Literature DB >> 20123134

Structural diversity of the Y-family DNA polymerases.

Janice D Pata1.   

Abstract

The Y-family translesion DNA polymerases enable cells to tolerate many forms of DNA damage, yet these enzymes have the potential to create genetic mutations at high rates. Although this polymerase family was defined less than a decade ago, more than 90 structures have already been determined so far. These structures show that the individual family members bypass damage and replicate DNA with either error-free or mutagenic outcomes, depending on the polymerase, the lesion and the sequence context. Here, these structures are reviewed and implications for polymerase function are discussed. Copyright (c) 2010 Elsevier B.V. All rights reserved.

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Year:  2010        PMID: 20123134      PMCID: PMC2846201          DOI: 10.1016/j.bbapap.2010.01.020

Source DB:  PubMed          Journal:  Biochim Biophys Acta        ISSN: 0006-3002


  80 in total

1.  Human DNA polymerase iota incorporates dCTP opposite template G via a G.C + Hoogsteen base pair.

Authors:  Deepak T Nair; Robert E Johnson; Louise Prakash; Satya Prakash; Aneel K Aggarwal
Journal:  Structure       Date:  2005-10       Impact factor: 5.006

2.  REV1 protein interacts with PCNA: significance of the REV1 BRCT domain in vitro and in vivo.

Authors:  Caixia Guo; Eiichiro Sonoda; Tie-Shan Tang; Joanne L Parker; Aleksandra B Bielen; Shunichi Takeda; Helle D Ulrich; Errol C Friedberg
Journal:  Mol Cell       Date:  2006-07-21       Impact factor: 17.970

3.  Crystal structure of the catalytic alpha subunit of E. coli replicative DNA polymerase III.

Authors:  Meindert H Lamers; Roxana E Georgescu; Sang-Gyu Lee; Mike O'Donnell; John Kuriyan
Journal:  Cell       Date:  2006-09-08       Impact factor: 41.582

4.  Hoogsteen base pair formation promotes synthesis opposite the 1,N6-ethenodeoxyadenosine lesion by human DNA polymerase iota.

Authors:  Deepak T Nair; Robert E Johnson; Louise Prakash; Satya Prakash; Aneel K Aggarwal
Journal:  Nat Struct Mol Biol       Date:  2006-07-02       Impact factor: 15.369

5.  Efficient and high fidelity incorporation of dCTP opposite 7,8-dihydro-8-oxodeoxyguanosine by Sulfolobus solfataricus DNA polymerase Dpo4.

Authors:  Hong Zang; Adriana Irimia; Jeong-Yun Choi; Karen C Angel; Lioudmila V Loukachevitch; Martin Egli; F Peter Guengerich
Journal:  J Biol Chem       Date:  2005-11-22       Impact factor: 5.157

6.  Rev1 employs a novel mechanism of DNA synthesis using a protein template.

Authors:  Deepak T Nair; Robert E Johnson; Louise Prakash; Satya Prakash; Aneel K Aggarwal
Journal:  Science       Date:  2005-09-30       Impact factor: 47.728

7.  Ubiquitin-binding domains in Y-family polymerases regulate translesion synthesis.

Authors:  Marzena Bienko; Catherine M Green; Nicola Crosetto; Fabian Rudolf; Grzegorz Zapart; Barry Coull; Patricia Kannouche; Gerhard Wider; Matthias Peter; Alan R Lehmann; Kay Hofmann; Ivan Dikic
Journal:  Science       Date:  2005-12-16       Impact factor: 47.728

8.  An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site.

Authors:  Deepak T Nair; Robert E Johnson; Louise Prakash; Satya Prakash; Aneel K Aggarwal
Journal:  Structure       Date:  2006-04       Impact factor: 5.006

9.  Fidelity of Dpo4: effect of metal ions, nucleotide selection and pyrophosphorolysis.

Authors:  Alexandra Vaisman; Hong Ling; Roger Woodgate; Wei Yang
Journal:  EMBO J       Date:  2005-08-18       Impact factor: 11.598

10.  Stepwise translocation of Dpo4 polymerase during error-free bypass of an oxoG lesion.

Authors:  Olga Rechkoblit; Lucy Malinina; Yuan Cheng; Vitaly Kuryavyi; Suse Broyde; Nicholas E Geacintov; Dinshaw J Patel
Journal:  PLoS Biol       Date:  2006-01       Impact factor: 8.029

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  38 in total

1.  Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis.

Authors:  Weina Wang; Homme W Hellinga; Lorena S Beese
Journal:  Proc Natl Acad Sci U S A       Date:  2011-10-17       Impact factor: 11.205

2.  Roles of the Y-family DNA polymerase Dbh in accurate replication of the Sulfolobus genome at high temperature.

Authors:  Cynthia J Sakofsky; Patricia L Foster; Dennis W Grogan
Journal:  DNA Repair (Amst)       Date:  2012-02-04

3.  Efficient extension of slipped DNA intermediates by DinB is required to escape primer template realignment by DnaQ.

Authors:  James J Foti; Graham C Walker
Journal:  J Bacteriol       Date:  2011-03-18       Impact factor: 3.490

4.  Three residues of the interdomain linker determine the conformation and single-base deletion fidelity of Y-family translesion polymerases.

Authors:  Purba Mukherjee; Ryan C Wilson; Indrajit Lahiri; Janice D Pata
Journal:  J Biol Chem       Date:  2014-01-10       Impact factor: 5.157

Review 5.  Mechanisms of mutagenesis: DNA replication in the presence of DNA damage.

Authors:  Binyan Liu; Qizhen Xue; Yong Tang; Jia Cao; F Peter Guengerich; Huidong Zhang
Journal:  Mutat Res Rev Mutat Res       Date:  2016-04-07       Impact factor: 5.657

6.  Noncognate DNA damage prevents the formation of the active conformation of the Y-family DNA polymerases DinB and DNA polymerase κ.

Authors:  Philip Nevin; Xueguang Lu; Ke Zhang; John R Engen; Penny J Beuning
Journal:  FEBS J       Date:  2015-05-11       Impact factor: 5.542

7.  Differential temperature-dependent multimeric assemblies of replication and repair polymerases on DNA increase processivity.

Authors:  Hsiang-Kai Lin; Susan F Chase; Thomas M Laue; Linda Jen-Jacobson; Michael A Trakselis
Journal:  Biochemistry       Date:  2012-09-06       Impact factor: 3.162

8.  Architecture of y-family DNA polymerases relevant to translesion DNA synthesis as revealed in structural and molecular modeling studies.

Authors:  Sushil Chandani; Christopher Jacobs; Edward L Loechler
Journal:  J Nucleic Acids       Date:  2010-09-16

9.  Structural basis for processive DNA synthesis by yeast DNA polymerase ɛ.

Authors:  Matthew Hogg; Pia Osterman; Göran O Bylund; Rais A Ganai; Else-Britt Lundström; A Elisabeth Sauer-Eriksson; Erik Johansson
Journal:  Nat Struct Mol Biol       Date:  2013-12-01       Impact factor: 15.369

10.  Lesion-Induced Mutation in the Hyperthermophilic Archaeon Sulfolobus acidocaldarius and Its Avoidance by the Y-Family DNA Polymerase Dbh.

Authors:  Cynthia J Sakofsky; Dennis W Grogan
Journal:  Genetics       Date:  2015-07-29       Impact factor: 4.562

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