Evidence map›Paper›PMID 27481934›Full record

ArticleThe EMBO journal2016

A fidelity mechanism in DNA polymerase lambda promotes error-free bypass of 8-oxo-dG.

Matthew J Burak, Kip E Guja, Elena Hambardjieva, Burak Derkunt, Miguel Garcia-Diaz

Abstract read
In one paragraph

Article in The EMBO journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

23 citing papers in PubMed.

  1. Article
  2. Review
  3. 8-Oxoguanine: A Lesion, an Epigenetic Mark, or a Molecular Signal?International journal of molecular sciences · 2025
    Review
  4. DNA polymerase β suppresses somatic indels at CpG dinucleotides in developing cortical neurons.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  5. Oxidative Stress and DNA Damage at Telomeres.Cold Spring Harbor perspectives in biology · 2025
    Review
  6. Article
  7. Review
  8. 8-Oxoadenine: A «New» Player of the Oxidative Stress in Mammals?International journal of molecular sciences · 2024
    Review
  9. Article
  10. Article
  11. Article
  12. Review
  13. Review
  14. Article
  15. Article
  16. Article
  17. Synthesis of 8-oxo-dGTP and its β,γ-CHTetrahedron letters · 2021
    Article
  18. Review
  19. Review
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors.

Matthew J BurakDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, NY, USA.
Kip E GujaDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, NY, USA.
Elena HambardjievaDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, NY, USA.
Burak DerkuntDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, NY, USA.
Miguel Garcia-DiazDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, NY, USA miguel.garcia-diaz@stonybrook.edu.ORCID 0000-0003-1605-6861

Funding

X-ray Absorption Spectroscopy (XAS) pp.711-759P41GM103393 · NIGMS · STANFORD UNIVERSITY · PI HODGSON, KEITH O · 2012 to 2019
$30.6M
Life Science and Biomedical technology Research center at NSLS-II LSBRP41GM111244 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI MCSWEENEY, SEAN · 2014 to 2018
$16.4M
Case Center for Synchrotron BiosciencesP30EB009998 · NIBIB · CASE WESTERN RESERVE UNIVERSITY · PI CHANCE, MARK R · 2009 to 2018
$8.4M
SBU Chemistry-Biology Interface Training ProgramT32GM092714 · NIGMS · STATE UNIVERSITY NEW YORK STONY BROOK · PI SAMPSON, NICOLE S, TONGE, PETER J · 2010 to 2019
$1.7M
Mechanisms of mitochondrial transcriptionR01GM100021 · NIGMS · STATE UNIVERSITY NEW YORK STONY BROOK · PI GARCIA-DIAZ, MIGUEL · 2012 to 2016
$1.5M
Characterization of an essential mitochondrial rRNA methyltransferaseF30ES022930 · NIEHS · STATE UNIVERSITY NEW YORK STONY BROOK · PI GUJA, KIP E · 2013 to 2014
$95k
NIBIB NIH HHS P30 EB009998NIEHS NIH HHS F30 ES022930NIGMS NIH HHS P41 GM103393NIGMS NIH HHS P41 GM111244NIGMS NIH HHS R01 GM100021NIGMS NIH HHS T32 GM092714
6 · The paper itself

Abstract

8-oxo-7,8-dihydroxy-2'-deoxyguanosine (8-oxo-dG) has high mutagenic potential as it is prone to mispair with deoxyadenine (dA). In order to maintain genomic integrity, post-replicative 8-oxo-dG:dA mispairs are removed through DNA polymerase lambda (Pol λ)-dependent MUTYH-initiated base excision repair (BER). Here, we describe seven novel crystal structures and kinetic data that fully characterize 8-oxo-dG bypass by Pol λ. We demonstrate that Pol λ has a flexible active site that can tolerate 8-oxo-dG in either the anti- or syn-conformation. Importantly, we show that discrimination against the pro-mutagenic syn-conformation occurs at the extension step and identify the residue responsible for this selectivity. This residue acts as a kinetic switch, shunting repair toward long-patch BER upon correct dCMP incorporation, thus enhancing repair efficiency. Moreover, this switch also provides a potential mechanism to increase repair fidelity of MUTYH-initiated BER.

Indexed as

Base Pair MismatchDNA Repair8-Hydroxy-2'-DeoxyguanosineCatalytic DomainCrystallography, X-RayDeoxyguanosineDNA Polymerase betaHumansKineticsProtein Conformation8-Hydroxy-2'-DeoxyguanosineDeoxyguanosineDNA Polymerase betaDNA polymerase beta28‐oxo‐deoxyguanosineDNA repairMUTYHpolymerase lambda

Identifiers

PMID27481934
PMCPMC5282837

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.