VMD-L Mailing List

From: Thomas C. Bishop (bishop_at_tulane.edu)
Date: Tue Mar 31 2009 - 09:44:21 CDT

Good question and I'd like to know the answer too.
based on work some years ago (Bishop and Schulten 1995?)
I know that unless you have several turns of the alpha helix fitting an axis
to the helix is very much subject to where you defined the start and end fo
the helix.

Tom
 On Tuesday 31 March 2009, Alison Grinthal wrote:
> This must be simple but I haven't yet found it (I'm still in the early
> stages of trying to learn scripting): is there a way to determine the
> central axis of an alpha helix, and to calculate the dihedral angle
> between two such axes? If this is explained somewhere or there's a plugin,
> please direct me. Thanks very much. 

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