Hi James,
On the pymol-wiki there is a script called findseq (
http://pymolwiki.org/index.php/Findseq)
That does what you want (or at least the first part of your request)
Best regards,
Folmer
2014-04-05 13:29 GMT+02:00 James Starlight :
> Dear PyMol users!
>
> I'm learning of the python scripting for the solution of typical
> structural bioinformatics problems. This time I'd like to integrate in
> pymol simple script which will search for the selected motifs (just several
> amino acids situated in adjacent positions along the sequence) and marked
> selection data assuming that I'm working with ensemble of homologue
> proteins having common motifs. Could someone provide me with the example of
> such script included pymol syntax in code? During further steps I'd like to
> improve such script for searching of motis situated in adjacent space
> position in 3D pdb structures but not in its sequences.
>
>
> Thanks for help,
>
>
> James
>
>
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--
Folmer Fredslund
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