A single amino acid governs enhanced activity of DinB DNA polymerases on damaged templates

Daniel F. Jarosz, Veronica G. Godoy, James C. Delaney, John M. Essigmann and Graham C. Walker ()
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Daniel F. Jarosz: Department of Chemistry
Veronica G. Godoy: Department of Biology
James C. Delaney: Department of Chemistry
John M. Essigmann: Department of Chemistry
Graham C. Walker: Department of Biology

Nature, 2006, vol. 439, issue 7073, 225-228

Abstract: Abstract Translesion synthesis (TLS) by Y-family DNA polymerases is a chief mechanism of DNA damage tolerance1. Such TLS can be accurate or error-prone, as it is for bypass of a cyclobutane pyrimidine dimer by DNA polymerase η (XP-V or Rad30) or bypass of a (6-4) TT photoproduct by DNA polymerase V (UmuD′2C), respectively2,3. Although DinB is the only Y-family DNA polymerase conserved among all domains of life, the biological rationale for this striking conservation has remained enigmatic4. Here we report that the Escherichia coli dinB gene is required for resistance to some DNA-damaging agents that form adducts at the N2-position of deoxyguanosine (dG). We show that DinB (DNA polymerase IV) catalyses accurate TLS over one such N2-dG adduct (N2-furfuryl-dG), and that DinB and its mammalian orthologue, DNA polymerase κ, insert deoxycytidine (dC) opposite N2-furfuryl-dG with 10–15-fold greater catalytic proficiency than opposite undamaged dG. We also show that mutating a single amino acid, the ‘steric gate’ residue of DinB (Phe13 → Val) and that of its archaeal homologue Dbh (Phe12 → Ala), separates the abilities of these enzymes to perform TLS over N2-dG adducts from their abilities to replicate an undamaged template. We propose that DinB and its orthologues are specialized to catalyse relatively accurate TLS over some N2-dG adducts that are ubiquitous in nature, that lesion bypass occurs more efficiently than synthesis on undamaged DNA, and that this specificity may be achieved at least in part through a lesion-induced conformational change.

Date: 2006
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DOI: 10.1038/nature04318

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