VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed May 31 2006 - 10:55:47 CDT

David,
  Can you send me an example mol2 file that gives you this problem?
Most likely the issue is related to the atom names ued in the file.
STRIDE expects PDB style atom names, so it may not be a problem with the
mol2 file itself, but rather with the atom names contained therein.

  John Stone
  vmd_at_ks.uiuc.edu

On Wed, May 31, 2006 at 09:11:33PM +1000, David Chalmers wrote:
> Dear VMD list,
>
> I worked around this problem, but it seems like q quirk. The NewCartoon and
> Cartoon rendering methods do not work when I read in a protein as a mol2
> file (I get a ribbon but no sheets and helices). If I convert the same file
> to pdb format then it works fine. I am using VMD 1.8.3, so this may have
> been fixed.
>
> Regards
>
> David
> ________________________________________________________________________
>
> David Chalmers Lab: 9903 9110
> Victorian College of Pharmacy Fax: 9903 9582
> 381 Royal Pde, Parkville, Vic 3053. Australia
> David.Chalmers_at_vcp.monash.edu.au
> ________________________________________________________________________
> 

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