AMBER Archive (2006)

Subject: Re: AMBER: Can you use VMD to measure bond angles/lengths

From: Mark Williamson (
Date: Tue Jul 04 2006 - 11:06:59 CDT wrote:
> Dear Amber community,
> I could not find any documentation on how to measure bond angles and lengths
> using VMD. Can it do this and if it does... how?

Dear Seth,

In VMD, press the "2" key (on main keyboard) to activate bond measure
mode; then select the two atoms you want to measure between. The same
applies with angles; key "3" and dihedrals; key "4".

If one is looking at a trajectory and has xmgrace installed, one can
examine the time evolution of such a defined variable above using:

Graphics-->Labels-->Bonds, select bond/angle/torsion defined and then
hit "graph".


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