[Chimera-users] Color by ramachandran probability? Or molprobity overlap?

Elaine Meng meng at cgl.ucsf.edu
Thu Dec 19 15:23:37 PST 2013

Hi Oliver,
I agree it would be useful.  I wouldn't be the one doing the implementation, so it depends on how developer time is triaged, but your request has been entered into our tracking database as report #12711.  Your email address is already on the report for automatic notification of comments or changes related to the request.

We're glad you like Chimera, and thanks for the suggestion!
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Dec 19, 2013, at 8:13 AM, Oliver Clarke <olibclarke at gmail.com> wrote:

> Hi Elaine,
> Apologies for the late response, and thank you very much for taking the time to reply. 
> Yes, I could do that with some effort, but I was thinking of this more as a routine tool for checking out problematic regions of a structure either while building my own structures, or when inspecting structures in the PDB that I want to interpret - there is no good way that I am aware of at the moment to globally display Ramachandran outliers on a structure, without doing the sort of scripting you describe. 
> Chimera is may favorite tool for visualizing protein structures and making figures, so it would be wonderful to have such functionality - it would also be useful when preparing validation figures, for example to show reviewers that the only geometric outliers in your structure lie in high b-factor, relatively mobile loops.
> Thanks again,
> Oliver.

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