[Chimera-users] pdb-l: Selecting phytols in Chimera?

[Eric Pettersen]

On Jul 9, 2007, at 6:39 AM, Morgan Ryan wrote:

> Is it possible to write a selection string that will select all the
> phytol substituents in a model? I'm looking at photosystem II. I
> would like to select all the phytol side chains of the many
> chlorophyll molecules and hide them, so that only the porphyrin-like
> chlorin ring structures are visible. Can that be done? Thanks! Morgan

Hi Morgan,
	I think the only direct way is to use the command line (Favorites- 
 >Command Line).  This command should do it:

	~disp :cla at c=; disp :cla at c?a,c?b,c?c,c?d

It undisplays all the carbons in the chlorophyll (:cla at c=) and then  
redisplays the carbons involved in the porphyrin ring (all of which  
have 3-letter names that end in A-D).
	You might want to consider posing Chimera-specific questions to the  
Chimera users mailing list (chimera-users at cgl.ucsf.edu) since there  
will be more people able to answer there.

--Eric


                         Eric Pettersen
                         UCSF Computer Graphics Lab
                         pett at cgl.ucsf.edu
                         http://www.cgl.ucsf.edu