shiva birgani wrote:
Dear all
I want to analyze the mobility of residues in various conditions.
I need to know examining the RMSF is more useful or RMSD per residue?
That depends on your definition of "mobility." If you want to determine
fluctuations/flexibility, then RMSF will have meaning. If you're looking simply
for structural deviations/changes, then perhaps RMSD is appropriate. You can
gather both using a single g_rmsf command, so draw your own conclusions from
what you obtain.
-Justin
Thanks in advance
Shiva
--
========================================
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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