conformational alignment

From: Wen Li (
Date: Wed Mar 30 2005 - 15:21:26 CST

Hello everyone,

I hope that you could help me on the following question with either vmd
or namd, or any program:

I have an MD trajectory generated using AMBER, and I want to align
snapshots of this trajectory to the coordinates of a reference structure.
And then write out the coordinates of each aligned snapshots. Is this
doable in VMD?


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