[gmx-users] g_helixorient help

rajat desikan rajatdesikan at gmail.com
Mon Jan 27 12:31:43 CET 2014

Hi All,
I am trying to calculate the angle between the axes of two alpha helices
(say A and B) in my simulation. I have separate index files for the
residues pertaining to each helix.

I calculated the tilt.xvg for both A and B. The output is slightly
confusing. tilt_A.xvg when viewed with xmgrace -nxy shows 27 data sets.
What do these correspond to? (Helix A has 34 residues). Similarly for

How do I go about this? Is this the right way to calculate the relative
helix axis angle?


Rajat Desikan (Ph.D Scholar)
Prof. K. Ganapathy Ayappa's Lab (no 13),
Dept. of Chemical Engineering,
Indian Institute of Science, Bangalore

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