dina dusti wrote:
Dear Prof.
Thank you very much from your response.
Yes, dist.xvg has four column consists origin distance and distances in
direction x, y , z. So distance that I want according to result of
g_analyze, is 5.324286e-02 that isn't correct. I selected 2 groups,
micelle and the last carbon bounded with head group for index file.
Also, I did this job for micelle and head group, and micelle with other
groups but my results (distances) were all of them near the zero.
Please help me to obtain correct distance.
Keep in mind what g_dist is measuring, center-of-mass distances. If you select
the micelle headgroups and then terminal carbon atoms, the positions will be
almost coincident, as your result suggests. Other groups that are giving a
nearly-zero distance are likely coincident in the same manner.
-Justin
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
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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