination b (#10.20) to map
    8183 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8184 average map value = 0.2266, steps = 48 
    8185 shifted from previous position = 0.063 
    8186 rotated from previous position = 0.264 degrees 
    8187 atoms outside contour = 4310, contour level = 0.228 
    8188  
    8189 Position of combination b (#10.20) relative to
    8190 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8191 Matrix rotation and translation 
    8192 0.90979835 0.41498942 -0.00712316 -70.51995311 
    8193 -0.41500087 0.90982100 -0.00014235 112.18732376 
    8194 0.00642172 0.00308563 0.99997462 -74.54803990 
    8195 Axis 0.00388863 -0.01631702 -0.99985931 
    8196 Axis point 225.45615445 219.61555934 0.00000000 
    8197 Rotation angle (degrees) 24.52268828 
    8198 Shift along axis 72.43276220 
    8199  
    8200 Fit molecule combination c (#10.21) to map
    8201 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8202 average map value = 0.2097, steps = 48 
    8203 shifted from previous position = 0.0881 
    8204 rotated from previous position = 0.508 degrees 
    8205 atoms outside contour = 4429, contour level = 0.228 
    8206  
    8207 Position of combination c (#10.21) relative to
    8208 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8209 Matrix rotation and translation 
    8210 0.90941117 0.41571602 -0.01230894 -69.31818401 
    8211 -0.41575914 0.90947414 -0.00105916 112.57822706 
    8212 0.01075435 0.00608077 0.99992368 -76.06280313 
    8213 Axis 0.00858345 -0.02772612 -0.99957870 
    8214 Axis point 228.14392723 217.95210470 0.00000000 
    8215 Rotation angle (degrees) 24.57681328 
    8216 Shift along axis 72.31441208 
    8217  
    8218 Fit molecule combination d (#10.22) to map
    8219 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8220 average map value = 0.2323, steps = 40 
    8221 shifted from previous position = 0.0579 
    8222 rotated from previous position = 0.308 degrees 
    8223 atoms outside contour = 4194, contour level = 0.228 
    8224  
    8225 Position of combination d (#10.22) relative to
    8226 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8227 Matrix rotation and translation 
    8228 0.91011970 0.41428463 -0.00709806 -70.18893488 
    8229 -0.41429042 0.91014447 0.00070330 111.53281686 
    8230 0.00675162 0.00230057 0.99997456 -74.52836348 
    8231 Axis 0.00192745 -0.01671269 -0.99985848 
    8232 Axis point 224.74499942 218.51850841 0.00000000 
    8233 Rotation angle (degrees) 24.47814805 
    8234 Shift along axis 72.51851656 
    8235  
    8236 Fit molecule combination e (#10.23) to map
    8237 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8238 average map value = 0.1755, steps = 48 
    8239 shifted from previous position = 0.136 
    8240 rotated from previous position = 0.339 degrees 
    8241 atoms outside contour = 4848, contour level = 0.228 
    8242  
    8243 Position of combination e (#10.23) relative to
    8244 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8245 Matrix rotation and translation 
    8246 0.90961517 0.41545146 -0.00056649 -72.46151392 
    8247 -0.41544943 0.90961368 0.00217546 111.30050932 
    8248 0.00141909 -0.00174348 0.99999747 -72.99227955 
    8249 Axis -0.00471644 -0.00238964 -0.99998602 
    8250 Axis point 220.13841019 221.47971110 0.00000000 
    8251 Rotation angle (degrees) 24.54805214 
    8252 Shift along axis 73.06705184 
    8253  
    8254 Fit molecule combination f (#10.24) to map
    8255 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8256 average map value = 0.2043, steps = 60 
    8257 shifted from previous position = 0.0879 
    8258 rotated from previous position = 0.546 degrees 
    8259 atoms outside contour = 4481, contour level = 0.228 
    8260  
    8261 Position of combination f (#10.24) relative to
    8262 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8263 Matrix rotation and translation 
    8264 0.90944618 0.41562008 -0.01294595 -68.41782090 
    8265 -0.41566573 0.90951698 -0.00093359 112.36739479 
    8266 0.01138654 0.00623024 0.99991576 -76.18317954 
    8267 Axis 0.00861376 -0.02925728 -0.99953480 
    8268 Axis point 228.42430861 215.88234744 0.00000000 
    8269 Rotation angle (degrees) 24.57199649 
    8270 Shift along axis 72.27083987 
    8271  
    8272 Fit molecule combination nt (#10.25) to map
    8273 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8274 average map value = 0.4481, steps = 72 
    8275 shifted from previous position = 0.702 
    8276 rotated from previous position = 29.6 degrees 
    8277 atoms outside contour = 16, contour level = 0.228 
    8278  
    8279 Position of combination nt (#10.25) relative to
    8280 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8281 Matrix rotation and translation 
    8282 0.85695171 0.26288182 0.44331357 -144.42953303 
    8283 -0.22013775 0.96442652 -0.14635866 112.75888101 
    8284 -0.46601839 0.02783225 0.88433717 8.74778797 
    8285 Axis 0.16680371 0.87076838 -0.46253534 
    8286 Axis point 0.82868470 0.00000000 352.41998725 
    8287 Rotation angle (degrees) 31.47613793 
    8288 Shift along axis 70.04932606 
    8289  
    8290 Fit molecule combination nu (#10.26) to map
    8291 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8292 average map value = 0.5339, steps = 48 
    8293 shifted from previous position = 0.376 
    8294 rotated from previous position = 4.01 degrees 
    8295 atoms outside contour = 15, contour level = 0.228 
    8296  
    8297 Position of combination nu (#10.26) relative to
    8298 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8299 Matrix rotation and translation 
    8300 0.92479905 0.37688146 0.05202958 -81.43836481 
    8301 -0.37737409 0.92606082 -0.00038347 104.18982569 
    8302 -0.04832708 -0.01927999 0.99864547 -62.67103901 
    8303 Axis -0.02482669 0.13185093 -0.99095861 
    8304 Axis point 199.74503907 250.81170412 0.00000000 
    8305 Rotation angle (degrees) 22.36891034 
    8306 Shift along axis 77.86377653 
    8307  
    8308 Fit molecule combination nv (#10.27) to map
    8309 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8310 average map value = 0.4165, steps = 64 
    8311 shifted from previous position = 0.523 
    8312 rotated from previous position = 10.1 degrees 
    8313 atoms outside contour = 17, contour level = 0.228 
    8314  
    8315 Position of combination nv (#10.27) relative to
    8316 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8317 Matrix rotation and translation 
    8318 0.83463365 0.54135967 -0.10156955 -46.71012017 
    8319 -0.54478767 0.83854192 -0.00733821 149.60602551 
    8320 0.08119771 0.06145855 0.99480138 -95.78897215 
    8321 Axis 0.06234054 -0.16561550 -0.98421805 
    8322 Axis point 244.84616147 168.74286399 0.00000000 
    8323 Rotation angle (degrees) 33.48934247 
    8324 Shift along axis 66.58822384 
    8325  
    8326 Fit molecule combination nw (#10.28) to map
    8327 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8328 average map value = 0.4926, steps = 76 
    8329 shifted from previous position = 0.336 
    8330 rotated from previous position = 1.83 degrees 
    8331 atoms outside contour = 15, contour level = 0.228 
    8332  
    8333 Position of combination nw (#10.28) relative to
    8334 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8335 Matrix rotation and translation 
    8336 0.91658738 0.39931817 0.02031196 -77.58190372 
    8337 -0.39953403 0.91668500 0.00782156 106.14540731 
    8338 -0.01549637 -0.01528447 0.99976310 -68.81624893 
    8339 Axis -0.02888297 0.04476108 -0.99858010 
    8340 Axis point 208.72634107 232.41008643 0.00000000 
    8341 Rotation angle (degrees) 23.57780649 
    8342 Shift along axis 75.71051587 
    8343  
    8344 Fit molecule combination nx (#10.29) to map
    8345 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8346 average map value = 0.4105, steps = 72 
    8347 shifted from previous position = 1.56 
    8348 rotated from previous position = 25.5 degrees 
    8349 atoms outside contour = 17, contour level = 0.228 
    8350  
    8351 Position of combination nx (#10.29) relative to
    8352 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8353 Matrix rotation and translation 
    8354 0.88396190 0.26924159 0.38225689 -164.79323304 
    8355 -0.24003512 0.96292070 -0.12315383 120.13780112 
    8356 -0.40124120 0.01710821 0.91581265 1.51413395 
    8357 Axis 0.14843538 0.82915400 -0.53895323 
    8358 Axis point 6.68640158 0.00000000 462.00118414 
    8359 Rotation angle (degrees) 28.19464399 
    8360 Shift along axis 74.33554549 
    8361  
    8362 Fit molecule combination ny (#10.30) to map
    8363 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8364 average map value = 0.3755, steps = 48 
    8365 shifted from previous position = 0.255 
    8366 rotated from previous position = 5.14 degrees 
    8367 atoms outside contour = 17, contour level = 0.228 
    8368  
    8369 Position of combination ny (#10.30) relative to
    8370 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8371 Matrix rotation and translation 
