AMBER Archive (2008)

Subject: AMBER: distance matrix command

From: priya priya (
Date: Wed Apr 30 2008 - 04:01:24 CDT

    [input] [input] [input] [input] Dear All

I am trying to compute distance matrix, by selecting byatom options.
command used is
 matrix dist @CA out distmat.dat
as far as i understand it is making a matrix for the CA atoms in all the residues.

But i want to compute the distance matrix for side chain carbon, i.e @CB, if i use the command
matrix dist @CB out distmat.dat
there is no change, matrix remain the same.

Please suggest me if i am doing some mistake.


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