On 7/15/13 7:56 AM, fatemeh ramezani wrote:
Dear Justin
I don't know how can I detect the protonation state of amino acids in specific
pH. Can you help me?
There are various methods for pKa calculations, and based on those results you
can choose the appropriate states with pdb2gmx command-line options. Again,
this topic is covered extensively in the archive and you would benefit from some
of the previous discussions that I will not repeat here.
-Justin
--
==================================================
Justin A. Lemkul, Ph.D.
Postdoctoral Associate
Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 601
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201
jalem...@outerbanks.umaryland.edu | (410) 706-7441
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