[gmx-users] Helix Tilt Calculation

[Anirban Ghosh]

Hi ALL,

I am using g_angle to calculate the tilt of individual helix in a rhodopsin
GPCR with respect to z axis. In the index file I am defining the top and
bottom of each helix with first 4 and last 4 residues of that helix
respectively. Strangely, I am getting the tilt angle of the odd helices like
TM1, 3 and 5 in the range of 30 degrees, but the even helices TM2, 4 and 6
are giving value in the range of 150 degrees. But visual inspection of the
simulation does not show such huge deviation. Why is it giving so? Am I
doing anything wrong here? Any suggestion is welcome. Thanks a lot in
advance.

Regards,

Anirban
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