[Chimera-users] Flipping between alternate conformations (depiction/movie)

Elaine Meng meng at cgl.ucsf.edu
Tue Aug 19 12:11:36 PDT 2008

Hi Dave,
I was assuming you wanted to morph between the positions.  If instead  
you simply want to jump from one to the other, you can just use the  
display command.  For example, if both are shown then "~disp @.b"  
would hide the B altlocs.  Then you could switch with "disp @.b; ~disp  
@.a" (the semicolon prevents display of the intermediate state with  
both shown).  You could include the residue number and chain ID in  
these commands, for example :335.a at .b refers to altloc B atoms of  
residue 335 in chain A.

On Aug 19, 2008, at 11:11 AM, David Chenoweth wrote:

> Dear Chimera team,
> Is there a movie command that can easily depict the interconversion
> between two alternate conformations in a nucleic acid or protein
> residue (designated conformation a and b) within a pdb file. I am
> really trying to illustrate with a movie how the phosphates flip
> between two well defined states in an ultra-high resolution DNA
> crystal structure using a chimera movie.
> Thanks in advance,
> Dave Chenoweth

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