Dear bharat,
you can try Phosfinder (http://phosfinder.bio.uniroma2.it). It is a
website that predict phosphate binding site on protein stucture.
The paper url is:http://www.ncbi.nlm.nih.gov/pubmed/21622655
Il 31/05/2011 02:06, bharat gupta ha scritto:
thanks ...
On Mon, May 30, 2011 at 5:03 PM, Justin A. Lemkul <[email protected]
<mailto:[email protected]>> wrote:
bharat gupta wrote:
Well, mine is a beta-barrel protein called Green Fluorescent
Protein. In such a case the movement of ion is very important.
As the ion in side the barrel can quench the fluorescence.
That's what I want to track..
You can probably address this with the methods I've described.
That's likely all that anyone can offer. Spend some time looking
through the literature at the many kinds of systems that have been
addressed using SMD and/or umbrella sampling and come up with a
coherent plan to address your system based on what you find.
-Justin
--
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Justin A. Lemkul
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ICTAS Doctoral Scholar
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Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu <http://vt.edu> | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
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