[Chimera-users] Coloring ensemble atoms by distance from mean structure

[Morgan, David Gene]

Tom,

    Thanks so much.

--
    politics is more difficult than physics.
                                             A. Einstein

            David Gene Morgan
        Electron Microscopy Center
             047D Simon Hall
             IU Bloomington
          812 856 1457 (office)
          812 856 3221 (3200)
      http://iubemcenter.indiana.edu

________________________________________
From: Tom Goddard <goddard at sonic.net>
Sent: Thursday, May 3, 2018 3:02 PM
To: Morgan, David Gene
Cc: chimera-users at cgl.ucsf.edu BB
Subject: Coloring ensemble atoms by distance from mean structure

Hi David,

  I’ve attached a Python script mean_distance.py that can compute the distance of each atom in an ensemble from the mean structure.  Then you can color using that distance.  Here’s an example set of Chimera commands.

open 1mtx
show
open mean_distance.py
rangecolor distance_from_mean 0 blue 3 white 6 red

The script uses all open molecules as the ensemble.  The coloring can also be done with menu Tools / Depiction / Render by Attribute.

        Tom