It is important to add that none f the current model (TIP3P and SPC)
have
been parameterized to be used as flexible. The Flexible option used for
minimization if necessary.
Using flexibility for both the HOH angle and the OH bonds will result
in a
different model and as far as I know it will not be better than TIP3P
and SPC
flexible.
Just that you know where you re going.
XAvier.
On May 10, 2010, at 3:21 PM, Justin A. Lemkul wrote:
shahab shariati wrote:
Dear Justin
application of SETTLE algorithm is equal to rigidity. is it true?
thanks
That would be the implication. If it's not flexible, it's rigid.
And if it's rigid, then the SETTLE constraint algorithm is being
applied to it.
-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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