Identify hinged groups of atoms found by morph calculation

[olibclarke@…]

Begin forwarded message:

From: Oliver Clarke
Subject: [Chimera-users] Identify hinges and rigid groups using Morph Conformations?
Date: December 18, 2015 at 1:06:31 PM PST
To: "chimera-users@… BB" <chimera-users@…>

Hi,

I gather from reading the documentation for “Morph Conformations” (​https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/morph/morph.html) that Chimera identifies hinge regions and rigid groups as part of the procedure (as per ​http://nar.oxfordjournals.org/content/28/8/1665.long).

Would it be possible to expose these to the user (or maybe this is already possible?), such that one can color/label the hinges and rigid entities as desired? This would be helpful for visual simplification of complex conformational changes.

Cheers,
Oliver.

[Elaine Meng]

I believe this is implemented as the colorSegments and colorCore options to the "morph" command. They've been implemented for quite a while, I just didn't notice until now that there was a ticket for it.

[Elaine Meng]

Well, somewhat implemented... you can't choose the colors for the segments, it chooses them for you. It was mainly for understanding purposes, rather than for publication/presentation. You could then (carefully) recolor the segments one by one.