Two-tiered enforcement of high-fidelity DNA ligation

Nat Commun. 2019 Nov 28;10(1):5431. doi: 10.1038/s41467-019-13478-7.

Abstract

DNA ligases catalyze the joining of DNA strands to complete DNA replication, recombination and repair transactions. To protect the integrity of the genome, DNA ligase 1 (LIG1) discriminates against DNA junctions harboring mutagenic 3'-DNA mismatches or oxidative DNA damage, but how such high-fidelity ligation is enforced is unknown. Here, X-ray structures and kinetic analyses of LIG1 complexes with undamaged and oxidatively damaged DNA unveil that LIG1 employs Mg2+-reinforced DNA binding to validate DNA base pairing during the adenylyl transfer and nick-sealing ligation reaction steps. Our results support a model whereby LIG1 fidelity is governed by a high-fidelity (HiFi) interface between LIG1, Mg2+, and the DNA substrate that tunes the enzyme to release pro-mutagenic DNA nicks. In a second tier of protection, LIG1 activity is surveilled by Aprataxin (APTX), which suppresses mutagenic and abortive ligation at sites of oxidative DNA damage.

Publication types

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

MeSH terms

  • DNA / metabolism*
  • DNA / ultrastructure
  • DNA Breaks, Single-Stranded
  • DNA Damage
  • DNA Ligase ATP / metabolism*
  • DNA Ligase ATP / ultrastructure
  • DNA Repair
  • DNA Replication
  • DNA-Binding Proteins / metabolism*
  • Guanine / analogs & derivatives
  • Guanine / metabolism
  • Humans
  • Magnesium / metabolism*
  • Nuclear Proteins / metabolism*
  • Nucleic Acid Conformation
  • Oxidation-Reduction
  • Protein Structure, Tertiary
  • Recombinational DNA Repair

Substances

  • APTX protein, human
  • DNA-Binding Proteins
  • LIG1 protein, human
  • Nuclear Proteins
  • 8-hydroxyguanine
  • Guanine
  • DNA
  • DNA Ligase ATP
  • Magnesium