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Biochemistry (Moscow)

, Volume 74, Issue 8, pp 888–897 | Cite as

Prediction of amino acid residues protected from hydrogen-deuterium exchange in a protein chain

  • N. V. Dovidchenko
  • M. Yu. Lobanov
  • S. O. Garbuzynskiy
  • O. V. GalzitskayaEmail author
Article

Abstract

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 

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Copyright information

© Pleiades Publishing, Ltd. 2009

Authors and Affiliations

  • N. V. Dovidchenko
    • 1
  • M. Yu. Lobanov
    • 1
  • S. O. Garbuzynskiy
    • 1
  • O. V. Galzitskaya
    • 1
    Email author
  1. 1.Institute of Protein ResearchRussian Academy of SciencesPushchino, Moscow RegionRussia

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