[Chimera-users] move a structure into another one

[Elaine Meng]

On Nov 18, 2007, at 10:16 AM, Francesco Pietra wrote:
> Manually graphically? Neither the POPC molecules nor the water 
> molecules
> embedded in have a number, only detectable on file through their xyz 
> values. I
> understand that there is no trick to delete around the protein, by say 
> 1A
> distance.

Hi Francesco,
I am not sure I understand your question, but in Chimera/graphically 
you can of course make a selection of the lipid molecules within some 
zone of the structure and then delete the selection.  I just meant 
there is no function that combines the steps for you.

For example, if you had the membrane as model 0 in Chimera and the 
protein as model 1, these commands would select and remove lipid 
residues within 1.5 A of the protein:

select #0 & #1 z<1.5
delete sel

Best
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html