>> Also is there any way to compare 2 PDBs structurally, and calculate
>> similarity in Amber or any other free software?
>
> RMS is certainly one way to quantify structural similarity. This can
> be done in ptraj or vmd or pymol or any number of other visualization
> programs I'm sure.
This applies to chemically identical structures. There must be more
general indices of similarity.
Bill
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Received on Thu Feb 25 2010 - 20:30:02 PST
