Hi Jed,
so this method is working of the ensemble of the pdb files taken from the
MD simulation or NMR structure, isnt it? Could someone explain me step by
step how to obtain such inputs for the PyMol (from the step when I've load
my trajectory to the VMD).
James
2014-09-21 20:42 GMT+04:00 Jed Goldstone <jgoldst...@whoi.edu>:
> You could extract the flexible residues into one multistate object and use
> show all_states. So, you'd only be dealing with 2 objects - Ca and residues.
>
> Jed
> On Sep 21, 2014 3:23 AM, "James Starlight" <jmsstarli...@gmail.com> wrote:
>
>> Dear Pymol users!
>>
>>
>> In this topic I've decide to put all questions regarding visualisation.
>>
>> This time I'm very intresting whether it possible to add some effect of
>> the "flexebility" or "ensemble-like dynamics" on the selected elements
>> (e.g selected side-chains to convey a sense of its flexibility like in the
>> molecular dynamics simulation) by introdycing of some filter on this part
>> like some kind of bluring). Of cource I can do it by taking several aligned
>> snapshots from MD and load it in the Pymol but here I wounder if its also
>> possible do from one pdb structure.
>>
>> Thanks for help,
>>
>> James
>>
>>
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