Coordinated protein and DNA conformational changes govern mismatch repair initiation by MutS

Nucleic Acids Res. 2018 Nov 16;46(20):10782-10795. doi: 10.1093/nar/gky865.

Abstract

MutS homologs identify base-pairing errors made in DNA during replication and initiate their repair. In the presence of adenosine triphosphate, MutS induces DNA bending upon mismatch recognition and subsequently undergoes conformational transitions that promote its interaction with MutL to signal repair. In the absence of MutL, these transitions lead to formation of a MutS mobile clamp that can move along the DNA. Previous single-molecule FRET (smFRET) studies characterized the dynamics of MutS DNA-binding domains during these transitions. Here, we use protein-DNA and DNA-DNA smFRET to monitor DNA conformational changes, and we use kinetic analyses to correlate DNA and protein conformational changes to one another and to the steps on the pathway to mobile clamp formation. The results reveal multiple sequential structural changes in both MutS and DNA, and they suggest that DNA dynamics play a critical role in the formation of the MutS mobile clamp. Taking these findings together with data from our previous studies, we propose a unified model of coordinated MutS and DNA conformational changes wherein initiation of mismatch repair is governed by a balance of DNA bending/unbending energetics and MutS conformational changes coupled to its nucleotide binding properties.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Base Pair Mismatch / genetics*
  • Base Pairing / physiology
  • DNA / chemistry*
  • DNA Mismatch Repair* / genetics
  • Escherichia coli
  • Fluorescence Resonance Energy Transfer
  • Genomic Instability / genetics
  • Models, Molecular
  • MutS DNA Mismatch-Binding Protein / chemistry
  • MutS DNA Mismatch-Binding Protein / genetics
  • MutS DNA Mismatch-Binding Protein / metabolism*
  • Mutant Proteins / chemistry
  • Mutant Proteins / metabolism
  • Nucleic Acid Conformation*
  • Protein Binding / physiology
  • Protein Conformation
  • Protein Domains / genetics
  • Protein Isoforms / chemistry
  • Protein Isoforms / genetics
  • Protein Isoforms / metabolism

Substances

  • Mutant Proteins
  • Protein Isoforms
  • DNA
  • MutS DNA Mismatch-Binding Protein