[Chimera-users] DNA atomic structure fitting with an envelope

Elaine Meng meng at cgl.ucsf.edu
Tue Mar 22 15:50:38 PDT 2011

Dear Damien,
Sorry, Chimera does not have tools for flexibly fitting a structure into a surface or map.  Capabilities for rigidly fitting multiple structures into a map are being added, but currently nothing that will change the conformation of those atomic structures.
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Mar 22, 2011, at 3:13 AM, Damien Larivière wrote:

> Dear all,
> James Stroud or Thomas Bishop webservices among others enable to create a portion of DNA in the PDB format.
> Is it possible in Chimera to import a mesh envelop (see image), the PDB structure of the DNA portion and to force the DNA to fit with the envelope (which has the length and the diameter of the DNA portion)?
> Many thanks for your help
> Damien
> ps: As far I understand, the MDFF tool by Klaus Schulten allows to conform a PDB structure to a mesh (interesting for cryoEM). I have not tested it yet.
> <envelope.jpg>

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