A common pentapeptide conformation occurs in viral acid proteases and other proteins

J Mol Biol. 1990 Nov 20;216(2):201-6. doi: 10.1016/S0022-2836(05)80307-9.

Abstract

We found a pentapeptide conformation, termed a type I twist, which has a strikingly high propensity (56%) for aspartic acid in the first position. Type I twists include the active site loops from cellular and viral aspartic proteases, with the catalytic Asp in the first position. Fifteen other type I twists, from non-homologous proteins, were found among high-resolution structures in the Protein Data Bank using a comparison method based on main-chain torsion angles. We propose that the Asp affects electrostatic interactions and thus plays a major structural role in the formation of this recurring motif, in addition to its catalytic role in the aspartic proteases.

Publication types

  • Comparative Study
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Amino Acid Sequence
  • Databases, Factual
  • Endopeptidases / genetics*
  • Models, Molecular
  • Molecular Sequence Data
  • Protein Conformation
  • Sequence Homology, Nucleic Acid
  • Viral Proteins / genetics*
  • Viruses / enzymology
  • Viruses / genetics*

Substances

  • Viral Proteins
  • Endopeptidases