[Chimera-users] Generating symmetry-related molecule

Elaine Meng meng at cgl.ucsf.edu
Mon Jan 12 13:14:30 PST 2009

Hi Virginia,
To generate BIOMT-described copies, you would just use the same model  
as the molecule model and the reference model.  For example:

open 2o1i
sym 0 0

This is mentioned on the "sym" man page, but perhaps it is  
insufficiently prominent:

"A secondary use of sym is to generate BIOMT-described copies of a  
molecule model, where that model is specified as both molmodel and  


Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Jan 12, 2009, at 1:07 PM, Virginia Pett wrote:

> I am trying to display PDB file 2O1I, which is a DNA structure.  I
> would like to generate the biological macromolecule with 2 strands of
> DNA, but I'm having a hard time figuring out how to do this.  The PDB
> file has BIOMT records in it and I thought I could use the sym command
> to generate the other strand of DNA.  What do I use for the refmol?
> Is there a tutorial on this topic?
> Virginia
> _______________________________
> Virginia B. Pett
> Professor of Chemistry
> The College of Wooster
> 943 College Mall
> Wooster, OH 44691-2363
> voice:  330-263-2114
> fax:  330-263-2386

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