VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Apr 10 2007 - 08:34:19 CDT

Michael,
  I haven't encountered this before, but depending on which version
of VMD you were running, you may have found a bug in the Delphi
map reader plugin (grdplugin). If you can send me the PDB and map
file that exhibit the shift you're describing, I'll be happy to
take a look.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Apr 10, 2007 at 10:07:52AM +0200, Michael Widmann wrote:
> Hi
>
> When loading phi files created with DELPPHI I get a mismatch between the isosurface and the protein, meaning they are not superimposed.
> I used to work with PYMOL and never had problems in this regard, all pdb and phi files loaded in PYMOL are correctly superimposed and the in correct orientation.
> Loading these files in VMD however results in a displacement between the two files.
> Files created for example with APBS are correctly aligned in VMD.
>
> Has anybody encountered such a problem before ?
>
> Thanks
>
> Michael Widmann 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
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