VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Mar 08 2010 - 09:25:27 CST

Hi,
  The PDB file format spec is available here:
http://www.rcsb.org/pdb/static.do?p=file_formats/pdb/index.html

Unless I misunderstand what you mean by "surface", no there is not
a way to represent a polygon mesh or other geometric surface in a
PDB file. PDB files only contain atoms, associated structure data,
and information about the crystallography methods used to determine
the structure, etc.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Mar 08, 2010 at 09:59:14AM -0500, Fatemesadat Emami wrote:
> Hi vmd users,
> I am creating pdb files (with my own code) from the Material Studio
> coordinate files. I have a surface in my system that I do not know how to
> name its elements in the pdb file. I was wondering if anybody can give me
> an idea of how I have to include a surface in a pdb file or how I can find
> a sample for such a sys?
> Many Thanks
> Fatima
>
> --
> Yours Sincerely,
> Fateme Sadat Emami
> Nano Scale Laboratory
> Polymer Engineering Department 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
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