Literature DB >> 24120860

The architecture of yeast DNA polymerase ζ.

Yacob Gómez-Llorente1, Radhika Malik, Rinku Jain, Jayati Roy Choudhury, Robert E Johnson, Louise Prakash, Satya Prakash, Iban Ubarretxena-Belandia, Aneel K Aggarwal.   

Abstract

DNA polymerase ζ (Polζ) is specialized for the extension step of translesion DNA synthesis (TLS). Despite its central role in maintaining genome integrity, little is known about its overall architecture. Initially identified as a heterodimer of the catalytic subunit Rev3 and the accessory subunit Rev7, yeast Polζ has recently been shown to form a stable four-subunit enzyme (Polζ-d) upon the incorporation of Pol31 and Pol32, the accessory subunits of yeast Polδ. To understand the 3D architecture and assembly of Polζ and Polζ-d, we employed electron microscopy. We show here how the catalytic and accessory subunits of Polζ and Polζ-d are organized relative to each other. In particular, we show that Polζ-d has a bilobal architecture resembling the replicative polymerases and that Pol32 lies in proximity to Rev7. Collectively, our study provides views of Polζ and Polζ-d and a structural framework for understanding their roles in DNA damage bypass.
Copyright © 2013 The Authors. Published by Elsevier Inc. All rights reserved.

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Year:  2013        PMID: 24120860      PMCID: PMC3883112          DOI: 10.1016/j.celrep.2013.08.046

Source DB:  PubMed          Journal:  Cell Rep            Impact factor:   9.423


  30 in total

1.  DNA polymerase δ and ζ switch by sharing accessory subunits of DNA polymerase δ.

Authors:  Andrey G Baranovskiy; Artem G Lada; Hollie M Siebler; Yinbo Zhang; Youri I Pavlov; Tahir H Tahirov
Journal:  J Biol Chem       Date:  2012-03-30       Impact factor: 5.157

Review 2.  Cellular functions of DNA polymerase zeta and Rev1 protein.

Authors:  Christopher W Lawrence
Journal:  Adv Protein Chem       Date:  2004

3.  Image processing for electron microscopy single-particle analysis using XMIPP.

Authors:  Sjors H W Scheres; Rafael Núñez-Ramírez; Carlos O S Sorzano; José María Carazo; Roberto Marabini
Journal:  Nat Protoc       Date:  2008       Impact factor: 13.491

4.  Division of labor at the eukaryotic replication fork.

Authors:  Stephanie A Nick McElhinny; Dmitry A Gordenin; Carrie M Stith; Peter M J Burgers; Thomas A Kunkel
Journal:  Mol Cell       Date:  2008-04-25       Impact factor: 17.970

5.  Structural basis of Rev1-mediated assembly of a quaternary vertebrate translesion polymerase complex consisting of Rev1, heterodimeric polymerase (Pol) ζ, and Pol κ.

Authors:  Jessica Wojtaszek; Chul-Jin Lee; Sanjay D'Souza; Brenda Minesinger; Hyungjin Kim; Alan D D'Andrea; Graham C Walker; Pei Zhou
Journal:  J Biol Chem       Date:  2012-08-02       Impact factor: 5.157

6.  Structural basis of recruitment of DNA polymerase ζ by interaction between REV1 and REV7 proteins.

Authors:  Sotaro Kikuchi; Kodai Hara; Toshiyuki Shimizu; Mamoru Sato; Hiroshi Hashimoto
Journal:  J Biol Chem       Date:  2012-08-02       Impact factor: 5.157

7.  Interactions in the error-prone postreplication repair proteins hREV1, hREV3, and hREV7.

Authors:  Y Murakumo; Y Ogura; H Ishii; S Numata; M Ichihara; C M Croce; R Fishel; M Takahashi
Journal:  J Biol Chem       Date:  2001-08-02       Impact factor: 5.157

8.  X-ray structure of the complex of regulatory subunits of human DNA polymerase delta.

Authors:  Andrey G Baranovskiy; Nigar D Babayeva; Victoria G Liston; Igor B Rogozin; Eugene V Koonin; Youri I Pavlov; Dmitry G Vassylyev; Tahir H Tahirov
Journal:  Cell Cycle       Date:  2008-10-04       Impact factor: 4.534

