Hi,
Your 150 degree angle is in reality 30 degrees (180-30). This is a
matter of defining the vector representing your helix vs. the direction
of the z axis. If your vector points in the opposite direction of the z
axis, then your angle will be between 90 and 180 degrees.
George
Anirban Ghosh wrote:
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
--
George Khelashvili, Ph.D.
Department of Physiology and Biophysics
Weill Medical College of Cornell University
1300 York Avenue, Room LC501
New York, NY, 10065, USA
gek2...@med.cornell.edu
Phone: 1-212-746-6539
Fax: 1-212-746-6226
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