    8372 0.88579225 0.46007526 -0.06085096 -53.75948109 
    8373 -0.46302480 0.88498961 -0.04900425 139.55622459 
    8374 0.03130683 0.07158309 0.99694320 -86.41943645 
    8375 Axis 0.12890238 -0.09851249 -0.98675198 
    8376 Axis point 265.26879109 200.79739302 0.00000000 
    8377 Rotation angle (degrees) 27.88813237 
    8378 Shift along axis 64.59679407 
    8379  
    8380 
    8381 > hide #!10 models
    8382 
    8383 > show #!10 models
    8384 
    8385 > hide #!10 models
    8386 
    8387 > show #!10 models
    8388 
    8389 > hide #!10 models
    8390 
    8391 > show #!10 models
    8392 
    8393 > hide #!10 models
    8394 
    8395 > show #!10 models
    8396 
    8397 > hide #!10 models
    8398 
    8399 > show #!10 models
    8400 
    8401 > hide #!10 models
    8402 
    8403 > show #!10 models
    8404 
    8405 > hide #!10 models
    8406 
    8407 > show #!10 models
    8408 
    8409 > hide #!9 models
    8410 
    8411 > hide #!8 models
    8412 
    8413 > hide #!7 models
    8414 
    8415 > hide #!6 models
    8416 
    8417 > hide #!5 models
    8418 
    8419 > hide #!4 models
    8420 
    8421 > show #!4 models
    8422 
    8423 > show #!5 models
    8424 
    8425 > show #!6 models
    8426 
    8427 > show #!7 models
    8428 
    8429 > show #!8 models
    8430 
    8431 > show #!9 models
    8432 
    8433 > hide #!10 models
    8434 
    8435 > select ::name="MG"
    8436 
    8437 14 atoms, 14 residues, 14 models selected 
    8438 
    8439 > select add #10
    8440 
    8441 80906 atoms, 81828 bonds, 5234 residues, 39 models selected 
    8442 
    8443 > select subtract #10
    8444 
    8445 8 atoms, 8 residues, 8 models selected 
    8446 
    8447 > select add #3
    8448 
    8449 13490 atoms, 13638 bonds, 5 pseudobonds, 878 residues, 9 models selected 
    8450 
    8451 > select subtract #3
    8452 
    8453 7 atoms, 7 residues, 7 models selected 
    8454 
    8455 > select add #1
    8456 
    8457 13489 atoms, 13638 bonds, 5 pseudobonds, 877 residues, 8 models selected 
    8458 
    8459 > select subtract #1
    8460 
    8461 6 atoms, 6 residues, 6 models selected 
    8462 
    8463 > combine #4-9
    8464 
    8465 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'B' 
    8466 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'N' 
    8467 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'Nu' 
    8468 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'b' 
    8469 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'nu' 
    8470 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'C' 
    8471 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'O' 
    8472 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'Nv' 
    8473 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'c' 
    8474 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'nv' 
    8475 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'D' 
    8476 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'P' 
    8477 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'Nw' 
    8478 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'd' 
    8479 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'nw' 
    8480 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'E' 
    8481 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Q' 
    8482 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Nx' 
    8483 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'e' 
    8484 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'nx' 
    8485 Remapping chain ID 'A' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'F' 
    8486 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'R' 
    8487 Remapping chain ID 'Nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'Ny' 
    8488 Remapping chain ID 'a' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'f' 
    8489 Remapping chain ID 'nt' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'ny' 
    8490 
    8491 > hide #!11 models
    8492 
    8493 > show #!11 models
    8494 
    8495 > hide #!11 models
    8496 
    8497 > select ~sel
    8498 
    8499 269654 atoms, 272760 bonds, 40 pseudobonds, 17414 residues, 45 models selected 
    8500 
    8501 > select subtract #10
    8502 
    8503 188756 atoms, 190932 bonds, 40 pseudobonds, 12188 residues, 14 models selected 
    8504 
    8505 > select subtract #11
    8506 
    8507 107858 atoms, 109104 bonds, 10 pseudobonds, 6962 residues, 12 models selected 
    8508 
    8509 > select subtract #3
    8510 
    8511 94375 atoms, 95466 bonds, 5 pseudobonds, 6091 residues, 10 models selected 
    8512 
    8513 > select subtract #2
    8514 
    8515 94375 atoms, 95466 bonds, 5 pseudobonds, 6091 residues, 8 models selected 
    8516 
    8517 > select subtract #1
    8518 
    8519 80892 atoms, 81828 bonds, 5220 residues, 6 models selected 
    8520 
    8521 > select add #11
    8522 
    8523 161790 atoms, 163656 bonds, 30 pseudobonds, 10446 residues, 8 models selected 
    8524 
    8525 > select subtract #11
    8526 
    8527 80892 atoms, 81828 bonds, 5220 residues, 6 models selected 
    8528 
    8529 > delete atoms sel
    8530 
    8531 > delete bonds sel
    8532 
    8533 > show #!10 models
    8534 
    8535 > select ::name="MG"
    8536 
    8537 20 atoms, 20 residues, 15 models selected 
    8538 
    8539 > select subtract #4
    8540 
    8541 19 atoms, 19 residues, 14 models selected 
    8542 
    8543 > select subtract #5
    8544 
    8545 18 atoms, 18 residues, 13 models selected 
    8546 
    8547 > select subtract #6
    8548 
    8549 17 atoms, 17 residues, 12 models selected 
    8550 
    8551 > select subtract #7
    8552 
    8553 16 atoms, 16 residues, 11 models selected 
    8554 
    8555 > select subtract #8
    8556 
    8557 15 atoms, 15 residues, 10 models selected 
    8558 
    8559 > select subtract #9
    8560 
    8561 14 atoms, 14 residues, 9 models selected 
    8562 
    8563 > select add #11
    8564 
    8565 80906 atoms, 81828 bonds, 30 pseudobonds, 5234 residues, 10 models selected 
    8566 
    8567 > select subtract #11
    8568 
    8569 8 atoms, 8 residues, 8 models selected 
    8570 
    8571 > select add #3
    8572 
    8573 13490 atoms, 13638 bonds, 5 pseudobonds, 878 residues, 9 models selected 
    8574 
    8575 > select subtract #3
    8576 
    8577 7 atoms, 7 residues, 7 models selected 
    8578 
    8579 > select add #1
    8580 
    8581 13489 atoms, 13638 bonds, 5 pseudobonds, 877 residues, 8 models selected 
    8582 
    8583 > select subtract #1
    8584 
    8585 6 atoms, 6 residues, 6 models selected 
    8586 
    8587 > delete atoms sel
    8588 
    8589 > delete bonds sel
    8590 
    8591 > show #!11 models
    8592 
    8593 > combine #4-10
    8594 
    8595 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 to 'N' 
    8596 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #6 to 'O' 
    8597 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #7 to 'P' 
    8598 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #8 to 'Q' 
    8599 Remapping chain ID 'M' in 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #9 to 'R' 
    8600 
    8601 > hide #!10 models
    8602 
    8603 > hide #!9 models
    8604 
    8605 > hide #!8 models
    8606 
    8607 > hide #!7 models
    8608 
    8609 > hide #!6 models
    8610 
    8611 > hide #!5 models
    8612 
    8613 > hide #!4 models
    8614 
    8615 > hide #!11 models
    8616 
    8617 > show #!11 models
    8618 
    8619 > hide #!11 models
    8620 
    8621 > show #!11 models
    8622 
    8623 > hide #!12 models
    8624 
    8625 > show #!12 models
    8626 
    8627 > hide #!12 models
    8628 
    8629 > show #!12 models
    8630 
    8631 > hide #!12 models
    8632 
    8633 > show #!12 models
    8634 
    8635 > hide #!12 models
    8636 
    8637 > show #!12 models
    8638 
    8639 > hide #!12 models
    8640 
    8641 > show #!12 models
    8642 
    8643 > hide #!12 models
    8644 
    8645 > hide #!11 models
    8646 
    8647 > show #!11 models
    8648 
    8649 > show #!12 models
    8650 
    8651 > hide #!11 models
    8652 
    8653 > show #!11 models
    8654 
    8655 > hide #!11 models
    8656 
    8657 > show #!11 models
    8658 
    8659 > hide #!11 models
    8660 
    8661 > show #!11 models
    8662 
    8663 > hide #!11 models
    8664 
    8665 > show #!11 models
    8666 
    8667 > hide #!11 models
    8668 
    8669 > hide #!12 models
    8670 
    8671 > show #!11 models
    8672 
    8673 > save
    8674 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers.pdb
    8675 > models #11 relModel #2
    8676 
    8677 > hide #!11 models
    8678 
    8679 > show #!12 models
    8680 
    8681 > show #!11 models
    8682 
    8683 > hide #!11 models
    8684 
    8685 > show #!11 models
    8686 
    8687 > hide #!11 models
    8688 
    8689 > show #!11 models
    8690 
    8691 > hide #!12 models
    8692 
    8693 > show #!12 models
    8694 
    8695 > hide #!12 models
    8696 
    8697 > show #!12 models
    8698 
    8699 > hide #!11 models
    8700 
