Rational Design of Protein-Specific Folding Modifiers

J Am Chem Soc. 2021 Nov 10;143(44):18766-18776. doi: 10.1021/jacs.1c09611. Epub 2021 Nov 1.

Abstract

Protein-folding can go wrong in vivo and in vitro, with significant consequences for the living organism and the pharmaceutical industry, respectively. Here we propose a design principle for small-peptide-based protein-specific folding modifiers. The principle is based on constructing a "xenonucleus", which is a prefolded peptide that mimics the folding nucleus of a protein. Using stopped-flow kinetics, NMR spectroscopy, Förster resonance energy transfer, single-molecule force measurements, and molecular dynamics simulations, we demonstrate that a xenonucleus can make the refolding of ubiquitin faster by 33 ± 5%, while variants of the same peptide have little or no effect. Our approach provides a novel method for constructing specific, genetically encodable folding catalysts for suitable proteins that have a well-defined contiguous folding nucleus.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Models, Molecular
  • Protein Conformation
  • Protein Folding
  • Ubiquitin / chemistry*
  • Ubiquitin / metabolism

Substances

  • Ubiquitin