From: Ryan McGreevy (ryanmcgreevy_at_ks.uiuc.edu)
Date: Sun Aug 04 2013 - 20:14:57 CDT

You can create a binary mask of the structure using the "mask" command in
the "volmap" plugin. You can then use that output to multiply it against
your electron density map using the "volutil" plugin (volutil -mult). This
will give you a density around the selection you created with the mask
command.

On Sun, Aug 4, 2013 at 6:51 PM, Jim <jim.jim.strong_at_gmail.com> wrote:

> I have a structure and a CCP4 electron density map, which is loaded as an
> Isosurface in VMD. The map is huge, while my structure is just a small
> portion of the map. I cannot figure out how to display only a small portion
> of the map around a certain selection of atoms of my structure.
>
> Is this possible? I'm using VMD 1.9.1.
> Thanks.
>