    8701 > show #!11 models
    8702 
    8703 > hide #!11 models
    8704 
    8705 > show #!11 models
    8706 
    8707 > hide #!11 models
    8708 
    8709 > show #!11 models
    8710 
    8711 > hide #!11 models
    8712 
    8713 > show #!11 models
    8714 
    8715 > hide #!11 models
    8716 
    8717 > show #!11 models
    8718 
    8719 > select add #12
    8720 
    8721 80898 atoms, 81828 bonds, 5226 residues, 1 model selected 
    8722 
    8723 > hide #!11 models
    8724 
    8725 > select subtract #12
    8726 
    8727 Nothing selected 
    8728 
    8729 > show #!11 models
    8730 
    8731 > hide #!11 models
    8732 
    8733 > show #!11 models
    8734 
    8735 > hide #!11 models
    8736 
    8737 > save
    8738 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb
    8739 > models #12 relModel #2
    8740 
    8741 > open
    8742 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb
    8743 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers.pdb
    8744 
    8745 Chain information for 231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb
    8746 #13 
    8747 --- 
    8748 Chain | Description 
    8749 A B C D E F | No description available 
    8750 a b c d e f | No description available 
    8751  
    8752 Chain information for 231009_Xt_14-3_dEMhcr_6dimers.pdb #14 
    8753 --- 
    8754 Chain | Description 
    8755 A B C D E F | No description available 
    8756 a b c d e f | No description available 
    8757  
    8758 
    8759 > hide #!12 models
    8760 
    8761 > hide #13 models
    8762 
    8763 > hide #!14 models
    8764 
    8765 > show #!14 models
    8766 
    8767 > show #13 models
    8768 
    8769 > hide #13 models
    8770 
    8771 > show #13 models
    8772 
    8773 > hide #13 models
    8774 
    8775 > show #!2 models
    8776 
    8777 > select add #13
    8778 
    8779 80898 atoms, 81828 bonds, 5226 residues, 1 model selected 
    8780 
    8781 > select add #14
    8782 
    8783 161796 atoms, 163656 bonds, 30 pseudobonds, 10452 residues, 3 models selected 
    8784 
    8785 > show sel & #!14 atoms
    8786 
    8787 > style sel & #!14 stick
    8788 
    8789 Changed 80898 atom styles 
    8790 
    8791 > hide sel & #!14 atoms
    8792 
    8793 > show sel & #!14 cartoons
    8794 
    8795 > show sel & #!14 atoms
    8796 
    8797 > hide HC
    8798 
    8799 > show #13 models
    8800 
    8801 > style sel stick
    8802 
    8803 Changed 161796 atom styles 
    8804 
    8805 > show sel atoms
    8806 
    8807 > hide sel cartoons
    8808 
    8809 > show sel cartoons
    8810 
    8811 > hide HC
    8812 
    8813 > color (#13#!14 & sel) byhetero
    8814 
    8815 > select clear
    8816 
    8817 > hide #13 models
    8818 
    8819 > show #13 models
    8820 
    8821 > hide #!14 models
    8822 
    8823 > show #!14 models
    8824 
    8825 > hide #13 models
    8826 
    8827 > show #13 models
    8828 
    8829 > hide #13 models
    8830 
    8831 > show #13 models
    8832 
    8833 > hide #13 models
    8834 
    8835 > show #13 models
    8836 
    8837 > hide #13 models
    8838 
    8839 > show #13 models
    8840 
    8841 > hide #!14 models
    8842 
    8843 > show #!14 models
    8844 
    8845 > hide #!14 models
    8846 
    8847 > show #!14 models
    8848 
    8849 > hide #!14 models
    8850 
    8851 > show #!14 models
    8852 
    8853 > hide #13 models
    8854 
    8855 > show #13 models
    8856 
    8857 > hide #13 models
    8858 
    8859 > show #13 models
    8860 
    8861 > hide #13 models
    8862 
    8863 > show #13 models
    8864 
    8865 > hide #13 models
    8866 
    8867 > show #13 models
    8868 
    8869 > hide #13 models
    8870 
    8871 > show #13 models
    8872 
    8873 > hide #13 models
    8874 
    8875 > show #13 models
    8876 
    8877 > hide #13 models
    8878 
    8879 > show #13 models
    8880 
    8881 > hide #13 models
    8882 
    8883 > show #13 models
    8884 
    8885 > hide #13 models
    8886 
    8887 > show #13 models
    8888 
    8889 > hide #13 models
    8890 
    8891 > show #13 models
    8892 
    8893 > hide #13 models
    8894 
    8895 > show #13 models
    8896 
    8897 > hide #13 models
    8898 
    8899 > show #13 models
    8900 
    8901 > hide #13 models
    8902 
    8903 > show #13 models
    8904 
    8905 > hide #13 models
    8906 
    8907 > show #13 models
    8908 
    8909 > hide #13 models
    8910 
    8911 > hide #!14 models
    8912 
    8913 > hide #14.1 models
    8914 
    8915 > show #13 models
    8916 
    8917 > hide #13 models
    8918 
    8919 > close #11,13-14#4-10,12
    8920 
    8921 > open
    8922 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    8923 
    8924 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #4 
    8925 --- 
    8926 Chain | Description 
    8927 B | No description available 
    8928 a | No description available 
    8929  
    8930 
    8931 > split #4
    8932 
    8933 Split 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) into 5 models 
    8934 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb B #4.1 
    8935 --- 
    8936 Chain | Description 
    8937 B | No description available 
    8938  
    8939 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb a #4.4 
    8940 --- 
    8941 Chain | Description 
    8942 a | No description available 
    8943  
    8944 
    8945 > fitmap #4.4 inMap #2
    8946 
    8947 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb a (#4.4) to map
    8948 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6767 atoms 
    8949 average map value = 0.2323, steps = 64 
    8950 shifted from previous position = 0.263 
    8951 rotated from previous position = 0.421 degrees 
    8952 atoms outside contour = 4189, contour level = 0.228 
    8953  
    8954 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb a (#4.4) relative to
    8955 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8956 Matrix rotation and translation 
    8957 0.99997376 -0.00322836 -0.00648587 1.99967891 
    8958 0.00323636 0.99999401 0.00122409 -0.95465235 
    8959 0.00648188 -0.00124505 0.99997822 -0.58958943 
    8960 Axis -0.16798414 -0.88223771 0.43981582 
    8961 Axis point 108.77586303 0.00000000 314.27047849 
    8962 Rotation angle (degrees) 0.42109051 
    8963 Shift along axis 0.24700520 
    8964  
    8965 
    8966 > fitmap #4.5 inMap #2
    8967 
    8968 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb nt (#4.5) to map
    8969 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 44 atoms 
    8970 average map value = 0.4923, steps = 48 
    8971 shifted from previous position = 0.376 
    8972 rotated from previous position = 1.82 degrees 
    8973 atoms outside contour = 15, contour level = 0.228 
    8974  
    8975 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb nt (#4.5) relative to
    8976 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    8977 Matrix rotation and translation 
    8978 0.99953081 -0.02063670 0.02263365 -1.79098418 
    8979 0.02043912 0.99975125 0.00892623 -4.90196754 
    8980 -0.02281223 -0.00845943 0.99970398 4.19361690 
    8981 Axis -0.27302719 0.71368923 0.64506111 
    8982 Axis point 191.31228682 0.00000000 86.76650600 
    8983 Rotation angle (degrees) 1.82453160 
    8984 Shift along axis -0.30435491 
    8985  
    8986 
    8987 > show #!1 models
    8988 
    8989 > hide #!1 models
    8990 
    8991 > show #!1 models
    8992 
    8993 > combine #4.4,4.5,4.2
    8994 
    8995 No structures specified 
    8996 
    8997 > combine #4.4-4.5
    8998 
    8999 No structures specified 
    9000 
    9001 > select add #4.3
    9002 
    9003 40 atoms, 42 bonds, 1 residue, 1 model selected 
    9004 
    9005 > select add #4.4
    9006 
    9007 6807 atoms, 6886 bonds, 439 residues, 2 models selected 
    9008 
    9009 > select add #4.5
    9010 
    9011 6851 atoms, 6932 bonds, 440 residues, 3 models selected 
    9012 
    9013 > select subtract #4.4
    9014 
    9015 84 atoms, 88 bonds, 2 residues, 2 models selected 
    9016 
    9017 > select add #4.4
    9018 
    9019 6851 atoms, 6932 bonds, 440 residues, 3 models selected 
    9020 
    9021 > select subtract #4.5
    9022 
    9023 6807 atoms, 6886 bonds, 439 residues, 2 models selected 
    9024 
    9025 > select add #4.2
    9026 
    9027 6808 atoms, 6886 bonds, 440 residues, 3 models selected 
    9028 
    9029 > select subtract #4.3
    9030 
    9031 6768 atoms, 6844 bonds, 439 residues, 2 models selected 
    9032 
    9033 > select add #4.5
    9034 
    9035 6812 atoms, 6890 bonds, 440 residues, 3 models selected 
    9036 
    9037 > open
    9038 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    9039 
    9040 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 
    9041 --- 
    9042 Chain | Description 
    9043 B | No description available 
    9044 a | No description available 
    9045  
    9046 
    9047 > close #4#5
    9048 
    9049 > open
    9050 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    9051 
    9052 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #4 
