From: John Stone (
Date: Mon Feb 16 2004 - 17:25:36 CST

  I've written a script to merge these Virus capsid PDB files which are
stored as multi-frame PDB files into single structures within VMD using
a some relatively simple VMD and 'psfgen' scripting. This script has been
tested with one of the Virus capsids on the PDB site and it worked ok so far,
give it a try and let me know if you have any trouble using it.

Just as a warning, the resulting structure file contained about 1 million
atoms, so be careful that you've got enough memory in your computer before
you start getting carried away with this stuff :-)

I've attached the script to this email.

  John Stone

On Fri, Feb 13, 2004 at 09:50:30AM +0900, piriboy wrote:
> Dear
> 1. Some pdb file which contains protein multimer, e.g. virus capsid
> might be generated by PDB matrices, is loaded in multi-frames in VMD.
> Can I load all of those in a frame??
> 2. The surface model which was generated by MSMS looks very nice,
> fantastic and smooth in VMD OpenGL window. But, when this scene was
> rendered with ray-tracing program like POVray, the interface between two
> different colors triangles look zig-zag, not smooth. Any idea??
> Thanks
> DongHoon Chung
> Korea University.

NIH Resource for Macromolecular Modeling and Bioinformatics
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