Beta-sheet preferences from first principles

J Am Chem Soc. 2003 Dec 31;125(52):16383-6. doi: 10.1021/ja0359658.

Abstract

The natural amino acids have different preferences of occurring in specific types of secondary protein structure. Simulations are performed on periodic model beta-sheets of 14 different amino acids, at the level of density functional theory, employing the generalized gradient approximation. We find that the statistically observed beta-sheet propensities correlate very well with the calculated binding energies. Analysis of the calculations shows that the beta-sheet propensities are determined by the local flexibility of the individual polypeptide strands.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acids / chemistry*
  • Computer Simulation
  • Models, Chemical*
  • Protein Structure, Secondary*
  • Proteins / chemistry*
  • Thermodynamics

Substances

  • Amino Acids
  • Proteins