    9053 --- 
    9054 Chain | Description 
    9055 B | No description available 
    9056 a | No description available 
    9057  
    9058 
    9059 > open
    9060 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb
    9061 
    9062 Chain information for 231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb #5 
    9063 --- 
    9064 Chain | Description 
    9065 A B C D E F | No description available 
    9066 a b c d e f | No description available 
    9067  
    9068 
    9069 > close #5
    9070 
    9071 > open
    9072 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    9073 
    9074 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 
    9075 --- 
    9076 Chain | Description 
    9077 B | No description available 
    9078 a | No description available 
    9079  
    9080 
    9081 > hide #!5 models
    9082 
    9083 > show #!5 models
    9084 
    9085 > hide #!5 models
    9086 
    9087 > show #!5 models
    9088 
    9089 > hide #!2 models
    9090 
    9091 > hide #!1 models
    9092 
    9093 > hide #!5 models
    9094 
    9095 > select up
    9096 
    9097 3726 atoms, 3760 bonds, 244 residues, 1 model selected 
    9098 
    9099 > select up
    9100 
    9101 4571 atoms, 4620 bonds, 299 residues, 1 model selected 
    9102 
    9103 > select up
    9104 
    9105 6671 atoms, 6748 bonds, 431 residues, 1 model selected 
    9106 
    9107 > select up
    9108 
    9109 13483 atoms, 13638 bonds, 871 residues, 1 model selected 
    9110 
    9111 > select down
    9112 
    9113 6671 atoms, 6748 bonds, 431 residues, 1 model selected 
    9114 
    9115 > delete atoms sel
    9116 
    9117 > delete bonds sel
    9118 
    9119 > show #!5 models
    9120 
    9121 > hide #!4 models
    9122 
    9123 > show #!4 models
    9124 
    9125 > hide #!5 models
    9126 
    9127 > show #!5 models
    9128 
    9129 > hide #!4 models
    9130 
    9131 > show #!4 models
    9132 
    9133 > hide #!5 models
    9134 
    9135 > show #!5 models
    9136 
    9137 > hide #!5 models
    9138 
    9139 > show #!5 models
    9140 
    9141 > hide #!4 models
    9142 
    9143 > show #!4 models
    9144 
    9145 > hide #!5 models
    9146 
    9147 > show #!5 models
    9148 
    9149 > select up
    9150 
    9151 7502 atoms, 7544 bonds, 490 residues, 2 models selected 
    9152 
    9153 > select up
    9154 
    9155 7580 atoms, 7630 bonds, 490 residues, 2 models selected 
    9156 
    9157 > select up
    9158 
    9159 9604 atoms, 9702 bonds, 622 residues, 2 models selected 
    9160 
    9161 > select up
    9162 
    9163 13622 atoms, 13780 bonds, 878 residues, 2 models selected 
    9164 
    9165 > select up
    9166 
    9167 20295 atoms, 20528 bonds, 4 pseudobonds, 1311 residues, 3 models selected 
    9168 
    9169 > select down
    9170 
    9171 13623 atoms, 13780 bonds, 1 pseudobond, 879 residues, 3 models selected 
    9172 
    9173 > delete atoms (#!4-5 & sel)
    9174 
    9175 > delete bonds (#!4-5 & sel)
    9176 
    9177 > hide #!5 models
    9178 
    9179 > show #!5 models
    9180 
    9181 > hide #!5 models
    9182 
    9183 > show #!5 models
    9184 
    9185 > close #5
    9186 
    9187 > open
    9188 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    9189 
    9190 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #4 
    9191 --- 
    9192 Chain | Description 
    9193 B | No description available 
    9194 a | No description available 
    9195  
    9196 
    9197 > open
    9198 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb
    9199 
    9200 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb #5 
    9201 --- 
    9202 Chain | Description 
    9203 B | No description available 
    9204 a | No description available 
    9205  
    9206 
    9207 > hide #!5 models
    9208 
    9209 > hide #!4 models
    9210 
    9211 > show #!5 models
    9212 
    9213 > select up
    9214 
    9215 4515 atoms, 4564 bonds, 295 residues, 1 model selected 
    9216 
    9217 > select up
    9218 
    9219 4976 atoms, 5032 bonds, 324 residues, 1 model selected 
    9220 
    9221 > select up
    9222 
    9223 6671 atoms, 6748 bonds, 431 residues, 1 model selected 
    9224 
    9225 > select up
    9226 
    9227 13483 atoms, 13638 bonds, 871 residues, 1 model selected 
    9228 
    9229 > select down
    9230 
    9231 6671 atoms, 6748 bonds, 431 residues, 1 model selected 
    9232 
    9233 > delete atoms sel
    9234 
    9235 > delete bonds sel
    9236 
    9237 > show #!4 models
    9238 
    9239 > hide #!5 models
    9240 
    9241 > select up
    9242 
    9243 3716 atoms, 3751 bonds, 242 residues, 1 model selected 
    9244 
    9245 > select up
    9246 
    9247 4458 atoms, 4503 bonds, 292 residues, 1 model selected 
    9248 
    9249 > select up
    9250 
    9251 6671 atoms, 6748 bonds, 431 residues, 1 model selected 
    9252 
    9253 > select ~sel
    9254 
    9255 40590 atoms, 41056 bonds, 18 pseudobonds, 2622 residues, 10 models selected 
    9256 
    9257 > delete atoms (#!4 & sel)
    9258 
    9259 > delete bonds (#!4 & sel)
    9260 
    9261 > show #!5 models
    9262 
    9263 > select clear
    9264 
    9265 > select add #1
    9266 
    9267 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    9268 
    9269 > select add #2
    9270 
    9271 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 4 models selected 
    9272 
    9273 > select add #3
    9274 
    9275 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 6 models selected 
    9276 
    9277 > select subtract #2
    9278 
    9279 26966 atoms, 27276 bonds, 10 pseudobonds, 1742 residues, 4 models selected 
    9280 
    9281 > select subtract #1
    9282 
    9283 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    9284 
    9285 > select subtract #3
    9286 
    9287 Nothing selected 
    9288 
    9289 > show #!1 models
    9290 
    9291 > show #!2 models
    9292 
    9293 > show #!3 models
    9294 
    9295 > hide #!3 models
    9296 
    9297 > hide #!2 models
    9298 
    9299 > show #!2 models
    9300 
    9301 > hide #!2 models
    9302 
    9303 > hide #!1 models
    9304 
    9305 > show #!3 models
    9306 
    9307 > hide #!3 models
    9308 
    9309 > fitmap #4 inMap #2
    9310 
    9311 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) to map
    9312 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6671 atoms 
    9313 average map value = 0.2292, steps = 44 
    9314 shifted from previous position = 0.102 
    9315 rotated from previous position = 0.348 degrees 
    9316 atoms outside contour = 4160, contour level = 0.228 
    9317  
    9318 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) relative to
    9319 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9320 Matrix rotation and translation 
    9321 0.99998612 0.00263436 -0.00456278 0.49266974 
    9322 -0.00264814 0.99999194 -0.00301861 0.87319663 
    9323 0.00455479 0.00303065 0.99998503 -1.07160056 
    9324 Axis 0.49787195 -0.75040185 -0.43476498 
    9325 Axis point 230.26259946 0.00000000 101.17230727 
    9326 Rotation angle (degrees) 0.34808092 
    9327 Shift along axis 0.05593247 
    9328  
    9329 
    9330 > fitmap #5 inMap #2
    9331 
    9332 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) to map
    9333 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6812 atoms 
    9334 average map value = 0.234, steps = 64 
    9335 shifted from previous position = 0.263 
    9336 rotated from previous position = 0.434 degrees 
    9337 atoms outside contour = 4198, contour level = 0.228 
    9338  
    9339 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) relative to
    9340 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9341 Matrix rotation and translation 
    9342 0.99997183 -0.00311749 -0.00682726 2.07298412 
    9343 0.00312458 0.99999459 0.00102802 -0.89152478 
    9344 0.00682401 -0.00104933 0.99997617 -0.64621433 
    9345 Axis -0.13708477 -0.90085122 0.41191606 
    9346 Axis point 111.03165532 0.00000000 308.25091629 
    9347 Rotation angle (degrees) 0.43412697 
    9348 Shift along axis 0.25277058 
    9349  
    9350 
    9351 > fitmap #5 inMap #2
    9352 
    9353 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) to map
    9354 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6812 atoms 
    9355 average map value = 0.234, steps = 44 
    9356 shifted from previous position = 0.017 
    9357 rotated from previous position = 0.0187 degrees 
    9358 atoms outside contour = 4211, contour level = 0.228 
    9359  
    9360 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) relative to
    9361 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9362 Matrix rotation and translation 
    9363 0.99997304 -0.00328422 -0.00656684 2.03265762 
    9364 0.00329173 0.99999394 0.00113349 -0.94082457 
    9365 0.00656308 -0.00115507 0.99997780 -0.61428470 
    9366 Axis -0.15398842 -0.88346278 0.44247156 
    9367 Axis point 111.27243527 0.00000000 314.85426886 
    9368 Rotation angle (degrees) 0.42576529 
    9369 Shift along axis 0.24637424 
