Analysis of the factors that stabilize a designed two-stranded antiparallel beta-sheet

Protein Sci. 2002 Jun;11(6):1492-505. doi: 10.1110/ps.4140102.

Abstract

Autonomously folding beta-hairpins (two-strand antiparallel beta-sheets) have become increasingly valuable tools for probing the forces that control peptide and protein conformational preferences. We examine the effects of variations in sequence and solvent on the stability of a previously designed 12-residue peptide (1). This peptide adopts a beta-hairpin conformation containing a two-residue loop (D-Pro-Gly) and a four-residue interstrand sidechain cluster that is observed in the natural protein GB1. We show that the conformational propensity of the loop segment plays an important role in beta-hairpin stability by comparing 1 with (D)P--> N mutant 2. In addition, we show that the sidechain cluster contributes both to conformational stability and to folding cooperativity by comparing 1 with mutant 3, in which two of the four cluster residues have been changed to serine. Thermodynamic analysis suggests that the high loop-forming propensity of the (D)PG segment decreases the entropic cost of beta-hairpin formation relative to the more flexible NG segment, but that the conformational rigidity of (D)PG may prevent optimal contacts between the sidechains of the GB1-derived cluster. The enthalpic favorability of folding in these designed beta-hairpins suggests that they are excellent scaffolds for studying the fundamental mechanisms by which amino acid sidechains interact with one another in folded proteins.

Publication types

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

MeSH terms

  • Amino Acid Sequence
  • Drug Stability
  • Humans
  • Mutation
  • Nuclear Magnetic Resonance, Biomolecular
  • Oligopeptides / chemistry*
  • Protein Folding
  • Protein Structure, Secondary / drug effects
  • Protein Structure, Secondary / genetics
  • Receptors, GABA-B / chemistry*
  • Solvents / pharmacology
  • Thermodynamics

Substances

  • Oligopeptides
  • Receptors, GABA-B
  • Solvents