[Chimera-users] Matchmaker

Elaine Meng meng at cgl.ucsf.edu
Mon Mar 26 15:36:35 PDT 2012

Hi Hernando,
I think you can bring the other two into place with the command matrixcopy.  For example, if #1.2 was the one that moved, after matchmaker try:

matrixcopy #1.2  #1.1
matrixcopy #1.2  #1.3


to move the other two.  

Another possibility would be to combine #1.1-#1.3 into a single model before running matchmaker.

I hope this helps,
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 26, 2012, at 3:21 PM, Hernando J Sosa wrote:

> Hi
> I'm trying to align two structures each containing 3 chains using only one specific chain (in each of the two pdb files) and  then move the whole molecule as a unit (i.e. the 3 chains together). The problem I'm having  is that only the selected chain is aligned and the other two are left in place. The problem may be due to the fact that the 3 chains in the pdb file are different models  1.1.,1.2,1.3 (but still with different chain character identifiers).   How can I change this behavior so that all the chains or models  move together as a unit according to the alignment of a single chain (model)?
> Thanks
> Hernando

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