    9370  
    9371 
    9372 > fitmap #4 inMap #2
    9373 
    9374 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) to map
    9375 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6671 atoms 
    9376 average map value = 0.2292, steps = 44 
    9377 shifted from previous position = 0.00114 
    9378 rotated from previous position = 0.00759 degrees 
    9379 atoms outside contour = 4161, contour level = 0.228 
    9380  
    9381 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#4) relative to
    9382 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9383 Matrix rotation and translation 
    9384 0.99998599 0.00263726 -0.00458994 0.49882226 
    9385 -0.00265172 0.99999153 -0.00314818 0.89984348 
    9386 0.00458160 0.00316030 0.99998451 -1.09406683 
    9387 Axis 0.51187481 -0.74418624 -0.42915152 
    9388 Axis point 233.96902158 0.00000000 101.80660444 
    9389 Rotation angle (degrees) 0.35306631 
    9390 Shift along axis 0.05520386 
    9391  
    9392 
    9393 > fitmap #5 inMap #2
    9394 
    9395 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) to map
    9396 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 6812 atoms 
    9397 average map value = 0.234, steps = 40 
    9398 shifted from previous position = 0.00632 
    9399 rotated from previous position = 0.00576 degrees 
    9400 atoms outside contour = 4206, contour level = 0.228 
    9401  
    9402 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed.pdb (#5) relative to
    9403 Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9404 Matrix rotation and translation 
    9405 0.99997240 -0.00328036 -0.00666654 2.05784322 
    9406 0.00328807 0.99999394 0.00114610 -0.94314135 
    9407 0.00666274 -0.00116799 0.99997712 -0.63091106 
    9408 Axis -0.15387304 -0.88631898 0.43676282 
    9409 Axis point 111.74669893 0.00000000 313.84524523 
    9410 Rotation angle (degrees) 0.43083710 
    9411 Shift along axis 0.24371899 
    9412  
    9413 
    9414 > select up
    9415 
    9416 6321 atoms, 2823 bonds, 4 pseudobonds, 414 residues, 3 models selected 
    9417 
    9418 > select up
    9419 
    9420 6366 atoms, 6417 bonds, 4 pseudobonds, 414 residues, 3 models selected 
    9421 
    9422 > select up
    9423 
    9424 8672 atoms, 8759 bonds, 4 pseudobonds, 562 residues, 3 models selected 
    9425 
    9426 > select up
    9427 
    9428 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 3 models selected 
    9429 
    9430 > select down
    9431 
    9432 8672 atoms, 8759 bonds, 4 pseudobonds, 562 residues, 3 models selected 
    9433 
    9434 > select clear
    9435 
    9436 > combine #4-5
    9437 
    9438 > save
    9439 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9440 > models #6 relModel #2
    9441 
    9442 > hide #!4 models
    9443 
    9444 > hide #!5 models
    9445 
    9446 > open
    9447 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9448 
    9449 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9450 #7 
    9451 --- 
    9452 Chain | Description 
    9453 B | No description available 
    9454 a | No description available 
    9455  
    9456 
    9457 > hide #!6 models
    9458 
    9459 > open
    9460 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9461 
    9462 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9463 #8 
    9464 --- 
    9465 Chain | Description 
    9466 B | No description available 
    9467 a | No description available 
    9468  
    9469 
    9470 > open
    9471 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9472 
    9473 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9474 #9 
    9475 --- 
    9476 Chain | Description 
    9477 B | No description available 
    9478 a | No description available 
    9479  
    9480 
    9481 > open
    9482 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9483 
    9484 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9485 #10 
    9486 --- 
    9487 Chain | Description 
    9488 B | No description available 
    9489 a | No description available 
    9490  
    9491 
    9492 > open
    9493 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9494 
    9495 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9496 #11 
    9497 --- 
    9498 Chain | Description 
    9499 B | No description available 
    9500 a | No description available 
    9501  
    9502 
    9503 > open
    9504 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9505 
    9506 Chain information for 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb
    9507 #12 
    9508 --- 
    9509 Chain | Description 
    9510 B | No description available 
    9511 a | No description available 
    9512  
    9513 
    9514 > ui tool show Matchmaker
    9515 
    9516 > select add #3
    9517 
    9518 13483 atoms, 13638 bonds, 5 pseudobonds, 871 residues, 2 models selected 
    9519 
    9520 > select subtract #3
    9521 
    9522 Nothing selected 
    9523 
    9524 > select add #2
    9525 
    9526 2 models selected 
    9527 
    9528 > select subtract #2
    9529 
    9530 Nothing selected 
    9531 
    9532 > select add #2
    9533 
    9534 2 models selected 
    9535 
    9536 > show #!2 models
    9537 
    9538 > select add #7
    9539 
    9540 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 4 models selected 
    9541 
    9542 > select add #10
    9543 
    9544 26966 atoms, 27276 bonds, 8 pseudobonds, 1742 residues, 6 models selected 
    9545 
    9546 > ui mousemode right "translate selected models"
    9547 
    9548 > view matrix models
    9549 > #2,1,0,0,0.24818,0,1,0,-0.5083,0,0,1,-0.13664,#7,1,0,0,0.24818,0,1,0,-0.5083,0,0,1,-0.13664,#10,1,0,0,0.24818,0,1,0,-0.5083,0,0,1,-0.13664
    9550 
    9551 > select subtract #10
    9552 
    9553 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 4 models selected 
    9554 
    9555 > select add #10
    9556 
    9557 26966 atoms, 27276 bonds, 8 pseudobonds, 1742 residues, 6 models selected 
    9558 
    9559 > select subtract #2
    9560 
    9561 26966 atoms, 27276 bonds, 8 pseudobonds, 1742 residues, 4 models selected 
    9562 
    9563 > view matrix models
    9564 > #7,1,0,0,-22.483,0,1,0,46.277,0,0,1,9.4719,#10,1,0,0,-22.483,0,1,0,46.277,0,0,1,9.4719
    9565 
    9566 > ui mousemode right "rotate selected models"
    9567 
    9568 > view matrix models
    9569 > #7,0.95114,0.30512,0.047191,-74.374,-0.30831,0.94679,0.092419,73.027,-0.016481,-0.10245,0.9946,28.733,#10,0.95114,0.30512,0.047191,-74.374,-0.30831,0.94679,0.092419,73.027,-0.016481,-0.10245,0.9946,28.733
    9570 
    9571 > view matrix models
    9572 > #7,0.91052,0.4134,-0.0074958,-73.787,-0.41339,0.90988,-0.034907,120.73,-0.0076101,0.034882,0.99936,5.1517,#10,0.91052,0.4134,-0.0074958,-73.787,-0.41339,0.90988,-0.034907,120.73,-0.0076101,0.034882,0.99936,5.1517
    9573 
    9574 > view matrix models
    9575 > #7,0.91547,0.40122,-0.030577,-67.338,-0.40236,0.91189,-0.080998,129.36,-0.0046154,0.086454,0.99625,-2.5593,#10,0.91547,0.40122,-0.030577,-67.338,-0.40236,0.91189,-0.080998,129.36,-0.0046154,0.086454,0.99625,-2.5593
    9576 
    9577 > view matrix models
    9578 > #7,0.90867,0.39374,-0.1389,-40.985,-0.40077,0.91582,-0.025711,116.13,0.11708,0.079029,0.98997,-15.474,#10,0.90867,0.39374,-0.1389,-40.985,-0.40077,0.91582,-0.025711,116.13,0.11708,0.079029,0.98997,-15.474
    9579 
    9580 > view matrix models
    9581 > #7,0.9128,0.40387,-0.060684,-60.651,-0.40597,0.91348,-0.027176,117.49,0.044458,0.049442,0.99779,-3.3846,#10,0.9128,0.40387,-0.060684,-60.651,-0.40597,0.91348,-0.027176,117.49,0.044458,0.049442,0.99779,-3.3846
    9582 
    9583 > view matrix models
    9584 > #7,0.89078,0.44003,0.11353,-102.6,-0.43851,0.89786,-0.039346,126.79,-0.11924,-0.014733,0.99276,28.56,#10,0.89078,0.44003,0.11353,-102.6,-0.43851,0.89786,-0.039346,126.79,-0.11924,-0.014733,0.99276,28.56
    9585 
    9586 > view matrix models
    9587 > #7,0.91332,0.40261,0.061224,-87.894,-0.40116,0.91534,-0.035047,118.35,-0.070151,0.0074492,0.99751,17.794,#10,0.91332,0.40261,0.061224,-87.894,-0.40116,0.91534,-0.035047,118.35,-0.070151,0.0074492,0.99751,17.794
    9588 
    9589 > ui mousemode right "translate selected models"
    9590 
    9591 > view matrix models
    9592 > #7,0.91332,0.40261,0.061224,-85.143,-0.40116,0.91534,-0.035047,119.23,-0.070151,0.0074492,0.99751,17.623,#10,0.91332,0.40261,0.061224,-85.143,-0.40116,0.91534,-0.035047,119.23,-0.070151,0.0074492,0.99751,17.623
    9593 
    9594 > select subtract #10
    9595 
    9596 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 2 models selected 
    9597 
    9598 > view matrix models
    9599 > #7,0.91332,0.40261,0.061224,-90.176,-0.40116,0.91534,-0.035047,131.39,-0.070151,0.0074492,0.99751,-61.862
    9600 
    9601 > view matrix models
    9602 > #7,0.91332,0.40261,0.061224,-97.127,-0.40116,0.91534,-0.035047,119.77,-0.070151,0.0074492,0.99751,-62.039
    9603 
    9604 > view matrix models
    9605 > #7,0.91332,0.40261,0.061224,-89.905,-0.40116,0.91534,-0.035047,116.9,-0.070151,0.0074492,0.99751,-68.105
    9606 
    9607 > select add #8
    9608 
    9609 26966 atoms, 27276 bonds, 8 pseudobonds, 1742 residues, 4 models selected 
