On 4/27/13 11:43 AM, Sujit Sarkar wrote:
Hi,
I want to calculate helicity of an alpha-helix which is parallel along
X-axis. But, during usage of g_helix command its manual showing it will
calculate helicity of alpha-helix which is parallel to Z-axis.
So, please tell me the solution.
Use trjconv and editconf to realign the helix with the z-axis. If you're only
looking for secondary structure over time, do_dssp is much easier. If you want
all the properties that g_helix measures, you will have to realign it.
-Justin
--
========================================
Justin A. Lemkul, Ph.D.
Research Scientist
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
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