VMD-L Mailing List

From: Michael LeVine (mlevine_at_wesleyan.edu)
Date: Wed Jan 15 2014 - 19:45:48 CST

Hi all,

I have a DCD and PSF where I've removed all the hydrogens. When I load them
into VMD, the protein is not detected as a protein. However, if I write out
specific frames of the trajectory as PDB files and load them, the protein
can be detected as a protein. What is the reason about this? I thought that
VMD determined if a molecule was a protein based only on atom or residue
names, and cannot find the explanation. I hope this isn't already addressed
elsewhere. Thanks for the help!

Mike