    9610 
    9611 > select subtract #7
    9612 
    9613 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 2 models selected 
    9614 
    9615 > view matrix models #8,1,0,0,12.046,0,1,0,1.5826,0,0,1,-82.489
    9616 
    9617 > view matrix models #8,1,0,0,4.9572,0,1,0,-7.3867,0,0,1,-82.426
    9618 
    9619 > view matrix models #8,1,0,0,-1.8307,0,1,0,-5.2244,0,0,1,-82.633
    9620 
    9621 > select subtract #8
    9622 
    9623 Nothing selected 
    9624 
    9625 > select add #9
    9626 
    9627 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 2 models selected 
    9628 
    9629 > select add #12
    9630 
    9631 26966 atoms, 27276 bonds, 8 pseudobonds, 1742 residues, 4 models selected 
    9632 
    9633 > view matrix models
    9634 > #9,1,0,0,43.979,0,1,0,-29.31,0,0,1,-9.3433,#12,1,0,0,43.979,0,1,0,-29.31,0,0,1,-9.3433
    9635 
    9636 > view matrix models
    9637 > #9,1,0,0,42.682,0,1,0,-37.885,0,0,1,-9.098,#12,1,0,0,42.682,0,1,0,-37.885,0,0,1,-9.098
    9638 
    9639 > ui mousemode right "rotate selected models"
    9640 
    9641 > view matrix models
    9642 > #9,0.71815,-0.69222,0.071349,170.29,0.69238,0.72105,0.026386,-88.445,-0.069711,0.030452,0.9971,-4.3218,#12,0.71815,-0.69222,0.071349,170.29,0.69238,0.72105,0.026386,-88.445,-0.069711,0.030452,0.9971,-4.3218
    9643 
    9644 > ui mousemode right "translate selected models"
    9645 
    9646 > view matrix models
    9647 > #9,0.71815,-0.69222,0.071349,167.41,0.69238,0.72105,0.026386,-86.381,-0.069711,0.030452,0.9971,-1.4692,#12,0.71815,-0.69222,0.071349,167.41,0.69238,0.72105,0.026386,-86.381,-0.069711,0.030452,0.9971,-1.4692
    9648 
    9649 > select subtract #9
    9650 
    9651 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 2 models selected 
    9652 
    9653 > select add #9
    9654 
    9655 26966 atoms, 27276 bonds, 8 pseudobonds, 1742 residues, 4 models selected 
    9656 
    9657 > select subtract #12
    9658 
    9659 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 2 models selected 
    9660 
    9661 > view matrix models
    9662 > #9,0.71815,-0.69222,0.071349,170.2,0.69238,0.72105,0.026386,-82.458,-0.069711,0.030452,0.9971,-82.501
    9663 
    9664 > view matrix models
    9665 > #9,0.71815,-0.69222,0.071349,169.51,0.69238,0.72105,0.026386,-87.115,-0.069711,0.030452,0.9971,-83.555
    9666 
    9667 > fitmap #7 inMap #2
    9668 
    9669 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#7) to
    9670 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9671 average map value = 0.1219, steps = 128 
    9672 shifted from previous position = 5.23 
    9673 rotated from previous position = 4.71 degrees 
    9674 atoms outside contour = 10872, contour level = 0.228 
    9675  
    9676 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#7)
    9677 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9678 Matrix rotation and translation 
    9679 0.90075949 0.43427603 -0.00605621 -73.43295203 
    9680 -0.43429984 0.90076213 -0.00335180 117.60370511 
    9681 0.00399960 0.00564937 0.99997604 -79.48437836 
    9682 Axis 0.01036189 -0.01157595 -0.99987931 
    9683 Axis point 222.18936358 221.71303518 0.00000000 
    9684 Rotation angle (degrees) 25.74332707 
    9685 Shift along axis 77.35250658 
    9686  
    9687 
    9688 > fitmap #8 inMap #2
    9689 
    9690 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#8) to
    9691 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9692 average map value = 0.2277, steps = 76 
    9693 shifted from previous position = 4.49 
    9694 rotated from previous position = 0.393 degrees 
    9695 atoms outside contour = 8545, contour level = 0.228 
    9696  
    9697 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#8)
    9698 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9699 Matrix rotation and translation 
    9700 0.99997680 -0.00680364 -0.00031929 2.18640833 
    9701 0.00680391 0.99997650 0.00084292 -2.93211955 
    9702 0.00031355 -0.00084507 0.99999959 -80.94671445 
    9703 Axis -0.12297410 -0.04610330 0.99133842 
    9704 Axis point 971.67675973 -1134.78946751 0.00000000 
    9705 Rotation angle (degrees) 0.39323669 
    9706 Shift along axis -80.37927895 
    9707  
    9708 
    9709 > fitmap #9 inMap #2
    9710 
    9711 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#9) to
    9712 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9713 average map value = 0.2111, steps = 88 
    9714 shifted from previous position = 2.94 
    9715 rotated from previous position = 18.5 degrees 
    9716 atoms outside contour = 8767, contour level = 0.228 
    9717  
    9718 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#9)
    9719 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9720 Matrix rotation and translation 
    9721 0.89973488 -0.43640947 0.00489001 119.79396393 
    9722 0.43637917 0.89974165 0.00617912 -77.33185391 
    9723 -0.00709638 -0.00342567 0.99996895 -87.57958274 
    9724 Axis -0.01100302 0.01373131 0.99984518 
    9725 Axis point 225.04829139 220.52636381 0.00000000 
    9726 Rotation angle (degrees) 25.87835297 
    9727 Shift along axis -89.94598635 
    9728  
    9729 
    9730 > fitmap #10 inMap #2
    9731 
    9732 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#10) to
    9733 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9734 average map value = 0.1816, steps = 80 
    9735 shifted from previous position = 1.65 
    9736 rotated from previous position = 4.25 degrees 
    9737 atoms outside contour = 9529, contour level = 0.228 
    9738  
    9739 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#10)
    9740 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9741 Matrix rotation and translation 
    9742 0.90595451 0.42337398 -0.00095043 -73.22855240 
    9743 -0.42337502 0.90595286 -0.00173118 116.41030731 
    9744 0.00012811 0.00197076 0.99999805 7.55607402 
    9745 Axis 0.00437189 -0.00127373 -0.99998963 
    9746 Axis point 225.40793631 222.95198991 0.00000000 
    9747 Rotation angle (degrees) 25.04809547 
    9748 Shift along axis -8.02441791 
    9749  
    9750 
    9751 > fitmap #11 inMap #2
    9752 
    9753 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#11) to
    9754 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9755 average map value = 0.2316, steps = 68 
    9756 shifted from previous position = 0.581 
    9757 rotated from previous position = 0.0133 degrees 
    9758 atoms outside contour = 8372, contour level = 0.228 
    9759  
    9760 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#11)
    9761 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9762 Matrix rotation and translation 
    9763 0.99999999 0.00014449 -0.00002166 -0.01781924 
    9764 -0.00014449 0.99999997 0.00018086 -0.02357251 
    9765 0.00002169 -0.00018085 0.99999998 0.02924277 
    9766 Axis -0.77787743 -0.09321991 -0.62146340 
    9767 Axis point 0.00000000 154.41507641 131.45157093 
    9768 Rotation angle (degrees) 0.01332110 
    9769 Shift along axis -0.00211470 
    9770  
    9771 
    9772 > fitmap #12 inMap #2
    9773 
    9774 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#12) to
    9775 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9776 average map value = 0.2073, steps = 92 
    9777 shifted from previous position = 2.7 
    9778 rotated from previous position = 18.8 degrees 
    9779 atoms outside contour = 8874, contour level = 0.228 
    9780  
    9781 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#12)
    9782 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9783 Matrix rotation and translation 
    9784 0.90231729 -0.43104597 0.00478333 117.37109490 
    9785 0.43101834 0.90232426 0.00584071 -75.38717878 
    9786 -0.00683372 -0.00320847 0.99997150 -6.62191933 
    9787 Axis -0.01049557 0.01347388 0.99985414 
    9788 Axis point 224.74304937 221.14695452 0.00000000 
    9789 Rotation angle (degrees) 25.53707397 
    9790 Shift along axis -8.86858759 
    9791  
    9792 
    9793 > select clear
    9794 
    9795 > select add #7
    9796 
    9797 13483 atoms, 13638 bonds, 4 pseudobonds, 871 residues, 2 models selected 
    9798 
    9799 > ui mousemode right "rotate selected models"
    9800 
    9801 > view matrix models
    9802 > #7,0.95917,0.25606,0.12012,-81.196,-0.26336,0.96344,0.049209,73.791,-0.10313,-0.078835,0.99154,-50.946
    9803 
    9804 > fitmap #7 inMap #2
    9805 
    9806 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#7) to
    9807 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9808 average map value = 0.1828, steps = 104 
    9809 shifted from previous position = 4.56 
    9810 rotated from previous position = 12.1 degrees 
    9811 atoms outside contour = 9452, contour level = 0.228 
    9812  
    9813 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#7)
    9814 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9815 Matrix rotation and translation 
    9816 0.90885158 0.41711921 0.00061083 -72.32333142 
    9817 -0.41711821 0.90885131 -0.00129839 113.09421604 
    9818 -0.00109673 0.00092525 0.99999897 -73.11764911 
