[chimera-dev] Non-standard residues

[Eric Pettersen]

On Jul 14, 2009, at 2:07 PM, Elaine Meng wrote:

> If you mean "residues that are in the amber parm file and thus don't
> require running antechamber"  I don't know of a command-line specifier
> for exactly that, although the above may work in many cases.

If you do "addcharge standard" which adds charges to the residues that  
Amber has in its parameter files, then "sel :/amberName" will select  
those residues only.  The addcharge command (and Add Charge tool) adds  
the amberName residue attribute as the name used by Amber for that  
residue (e.g. CYN for N-terminal cysteine).

--Eric




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