[Chimera-users] saving several pdb files in one

Dieter Blaas dieter.blaas at meduniwien.ac.at
Thu Feb 18 07:05:37 PST 2021

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

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