From: Jorgen Simonsen (
Date: Mon Apr 14 2008 - 04:50:08 CDT


I am trying to generate a topology file for a protein which contains some
D-amino acids - I change the topology file as according to the tutorial but
when I look at the amino acids they are still in the L-conformation as if
the internal coordinates of the topology file has not been read?
Is there a way to force the topology file to read the IC when creating PDB
and PSF ?