[Chimera-users] saving several pdb files in one

Tom Goddard goddard at sonic.net
Thu Feb 18 10:03:20 PST 2021

Hi Dieter,

  What is difficult with 100 coordinate files?  Don't you just inactivate the map and the 100 models as a group and then use the vop zone command?


> On Feb 18, 2021, at 7:05 AM, Dieter Blaas <dieter.blaas at meduniwien.ac.at> wrote:
> Dear Elaine and all,
>    I have a large number of aligned pdb files and want to mask a volume including density near all these atoms. Is there an easy way of doing so?
> Usually I would load map and pdb, position the pdb model accordingly, activate all atoms and use 'zone' to mask everything further away from all atoms than a given distance. But this seams to be difficult with more than 100 coordinate files, each containing about 1000 coorinates!
> I also tried to combine all coordinates in a single file omitting everything else but chimera tries desperately to find secondary structure elements, which is difficult with this mess....
> Is there an easy way of doing so?
> Thanks, best, Dieter
> ------------------------------------------------------------------------
> Dieter Blaas,
> Max Perutz Laboratories
> Medical University of Vienna,
> Inst. Med. Biochem., Vienna Biocenter (VBC),
> Dr. Bohr Gasse 9/3,
> A-1030 Vienna, Austria,
> Tel: 0043 1 4277 61630,
> Mobile: 0043 699 1942 1659
> e-mail:dieter.blaas at meduniwien.ac.at
> ------------------------------------------------------------------------
> _______________________________________________
> Chimera-users mailing list: Chimera-users at cgl.ucsf.edu
> Manage subscription: https://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users

More information about the Chimera-users mailing list