VMD-L Mailing List

From: bozell, joe (joe_bozell_at_nrel.gov)
Date: Wed Nov 24 2004 - 12:34:47 CST

I have been using an older version of Chem3D (version 5.0) to generate PDB
files for visualization. All files so far open and can be manipulated in
both RasMol and Protein Explorer. However, when these files are loaded into
VMD, only a small fraction of the atoms, and none of the bonds show up. One
file contains 920 atoms, and only 13 show up in VMD. Another contains about
90 atoms, and only 1 or 2 show up. A third file (444 atoms) shows up
correctly in VMD, however, the text version of its PDB file does not appear
to be different than the ones that fail.

I¹m using the latest version of VMD on a PowerBook G4, OS 10.3.6.

Any hints would be greatly appreciated.

Joe Bozell
National Renewable Energy Laboratory