Loss of DNA Polymerase β Stacking Interactions with Templating Purines, but Not Pyrimidines, Alters Catalytic Efficiency and Fidelity
pmid: 11756435
Loss of DNA Polymerase β Stacking Interactions with Templating Purines, but Not Pyrimidines, Alters Catalytic Efficiency and Fidelity
Structures of DNA polymerases bound with DNA reveal that the 5'-trajectory of the template strand is dramatically altered as it exits the polymerase active site. This distortion provides the polymerase access to the nascent base pair to interrogate proper Watson-Crick geometry. Upon binding a correct deoxynucleoside triphosphate, alpha-helix N of DNA polymerase beta is observed to form one face of the binding pocket for the new base pair. Asp-276 and Lys-280 stack with the bases of the incoming nucleotide and template, respectively. To determine the role of Lys-280, site-directed mutants were constructed at this position, and the proteins were expressed and purified, and their catalytic efficiency and fidelity were assessed. The catalytic efficiency for single-nucleotide gap filling with the glycine mutant (K280G) was strongly diminished relative to wild type for templating purines (>15-fold) due to a decreased binding affinity for the incoming nucleotide. In contrast, catalytic efficiency was hardly affected by glycine substitution for templating pyrimidines (<4-fold). The fidelity of the glycine mutant was identical to the wild type enzyme for misinsertion opposite a template thymidine, whereas the fidelity of misinsertion opposite a template guanine was modestly altered. The nature of the Lys-280 side-chain substitution for thymidine triphosphate insertion (templating adenine) indicates that Lys-280 "stabilizes" templating purines through van der Waals interactions.
- National Institutes of Health United States
- North Carolina Central University United States
- Research Triangle Park Foundation United States
Models, Molecular, Aspartic Acid, Binding Sites, Dose-Response Relationship, Drug, Base Pair Mismatch, Lysine, Glycine, Hydrogen Bonding, DNA, Arginine, Catalysis, Protein Structure, Secondary, Protein Structure, Tertiary, Kinetics, Models, Chemical, Mutation, Mutagenesis, Site-Directed, Humans, DNA Polymerase beta, Protein Binding
Models, Molecular, Aspartic Acid, Binding Sites, Dose-Response Relationship, Drug, Base Pair Mismatch, Lysine, Glycine, Hydrogen Bonding, DNA, Arginine, Catalysis, Protein Structure, Secondary, Protein Structure, Tertiary, Kinetics, Models, Chemical, Mutation, Mutagenesis, Site-Directed, Humans, DNA Polymerase beta, Protein Binding
6 Research products, page 1 of 1
- 2019IsRelatedTo
- 2017IsRelatedTo
- 2019IsRelatedTo
- 2017IsRelatedTo
- 2017IsRelatedTo
- 2019IsRelatedTo
citations This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).75 popularity This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.Top 10% influence This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).Top 10% impulse This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.Top 10%
