question regarding the use of reaction coordinate "distance-com" in ABF method

From: Anahita Tafvizi (
Date: Sun Sep 10 2006 - 12:51:46 CDT

Dear NAMD users,

I have a question and I appreciate if anyone can answer:

In using ABF method , if one uses the reaction coordinate "distance-com " ,
defining two sets of atoms will consider the distance between them ,but does
it also imply a direction in which sampling occurs to also be the vector
between the two center of masses? or does the system sampled in different

Thanks a lot,

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