AMBER Archive (2006)

Subject: AMBER: distance between two atoms

From: Fenghui Fan (
Date: Fri Sep 15 2006 - 15:49:11 CDT

Dear all,

I have got the trajectory file of a 134 residue

I want to get the distance change of two Ca atoms of
residue 50 and residue 100 during MD. From the manual
I know that I need to get the mask.

What is the meaning of the mask here? What command
should I use to define it?

If I wan to get the distance of two residues for
example, residue 50 and residue 100, what will be the

I am looking forward to getting your reply.

Best regards.

Fenghui Fan

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