From: Nate Hurley (natech_at_gmail.com)
Date: Thu Aug 09 2012 - 11:22:02 CDT

Hi all,

I have two .pdb files. One has, in part, several molecular probes in
various locations (on a protein). The other has a single molecule docked
to that protein. I have a script that selects probes in the first .pdb.
 Is there a way that I can exclude probes that are within X of the molecule
in the other .pdb? If VMD saw them each as being part of the same molecule
it would be easy, but it would be best if I could do this without
concatenating the two files. Is there a way to do this?

Thanks!

-Nate Hurley