AMBER Archive (2009)

Subject: [AMBER] Measuring volume of the binding pocket

From: Mannan (
Date: Tue Aug 11 2009 - 21:31:18 CDT

Hi AMBER pals,
Apology for repeated posting.

I would like to calculate the change in the volume of a binding pocket over a trajectory.
I would like to plot quantitatively and see how it varies over the time.
I could visually see that, but some quantitative measurement is missing. I have also plotted SASA as well.

How can I do it in AMBER or anyother related stuff
Any help is appreciated.

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