DNA synthesis across an abasic lesion by yeast Rev1 DNA polymerase

Deepak T. Nair, Robert E. Johnson, Louise Prakash, Satya Prakash, Aneel K. Aggarwal

Research output: Contribution to journalArticle

21 Citations (Scopus)

Abstract

Abasic (apurinic/apyrimidinic) sites are among the most abundant DNA lesions in humans, and they present a strong block to replication. They are also highly mutagenic because when replicative DNA polymerases manage to insert a nucleotide opposite the lesion, they prefer to insert an A. Rev1, a member of Y-family DNA polymerases, does not obey the A-rule. This enzyme inserts a C opposite an abasic lesion with much greater catalytic efficiency than an A, G, or T. We present here the structure of yeast Rev1 in ternary complex with DNA containing an abasic lesion and with dCTP as the incoming nucleotide. The structure reveals a mechanism of synthesis across an abasic lesion that differs from that in other polymerases. The lesion is driven to an extrahelical position, and the incorporation of a C is mediated by an arginine (Arg324) that is conserved in all known orthologs of Rev1, including humans. The hydrophobic cavity that normally accommodates the unmodified G is instead filled with water molecules. Since Gs are especially prone to depurination through a spontaneous hydrolysis of the glycosidic bond, the ability of Rev1 to stabilize an abasic lesion in its active site and employ a surrogate arginine to incorporate a C provides a unique means for the "error-free" bypass of this noninstructional lesion.

Original languageEnglish (US)
Pages (from-to)18-28
Number of pages11
JournalJournal of Molecular Biology
Volume406
Issue number1
DOIs
StatePublished - Feb 11 2011

Fingerprint

DNA-Directed DNA Polymerase
Arginine
Nucleotides
Yeasts
Aptitude
DNA
Catalytic Domain
Hydrolysis
Efficiency
Water
Enzymes
2'-deoxycytidine 5'-triphosphate

Keywords

  • Abasic lesion
  • DNA polymerase
  • Rev1
  • translesion DNA synthesis
  • Y-family polymerase

ASJC Scopus subject areas

  • Molecular Biology

Cite this

DNA synthesis across an abasic lesion by yeast Rev1 DNA polymerase. / Nair, Deepak T.; Johnson, Robert E.; Prakash, Louise; Prakash, Satya; Aggarwal, Aneel K.

In: Journal of Molecular Biology, Vol. 406, No. 1, 11.02.2011, p. 18-28.

Research output: Contribution to journalArticle

Nair, Deepak T. ; Johnson, Robert E. ; Prakash, Louise ; Prakash, Satya ; Aggarwal, Aneel K. / DNA synthesis across an abasic lesion by yeast Rev1 DNA polymerase. In: Journal of Molecular Biology. 2011 ; Vol. 406, No. 1. pp. 18-28.
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