Re: [Jmol-users] Surfaces - Chime performance

[Eric M. <em...@mi...>]

Hi, Albion

At 1/20/05, you wrote:
>I have generated all the symmetry mates for a Rhinovirus though. This has
>about twice as many atoms as a ribosome (376k atoms). If anyone is
>interested let me know and Ill send you the file to experiment with. It is
>a kind of a pain to generate all the symmetry mates from the PDB they
>provide (4RHV).

EBI's Probably Quaternary Structures site generates full virus capsids 
automatically. For more info and some examples (most stripped down to 
alpha-carbons only) please go to proteinexplorer.org, click on Atlas of 
Macromolecules, Viruses, or go directly to

http://molvis.sdsc.edu/atlas/atlas.htm#virions

and if you have Chime, don't miss this rotatable capsid of SV40 simplified 
to 360 "atoms" (one per protein chain) with a superscribed icosahedron.

http://molvis.sdsc.edu/pdb/sv40_360.htm

Maybe you'd like to adapt that page to jmol? It might be an interesting 
test of jmol Chime-compatibility.


-
////// Eric Martz, Professor Emeritus, Dept Microbiology
               Univ Mass, Amherst.
Formerly taught:
Infectious Disease and Defense 320 (fall):
   www.bio.umass.edu/micro/courses/infdisdef.html
Immunology 540 (spring alternate years):
   www.bio.umass.edu/immunology/mic540hp.html
Immunology Lab 542 (spring):
   www.bio.umass.edu/immunology/mic542hp.html
Macromolecular Visualization Lab 597V (fall):
   www.bio.umass.edu/micro/courses/molvis.html
Immunology Journal Club 797J (both semesters)
   www.bio.umass.edu/immunology/ijc.html
Immunology at UMass Amherst:
   www.bio.umass.edu/immunology            //////