    9819 Axis 0.00266546 0.00204684 -0.99999435 
    9820 Axis point 222.17351896 222.40426650 0.00000000 
    9821 Rotation angle (degrees) 24.65296119 
    9822 Shift along axis 73.15594708 
    9823  
    9824 
    9825 > fitmap #7 inMap #2
    9826 
    9827 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#7) to
    9828 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9829 average map value = 0.1828, steps = 40 
    9830 shifted from previous position = 0.00421 
    9831 rotated from previous position = 0.0176 degrees 
    9832 atoms outside contour = 9453, contour level = 0.228 
    9833  
    9834 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#7)
    9835 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9836 Matrix rotation and translation 
    9837 0.90880194 0.41722721 0.00070112 -72.35238855 
    9838 -0.41722580 0.90880151 -0.00156694 113.17889223 
    9839 -0.00129095 0.00113151 0.99999853 -73.12668364 
    9840 Axis 0.00323377 0.00238725 -0.99999192 
    9841 Axis point 222.20136531 222.54855497 0.00000000 
    9842 Rotation angle (degrees) 24.65982095 
    9843 Shift along axis 73.16230864 
    9844  
    9845 
    9846 > fitmap #8 inMap #2
    9847 
    9848 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#8) to
    9849 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9850 average map value = 0.2277, steps = 28 
    9851 shifted from previous position = 0.0057 
    9852 rotated from previous position = 0.00786 degrees 
    9853 atoms outside contour = 8540, contour level = 0.228 
    9854  
    9855 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#8)
    9856 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9857 Matrix rotation and translation 
    9858 0.99997699 -0.00678066 -0.00018707 2.15344972 
    9859 0.00678081 0.99997668 0.00081462 -2.92228347 
    9860 0.00018154 -0.00081587 0.99999965 -80.94013957 
    9861 Axis -0.11932653 -0.02697605 0.99248852 
    9862 Axis point 747.46801199 -1101.77514021 0.00000000 
    9863 Rotation angle (degrees) 0.39145080 
    9864 Shift along axis -80.51029176 
    9865  
    9866 
    9867 > fitmap #9 inMap #2
    9868 
    9869 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#9) to
    9870 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9871 average map value = 0.2111, steps = 40 
    9872 shifted from previous position = 0.00203 
    9873 rotated from previous position = 0.00793 degrees 
    9874 atoms outside contour = 8767, contour level = 0.228 
    9875  
    9876 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#9)
    9877 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9878 Matrix rotation and translation 
    9879 0.89972352 -0.43643139 0.00502209 119.76848196 
    9880 0.43640040 0.89973112 0.00621257 -77.33998778 
    9881 -0.00722989 -0.00339795 0.99996809 -87.56862867 
    9882 Axis -0.01100898 0.01403482 0.99984090 
    9883 Axis point 224.98406781 220.46425210 0.00000000 
    9884 Rotation angle (degrees) 25.87984594 
    9885 Shift along axis -89.95867777 
    9886  
    9887 
    9888 > fitmap #10 inMap #2
    9889 
    9890 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#10) to
    9891 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9892 average map value = 0.1816, steps = 44 
    9893 shifted from previous position = 0.0262 
    9894 rotated from previous position = 0.00649 degrees 
    9895 atoms outside contour = 9526, contour level = 0.228 
    9896  
    9897 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#10)
    9898 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9899 Matrix rotation and translation 
    9900 0.90598424 0.42331023 -0.00100545 -73.21067778 
    9901 -0.42331138 0.90598274 -0.00166153 116.36762892 
    9902 0.00020758 0.00193094 0.99999811 7.57388619 
    9903 Axis 0.00424325 -0.00143277 -0.99998997 
    9904 Axis point 225.36090958 222.91923330 0.00000000 
    9905 Rotation angle (degrees) 25.04405813 
    9906 Shift along axis -8.05119011 
    9907  
    9908 
    9909 > fitmap #11 inMap #2
    9910 
    9911 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#11) to
    9912 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9913 average map value = 0.2316, steps = 36 
    9914 shifted from previous position = 0.00174 
    9915 rotated from previous position = 0.00149 degrees 
    9916 atoms outside contour = 8372, contour level = 0.228 
    9917  
    9918 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#11)
    9919 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9920 Matrix rotation and translation 
    9921 0.99999999 0.00014599 -0.00001410 -0.02054051 
    9922 -0.00014599 0.99999997 0.00020570 -0.02769911 
    9923 0.00001413 -0.00020570 0.99999998 0.03306371 
    9924 Axis -0.81420974 -0.05588161 -0.57787520 
    9925 Axis point 0.00000000 158.37989838 134.90836990 
    9926 Rotation angle (degrees) 0.01447507 
    9927 Shift along axis -0.00083454 
    9928  
    9929 
    9930 > fitmap #12 inMap #2
    9931 
    9932 Fit molecule 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#12) to
    9933 map Xt_14-3_refine10repeated_deepemhancer.mrc (#2) using 13483 atoms 
    9934 average map value = 0.2073, steps = 40 
    9935 shifted from previous position = 0.0154 
    9936 rotated from previous position = 0.00615 degrees 
    9937 atoms outside contour = 8861, contour level = 0.228 
    9938  
    9939 Position of 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb (#12)
    9940 relative to Xt_14-3_refine10repeated_deepemhancer.mrc (#2) coordinates: 
    9941 Matrix rotation and translation 
    9942 0.90231448 -0.43105261 0.00471434 117.38935835 
    9943 0.43102464 0.90232072 0.00592256 -75.40614567 
    9944 -0.00680678 -0.00331201 0.99997135 -6.59426597 
    9945 Axis -0.01071043 0.01336242 0.99985336 
    9946 Axis point 224.79318101 221.16893092 0.00000000 
    9947 Rotation angle (degrees) 25.53750638 
    9948 Shift along axis -8.85819807 
    9949  
    9950 
    9951 > select clear
    9952 
    9953 > combine #7-12
    9954 
    9955 Remapping chain ID 'B' in
    9956 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'C' 
    9957 Remapping chain ID 'M' in
    9958 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'N' 
    9959 Remapping chain ID 'Nt' in
    9960 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'Nu' 
    9961 Remapping chain ID 'a' in
    9962 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'b' 
    9963 Remapping chain ID 'nt' in
    9964 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'nu' 
    9965 Remapping chain ID 'B' in
    9966 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'D' 
    9967 Remapping chain ID 'M' in
    9968 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'O' 
    9969 Remapping chain ID 'Nt' in
    9970 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'Nv' 
    9971 Remapping chain ID 'a' in
    9972 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'c' 
    9973 Remapping chain ID 'nt' in
    9974 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'nv' 
    9975 Remapping chain ID 'B' in
    9976 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'E' 
    9977 Remapping chain ID 'M' in
    9978 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'P' 
    9979 Remapping chain ID 'Nt' in
    9980 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'Nw' 
    9981 Remapping chain ID 'a' in
    9982 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'd' 
    9983 Remapping chain ID 'nt' in
    9984 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'nw' 
    9985 Remapping chain ID 'B' in
    9986 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'F' 
    9987 Remapping chain ID 'M' in
    9988 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'Q' 
    9989 Remapping chain ID 'Nt' in
    9990 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'Nx' 
    9991 Remapping chain ID 'a' in
    9992 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'e' 
    9993 Remapping chain ID 'nt' in
    9994 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'nx' 
    9995 Remapping chain ID 'B' in
    9996 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'G' 
    9997 Remapping chain ID 'M' in
    9998 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'R' 
    9999 Remapping chain ID 'Nt' in
    10000 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'Ny' 
    10001 Remapping chain ID 'a' in
    10002 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'f' 
    10003 Remapping chain ID 'nt' in
    10004 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'ny' 
    10005 
    10006 > save
    10007 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_hybrid_dock.pdb
    10008 > models #13 relModel #2
    10009 
    10010 > open
    10011 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_hybrid_dock.pdb
    10012 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb
    10013 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers.pdb
    10014 
    10015 Chain information for 231009_Xt_14-3_dEMhcr_6dimers_hybrid_dock.pdb #14 
    10016 --- 
