[Chimera-users] superimposing proteins on co-factor

Eric Pettersen pett at cgl.ucsf.edu
Wed Mar 8 16:16:20 PST 2006

On Mar 7, 2006, at 10:01 AM, Elaine Meng wrote:

> Issue (2) can be even more taxing. IF the cofactor residue has the
> same name and its atoms have the same names and are in the same
> orders in all pairs of structures to be compared, you could then use
> EnsembleMatch.  You'd specify the cofactor residue as the atoms to
> match, e.g.
>     :fad
> (residues named FAD).  Another approach in this situation would be to
> use the match command, e.g.
>     command> match #1:fad #0:fad

As of Chimera 1.2184 and later, the restrictions aren't quite as  
onerous as Elaine outlined.  The atom names still do have to  
correspond, but the atoms need not all be in the same order inside  
the residue.


                         Eric Pettersen
                         UCSF Computer Graphics Lab
                         pett at cgl.ucsf.edu

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