RE: AMBER: Coordinate Superimposition in PTRAJ

From: Vineet Pande <>
Date: Mon, 17 Jan 2005 09:45:20 +0000

Thanks Dr. Ross:
>The latest version of VMD ( can do an
>RMS fit of different structures. This can also read amber format files. You
>can, for example, load several structures and superimpose them all by RMS
>fitting specific atoms. E.g. Alpha-Carbons.
Does VMD also write an output with all the atoms superimposed/ transformed
coordinates and with the same names as input file, esp. for hydrogens?
Though I have to try using the latest version of VMD you mentioned..

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Received on Mon Jan 17 2005 - 10:53:01 PST
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