[Back to Issue 8 ToC] [Back to Journal Contents] [Back to Biochemistry (Moscow) Home page]

Prediction of Amino Acid Residues Protected from Hydrogen–Deuterium Exchange in a Protein Chain

N. V. Dovidchenko, M. Yu. Lobanov, S. O. Garbuzynskiy, and O. V. Galzitskaya*

Institute of Protein Research, Russian Academy of Sciences, 142290 Pushchino, Moscow Region, Russia; fax: (495) 632-7871; E-mail: ogalzit@vega.protres.ru

* To whom correspondence should be addressed.

Received February 16, 2009; Revision received March 3, 2009
We have investigated the possibility to predict protection of amino acid residues from hydrogen–deuterium exchange. A database containing experimental hydrogen–deuterium exchange data for 14 proteins for which these data are known has been compiled. Different structural parameters related to flexibility of amino acid residues and their amide groups have been analyzed to answer the question whether these parameters can be used for predicting the protection of amino acid residues from hydrogen–deuterium exchange. A method for prediction of protection of amino acid residues, which uses only the amino acid sequence of a protein, has been elaborated.
KEY WORDS: hydrogen–deuterium exchange, secondary structure, hydrogen bond, B-factor, regions with irregular secondary structure

DOI: 10.1134/S0006297909080100