VMD-L Mailing List

From: amin sagar (aamin.sagar_at_gmail.com)
Date: Mon Aug 10 2020 - 11:16:29 CDT

Dear VMD users and developers,

I am working with a protein with two domains. I have superimposed the
trajectory on one of the domains. Now, I would like to represent the
positions of the other domain around the superimposed domain as the
volumetric map of the center of mass. I would like to have something like
panel H of Figure 1 of this paper
<https://www.frontiersin.org/articles/10.3389/fmolb.2016.00054/full>
Is it possible to somehow use VolMap to generate the volumetric map of the
center of mass and not of specific atoms?

I would really appreciate any help/suggestions.

Best,
Amin.