[Chimera-users] split models in Chimera

Elaine Meng meng at cgl.ucsf.edu
Fri Apr 29 09:49:08 PDT 2011

Hi Francesco,
If they are already called chain A and B, you can split the chains in one model to make separate models using the command "split":

For example, if your structure with chains A and B is open as model 0, command:

split #0

... will make two models, model #0.1 with chain A and #0.2 with chain B.  Even though they are still both #0 you can refer to them separately as #0.1 and #0.2, move them separately, etc.

However, if they are currently both chain A, that will not do anything.  To make separate models, you would have to open the receptor+ligand structure two times and in one copy, delete the ligand, and in the other copy, delete the receptor.  Alternatively, you could manually text-edit the PDB file so make the ligand chain B before opening it in Chimera, and then use the "split" method.

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 Apr 29, 2011, at 3:55 AM, Francesco Burresi wrote:

> Hi,
> I've docked a ligand with a receptor and I get a pdb with1 chain (chain A)
> I'd like to separate recpetor-ligand in two different chians (chain A e chain B).
> How can I do that in Chimera? 
> regards

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