[Chimera-users] Multi-fragment fit in map

Elaine Meng meng at cgl.ucsf.edu
Mon Nov 18 10:01:09 PST 2013


Good morning Paolo,
Yes, there is "sequential fitting" using the "fitmap" command.  See here for explanations including command options and link to a short video:

<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html>
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html#sequence>

There is also symmetric fitting of multiple copies of the same structure:

<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html#symmetric>

I'd probably try the above first, but yet another related feature is MultiFit, which uses a web service (in menu under Tools… Volume Data):
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multifit/multifit.html>

I hope this helps,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Nov 16, 2013, at 3:47 AM, Paolo Swuec <Paolo.Swuec at cancer.org.uk> wrote:

> Good morning,
> I am EM user and I was wondering wether is possible in Chimera to fit multiple pdb in the same volume (e.g. Fitting two monomers into a dimer map without overlaps and clashes). I am using Situs and the collage command, but I was wondering if there was an easy way of doing it in Chimera.
> Thank you very much, 
> Paolo




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