Literature DB >> 21070945

Structural basis for error-free replication of oxidatively damaged DNA by yeast DNA polymerase η.

Timothy D Silverstein1, Rinku Jain, Robert E Johnson, Louise Prakash, Satya Prakash, Aneel K Aggarwal.   

Abstract

7,8-dihydro-8-oxoguanine (8-oxoG) adducts are formed frequently by the attack of oxygen-free radicals on DNA. They are among the most mutagenic lesions in cells because of their dual coding potential, where, in addition to normal base-pairing of 8-oxoG(anti) with dCTP, 8-oxoG in the syn conformation can base pair with dATP, causing G to T transversions. We provide here for the first time a structural basis for the error-free replication of 8-oxoG lesions by yeast DNA polymerase η (Polη). We show that the open active site cleft of Polη can accommodate an 8-oxoG lesion in the anti conformation with only minimal changes to the polymerase and the bound DNA: at both the insertion and post-insertion steps of lesion bypass. Importantly, the active site geometry remains the same as in the undamaged complex and provides a basis for the ability of Polη to prevent the mutagenic replication of 8-oxoG lesions in cells.
Copyright © 2010 Elsevier Ltd. All rights reserved.

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Year:  2010        PMID: 21070945      PMCID: PMC3044447          DOI: 10.1016/j.str.2010.08.019

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  45 in total

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Authors:  T A Steitz
Journal:  J Biol Chem       Date:  1999-06-18       Impact factor: 5.157

2.  Structure of the catalytic core of S. cerevisiae DNA polymerase eta: implications for translesion DNA synthesis.

Authors:  J Trincao; R E Johnson; C R Escalante; S Prakash; L Prakash; A K Aggarwal
Journal:  Mol Cell       Date:  2001-08       Impact factor: 17.970

3.  Efficient and accurate replication in the presence of 7,8-dihydro-8-oxoguanine by DNA polymerase eta.

Authors:  L Haracska; S L Yu; R E Johnson; L Prakash; S Prakash
Journal:  Nat Genet       Date:  2000-08       Impact factor: 38.330

4.  Human DINB1-encoded DNA polymerase kappa is a promiscuous extender of mispaired primer termini.

Authors:  M Todd Washington; Robert E Johnson; Louise Prakash; Satya Prakash
Journal:  Proc Natl Acad Sci U S A       Date:  2002-02-12       Impact factor: 11.205

5.  Acidic residues critical for the activity and biological function of yeast DNA polymerase eta.

Authors:  C M Kondratick; M T Washington; S Prakash; L Prakash
Journal:  Mol Cell Biol       Date:  2001-03       Impact factor: 4.272

6.  hRAD30 mutations in the variant form of xeroderma pigmentosum.

Authors:  R E Johnson; C M Kondratick; S Prakash; L Prakash
Journal:  Science       Date:  1999-07-09       Impact factor: 47.728

7.  The XPV (xeroderma pigmentosum variant) gene encodes human DNA polymerase eta.

Authors:  C Masutani; R Kusumoto; A Yamada; N Dohmae; M Yokoi; M Yuasa; M Araki; S Iwai; K Takio; F Hanaoka
Journal:  Nature       Date:  1999-06-17       Impact factor: 49.962

8.  Fidelity of nucleotide insertion at 8-oxo-7,8-dihydroguanine by mammalian DNA polymerase delta. Steady-state and pre-steady-state kinetic analysis.

Authors:  H J Einolf; F P Guengerich
Journal:  J Biol Chem       Date:  2000-11-10       Impact factor: 5.157

9.  Yeast Rev1 protein is a G template-specific DNA polymerase.

Authors:  Lajos Haracska; Satya Prakash; Louise Prakash
Journal:  J Biol Chem       Date:  2002-02-15       Impact factor: 5.157

10.  Structure of DNA polymerase beta with the mutagenic DNA lesion 8-oxodeoxyguanine reveals structural insights into its coding potential.

Authors:  Joseph M Krahn; William A Beard; Holly Miller; Arthur P Grollman; Samuel H Wilson
Journal:  Structure       Date:  2003-01       Impact factor: 5.006

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  20 in total

1.  Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase η in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine.

Authors:  Yan Su; Amritraj Patra; Joel M Harp; Martin Egli; F Peter Guengerich
Journal:  J Biol Chem       Date:  2015-05-06       Impact factor: 5.157

2.  DNA lesion alters global conformational dynamics of Y-family DNA polymerase during catalysis.

Authors:  Brian A Maxwell; Cuiling Xu; Zucai Suo
Journal:  J Biol Chem       Date:  2012-02-23       Impact factor: 5.157

3.  Analyzing the Catalytic Activities and Interactions of Eukaryotic Translesion Synthesis Polymerases.

Authors:  Kyle T Powers; M Todd Washington
Journal:  Methods Enzymol       Date:  2017-05-08       Impact factor: 1.600

4.  Kinetics, structure, and mechanism of 8-Oxo-7,8-dihydro-2'-deoxyguanosine bypass by human DNA polymerase η.

Authors:  Amritraj Patra; Leslie D Nagy; Qianqian Zhang; Yan Su; Livia Müller; F Peter Guengerich; Martin Egli
Journal:  J Biol Chem       Date:  2014-04-23       Impact factor: 5.157

5.  Viewing Human DNA Polymerase β Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.

Authors:  Rajan Vyas; Andrew J Reed; E John Tokarsky; Zucai Suo
Journal:  J Am Chem Soc       Date:  2015-04-09       Impact factor: 15.419

Review 6.  DNA polymerases provide a canon of strategies for translesion synthesis past oxidatively generated lesions.

Authors:  Karl E Zahn; Susan S Wallace; Sylvie Doublié
Journal:  Curr Opin Struct Biol       Date:  2011-04-07       Impact factor: 6.809

Review 7.  Eukaryotic translesion synthesis: Choosing the right tool for the job.

Authors:  Kyle T Powers; M Todd Washington
Journal:  DNA Repair (Amst)       Date:  2018-08-24

8.  Biochemical analysis of active site mutations of human polymerase η.

Authors:  Samuel C Suarez; Renee A Beardslee; Shannon M Toffton; Scott D McCulloch
Journal:  Mutat Res       Date:  2013-03-13       Impact factor: 2.433

9.  Minimal detection of nuclear mutations in XP-V and normal cells treated with oxidative stress inducing agents.

Authors:  Kimberly N Herman; Shannon Toffton; Scott D McCulloch
Journal:  J Biochem Mol Toxicol       Date:  2014-08-28       Impact factor: 3.642

10.  The C-terminal region of translesion synthesis DNA polymerase η is partially unstructured and has high conformational flexibility.

Authors:  Kyle T Powers; Adrian H Elcock; M Todd Washington
Journal:  Nucleic Acids Res       Date:  2018-02-28       Impact factor: 16.971

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