[Chimera-users] Deleting parts of secondary structures

[Elaine Meng]

Dear Andy,
There is a "language" for specifying atoms, residues, chains, models  
in commands.  For example:

delete #0:10-20.a,12.b,40.b
(delete residues 10-20 in chain A and residues 12 and 40 in chain B,  
all in model 0)

~ribbon #0:312-456
(hide ribbon for residues 312-456 in all chains of model 0)

~disp :.a
(undisplay atoms/bonds for chain A in all models)

There are many fancier things you can do, including distance zones,  
etc., and it is all documented:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/ 
frameatom_spec.html>

There are also some examples of command-line specifications on the  
second page of the Quick Ref:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/quickref.pdf>

Another more graphical possibility is to show the sequences of the  
various chains (Favorites... Sequence) and select parts of those,  
then use the Actions menu to delete atoms/bonds, or hide atoms/bonds,  
or hide ribbons.

I hope this helps,
Elaine
-----
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
                       http://www.cgl.ucsf.edu/home/meng/index.html

On Jun 2, 2009, at 11:22 PM, Anindito Sen wrote:

> Dear All
> I have a Chimera session in which I have 6 sets of PDB files  
> (ribbon representation) showing variability in the structures.  
> However I wish to display only few of the subunits. Questions are:
>
> 1. How do I delete undesired subunits from all the chains on the  
> command line
>
> 2. How do I select particular residues from specific chains (not  
> all the 6).
> Thanks
> Andy