KONG Xian wrote:
Dear Justin A. Lemkul:
Thanks for your rapid reply.
Just as you said, the result of my simulation with different xy
p_ref values didn’t vary, they are almost the same.
I think I need consider some other ways to do what I was mean
to do.
I have read a paper that study the different lateral pressure profiles
of lipid membrane with respect to sterol type, I think I may chose this
as a way to produce different pressure profiles.
Membranes themselves are far more responsive to changes in pressure than are
proteins, so unless there is a considerable difference in the lipid properties
and also considerable interplay between the lipid dynamics and those of the
protein, you still won't see any difference. Again, I'd be skeptical that you'd
ever find anything meaningful by changing the pressure in increments of 0.1 bar.
/Ollila, O. H. S., T. Rog, et al. (2007). "Role of sterol type on
lateral pressure profiles of lipid membranes affecting membrane protein
functionality: Comparison between cholesterol, desmosterol,
7-dehydrocholesterol and ketosterol." _Journal of Structural Biology_
*159*(2): 311-323./
And, what’s more, Do you think steered MD is a choice?
What would you steer? Doesn't sound applicable here.
-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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