From: Ravinder Abrol (
Date: Thu Mar 27 2014 - 15:15:42 CDT

I couldn't find a solution to the following problem on vmd-l.

I have two files loaded as molecules 0 and 1 with proteins aligned.
Molid 0 has protein A and ligand B.
Molid 1 has protein C and ligand D.
Can I do an atom selection to find residues in protein A that are within
a certain distance from ligand D?

I can obviously write out ligand D coordinates and merge with protein A
to do this but I would like to avoid these extra steps.