Brownian Dynamics Simulation of the Competitive Reactions: Binase Dimerization and the Association of Binase and Barstar

Biophys Chem. 2007 Oct;130(1-2):26-31. doi: 10.1016/j.bpc.2007.06.012. Epub 2007 Jul 5.

Abstract

A comparative study of the competitive reactions-the association reaction of binase with polypeptide inhibitor barstar and the reaction of binase dimerization-has been performed by the Brownian dynamics simulation method. It was shown that three types of the binase dimers could be formed and the dimerization reaction could compete with the inhibition reaction. The first type of the dimers leaves the active centre of binase free. During the formation of the dimers of the second and the third types the active centre of one or both binase molecules is blocked and ribonuclease becomes partially or fully inactive. Brownian dynamics simulation shown, that the ratio of competitive reaction rates depends on pH and ionic strength of solution.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacterial Proteins / chemistry*
  • Dimerization
  • Endoribonucleases / chemistry*
  • Hydrogen-Ion Concentration
  • Osmolar Concentration
  • Protein Conformation
  • Solutions

Substances

  • Bacterial Proteins
  • Solutions
  • barstar protein, Bacillus amyloliquefaciens
  • Endoribonucleases
  • ribonuclease T(2)