9.  Flexible tethering of primase and DNA Pol α in the eukaryotic primosome.

Authors:  Rafael Núñez-Ramírez; Sebastian Klinge; Ludovic Sauguet; Roberto Melero; María A Recuero-Checa; Mairi Kilkenny; Rajika L Perera; Begoña García-Alvarez; Richard J Hall; Eva Nogales; Luca Pellegrini; Oscar Llorca
Journal:  Nucleic Acids Res       Date:  2011-06-28       Impact factor: 16.971

10.  Negative Staining and Image Classification - Powerful Tools in Modern Electron Microscopy.

Authors:  Melanie Ohi; Ying Li; Yifan Cheng; Thomas Walz
Journal:  Biol Proced Online       Date:  2004-03-19       Impact factor: 3.244

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  20 in total

Review 1.  Translesion DNA polymerases in eukaryotes: what makes them tick?

Authors:  Alexandra Vaisman; Roger Woodgate
Journal:  Crit Rev Biochem Mol Biol       Date:  2017-03-09       Impact factor: 8.250

2.  The C-terminal domain of the DNA polymerase catalytic subunit regulates the primase and polymerase activities of the human DNA polymerase α-primase complex.

Authors:  Yinbo Zhang; Andrey G Baranovskiy; Tahir H Tahirov; Youri I Pavlov
Journal:  J Biol Chem       Date:  2014-06-24       Impact factor: 5.157

3.  Breakthrough for a DNA break-preventer.

Authors:  Richard D Wood; Sabine S Lange
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-14       Impact factor: 11.205

4.  Sml1 Inhibits the DNA Repair Activity of Rev1 in Saccharomyces cerevisiae during Oxidative Stress.

Authors:  Rui Yao; Pei Zhou; Chengjin Wu; Liming Liu; Jing Wu
Journal:  Appl Environ Microbiol       Date:  2020-03-18       Impact factor: 4.792

5.  Human Pol ζ purified with accessory subunits is active in translesion DNA synthesis and complements Pol η in cisplatin bypass.

Authors:  Young-Sam Lee; Mark T Gregory; Wei Yang
Journal:  Proc Natl Acad Sci U S A       Date:  2014-01-21       Impact factor: 11.205

Review 6.  The Rev1-Polζ translesion synthesis mutasome: Structure, interactions and inhibition.

Authors:  Alessandro A Rizzo; Dmitry M Korzhnev
Journal:  Enzymes       Date:  2019-08-09

7.  Interaction between the Rev1 C-Terminal Domain and the PolD3 Subunit of Polζ Suggests a Mechanism of Polymerase Exchange upon Rev1/Polζ-Dependent Translesion Synthesis.

Authors:  Yulia Pustovalova; Mariana T Q Magalhães; Sanjay D'Souza; Alessandro A Rizzo; George Korza; Graham C Walker; Dmitry M Korzhnev
Journal:  Biochemistry       Date:  2016-03-24       Impact factor: 3.162

Review 8.  Structure and function relationships in mammalian DNA polymerases.

Authors:  Nicole M Hoitsma; Amy M Whitaker; Matthew A Schaich; Mallory R Smith; Max S Fairlamb; Bret D Freudenthal
Journal:  Cell Mol Life Sci       Date:  2019-11-13       Impact factor: 9.261

9.  A novel variant of DNA polymerase ζ, Rev3ΔC, highlights differential regulation of Pol32 as a subunit of polymerase δ versus ζ in Saccharomyces cerevisiae.

Authors:  Hollie M Siebler; Artem G Lada; Andrey G Baranovskiy; Tahir H Tahirov; Youri I Pavlov
Journal:  DNA Repair (Amst)       Date:  2014-05-10

10.  A polar filter in DNA polymerases prevents ribonucleotide incorporation.

Authors:  Mary K Johnson; Jithesh Kottur; Deepak T Nair
Journal:  Nucleic Acids Res       Date:  2019-11-18       Impact factor: 16.971

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