From: Francesco Pietra (
Date: Wed May 19 2010 - 13:52:18 CDT

>From the manual and the archives I was unable to figure out how to
prepare psf/pdb for simulation by cutting the bond of a given atom
with a ligand. That is, I would like to start with no such bond, a
situation that occurs under certain experimental conditions. I can
figure out that the bond length at issue - and rotations - should be
constrained, but I can't imagine how in the framework of VMD.
Thanks for suggestions
francesco pietra