    10017 Chain | Description 
    10018 B C D E F G | No description available 
    10019 a b c d e f | No description available 
    10020  
    10021 Chain information for 231009_Xt_14-3_dEMhcr_6dimers_individualchaindock.pdb
    10022 #15 
    10023 --- 
    10024 Chain | Description 
    10025 A B C D E F | No description available 
    10026 a b c d e f | No description available 
    10027  
    10028 Chain information for 231009_Xt_14-3_dEMhcr_6dimers.pdb #16 
    10029 --- 
    10030 Chain | Description 
    10031 A B C D E F | No description available 
    10032 a b c d e f | No description available 
    10033  
    10034 
    10035 > select add #14
    10036 
    10037 80898 atoms, 81828 bonds, 24 pseudobonds, 5226 residues, 2 models selected 
    10038 
    10039 > select add #15
    10040 
    10041 161796 atoms, 163656 bonds, 24 pseudobonds, 10452 residues, 3 models selected 
    10042 
    10043 > select add #16
    10044 
    10045 242694 atoms, 245484 bonds, 54 pseudobonds, 15678 residues, 5 models selected 
    10046 
    10047 > style sel stick
    10048 
    10049 Changed 242694 atom styles 
    10050 
    10051 > hide sel atoms
    10052 
    10053 > show sel cartoons
    10054 
    10055 > show #15#!14,16 target m
    10056 
    10057 > hide #!7 models
    10058 
    10059 > hide #!8 models
    10060 
    10061 > hide #!9 models
    10062 
    10063 > hide #!10 models
    10064 
    10065 > hide #!11 models
    10066 
    10067 > hide #!12 models
    10068 
    10069 > hide #!13 models
    10070 
    10071 > hide #!2 models
    10072 
    10073 > select clear
    10074 
    10075 > hide #15 models
    10076 
    10077 > hide #!16 models
    10078 
    10079 > hide #!14 models
    10080 
    10081 > show #15 models
    10082 
    10083 > show #!14 models
    10084 
    10085 > hide #!14 models
    10086 
    10087 > show #!14 models
    10088 
    10089 > hide #!14 models
    10090 
    10091 > show #!14 models
    10092 
    10093 > hide #!14 models
    10094 
    10095 > show #!14 models
    10096 
    10097 > show #!16 models
    10098 
    10099 > hide #!16 models
    10100 
    10101 > show #!16 models
    10102 
    10103 > hide #!16 models
    10104 
    10105 > show #!16 models
    10106 
    10107 > hide #!14 models
    10108 
    10109 > hide #15 models
    10110 
    10111 > show #!14 models
    10112 
    10113 > hide #!14 models
    10114 
    10115 > show #!14 models
    10116 
    10117 > hide #!14 models
    10118 
    10119 > show #15 models
    10120 
    10121 > hide #15 models
    10122 
    10123 > show #15 models
    10124 
    10125 > hide #15 models
    10126 
    10127 > show #!14 models
    10128 
    10129 > hide #!14 models
    10130 
    10131 > show #!14 models
    10132 
    10133 > hide #!14 models
    10134 
    10135 > show #!14 models
    10136 
    10137 > hide #!16 models
    10138 
    10139 > hide #!14 models
    10140 
    10141 > show #!14 models
    10142 
    10143 > show #!16 models
    10144 
    10145 > hide #!16 models
    10146 
    10147 > show #!16 models
    10148 
    10149 > hide #!16 models
    10150 
    10151 > show #!16 models
    10152 
    10153 > hide #!16 models
    10154 
    10155 > hide #14.1 models
    10156 
    10157 > hide #16.1 models
    10158 
    10159 > hide #!14 models
    10160 
    10161 > show #16.1 models
    10162 
    10163 > hide #16.1 models
    10164 
    10165 > show #14.1 models
    10166 
    10167 > hide #!14 models
    10168 
    10169 > show #!14 models
    10170 
    10171 > hide #!14 models
    10172 
    10173 > hide #14.1 models
    10174 
    10175 > hide #!16 models
    10176 
    10177 > show #!16 models
    10178 
    10179 > show #16.1 models
    10180 
    10181 > hide #16.1 models
    10182 
    10183 > hide #!16 models
    10184 
    10185 > show #!7 models
    10186 
    10187 > hide #!7 models
    10188 
    10189 > changechains #7/B A
    10190 
    10191 Chain IDs of 430 residues changed 
    10192 
    10193 > show #!7 models
    10194 
    10195 > changechains #8/B A
    10196 
    10197 Chain IDs of 430 residues changed 
    10198 
    10199 > changechains #9/B A
    10200 
    10201 Chain IDs of 430 residues changed 
    10202 
    10203 > changechains #10/B A
    10204 
    10205 Chain IDs of 430 residues changed 
    10206 
    10207 > changechains #11/B A
    10208 
    10209 Chain IDs of 430 residues changed 
    10210 
    10211 > changechains #12/B A
    10212 
    10213 Chain IDs of 430 residues changed 
    10214 
    10215 > show #!8 models
    10216 
    10217 > show #!9 models
    10218 
    10219 > show #!10 models
    10220 
    10221 > show #!11 models
    10222 
    10223 > show #!12 models
    10224 
    10225 > show #!14 models
    10226 
    10227 > hide #!14 models
    10228 
    10229 > show #!14 models
    10230 
    10231 > hide #!14 models
    10232 
    10233 > show #!14 models
    10234 
    10235 > hide #!14 models
    10236 
    10237 > show #!14 models
    10238 
    10239 > show #14.1 models
    10240 
    10241 > hide #14.1 models
    10242 
    10243 > hide #!14 models
    10244 
    10245 > show #!14 models
    10246 
    10247 > hide #!14 models
    10248 
    10249 > show #!13 models
    10250 
    10251 > hide #!13 models
    10252 
    10253 > show #!13 models
    10254 
    10255 > hide #!13 models
    10256 
    10257 > show #!13 models
    10258 
    10259 > hide #!13 models
    10260 
    10261 > combine #7-12
    10262 
    10263 Remapping chain ID 'A' in
    10264 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'B' 
    10265 Remapping chain ID 'M' in
    10266 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'N' 
    10267 Remapping chain ID 'Nt' in
    10268 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'Nu' 
    10269 Remapping chain ID 'a' in
    10270 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'b' 
    10271 Remapping chain ID 'nt' in
    10272 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #8 to 'nu' 
    10273 Remapping chain ID 'A' in
    10274 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'C' 
    10275 Remapping chain ID 'M' in
    10276 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'O' 
    10277 Remapping chain ID 'Nt' in
    10278 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'Nv' 
    10279 Remapping chain ID 'a' in
    10280 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'c' 
    10281 Remapping chain ID 'nt' in
    10282 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #9 to 'nv' 
    10283 Remapping chain ID 'A' in
    10284 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'D' 
    10285 Remapping chain ID 'M' in
    10286 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'P' 
    10287 Remapping chain ID 'Nt' in
    10288 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'Nw' 
    10289 Remapping chain ID 'a' in
    10290 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'd' 
    10291 Remapping chain ID 'nt' in
    10292 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #10 to 'nw' 
    10293 Remapping chain ID 'A' in
    10294 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'E' 
    10295 Remapping chain ID 'M' in
    10296 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'Q' 
    10297 Remapping chain ID 'Nt' in
    10298 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'Nx' 
    10299 Remapping chain ID 'a' in
    10300 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'e' 
    10301 Remapping chain ID 'nt' in
    10302 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #11 to 'nx' 
    10303 Remapping chain ID 'A' in
    10304 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'F' 
    10305 Remapping chain ID 'M' in
    10306 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'R' 
    10307 Remapping chain ID 'Nt' in
    10308 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'Ny' 
    10309 Remapping chain ID 'a' in
    10310 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'f' 
    10311 Remapping chain ID 'nt' in
    10312 231009_Xt_14-3_dEMhcr_1dimer_renamed_fit_individual.pdb #12 to 'ny' 
    10313 
    10314 > save
    10315 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_hybrid_dock.pdb
    10316 > models #17 relModel #2
    10317 
    10318 > open
    10319 > /d/emr214/u/tl002/Xtropicalis_2209/Isolde/231009_Xt_14-3_dEMhcr_6dimers_hybrid_dock.pdb
    10320 
    10321 Chain information for 231009_Xt_14-3_dEMhcr_6dimers_hybrid_dock.pdb #18 
    10322 --- 
    10323 Chain | Description 
    10324 A B C D E F | No description available 
    10325 a b c d e f | No description available 
    10326  
    10327 
    10328 > hide #!17 models
    10329 
    10330 > hide #!12 models
    10331 
    10332 > hide #!11 models
    10333 
    10334 > hide #!10 models
    10335 
    10336 > hide #!9 models
    10337 
    10338 > hide #!8 models
    10339 
    10340 > hide #!7 models
    10341 
    10342 > select add #18
    10343 
    10344 80898 atoms, 81828 bonds, 24 pseudobonds, 5226 residues, 2 models selected 
     3397[deleted to fit within ticket limits]
    103453398
    103463399> style sel stick