Noncovalent cross-links in context with other structural and functional elements of proteins

J Chem Inf Comput Sci. Mar-Apr 2004;44(2):347-51. doi: 10.1021/ci030409i.

Abstract

Proteins are heteropolymers with evolutionary selected native sequences of residues. These native sequences code for unique and stable 3D structures indispensable for biochemical activity and for proteolysis resistance, the latter which guarantees an appropriate lifetime for the protein in the protease rich cellular environment. Cross-links between residues close in space but far in the primary structure are required to maintain the folded structure of proteins. Some of these cross-links are covalent, most frequently disulfide bonds, but the majority of the cross-links are sets of cooperative noncovalent long-range interactions. In this paper we focus on special clusters of noncovalent long-range interactions: the Stabilization Centers (SCs). The relation between the SCs and secondary structural elements as well as the relation between SCs and functionally important regions of proteins are presented to show a detailed picture of these clusters, which are believed to be primarily responsible for major aspects of protein stability.

Publication types

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

MeSH terms

  • Cross-Linking Reagents
  • Disulfides / chemistry
  • Models, Molecular
  • Peptides / chemistry
  • Protein Conformation
  • Protein Folding
  • Protein Structure, Secondary
  • Proteins / chemistry*
  • Structure-Activity Relationship

Substances

  • Cross-Linking Reagents
  • Disulfides
  • Peptides
  • Proteins