Literature DB >> 23076011

Recent advances in the structural mechanisms of DNA glycosylases.

Sonja C Brooks1, Suraj Adhikary, Emily H Rubinson, Brandt F Eichman.   

Abstract

DNA glycosylases safeguard the genome by locating and excising a diverse array of aberrant nucleobases created from oxidation, alkylation, and deamination of DNA. Since the discovery 28years ago that these enzymes employ a base flipping mechanism to trap their substrates, six different protein architectures have been identified to perform the same basic task. Work over the past several years has unraveled details for how the various DNA glycosylases survey DNA, detect damage within the duplex, select for the correct modification, and catalyze base excision. Here, we provide a broad overview of these latest advances in glycosylase mechanisms gleaned from structural enzymology, highlighting features common to all glycosylases as well as key differences that define their particular substrate specificities.
Copyright © 2012 Elsevier B.V. All rights reserved.

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Year:  2012        PMID: 23076011      PMCID: PMC3530658          DOI: 10.1016/j.bbapap.2012.10.005

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


  322 in total

1.  An unprecedented nucleic acid capture mechanism for excision of DNA damage.

Authors:  Emily H Rubinson; A S Prakasha Gowda; Thomas E Spratt; Barry Gold; Brandt F Eichman
Journal:  Nature       Date:  2010-10-03       Impact factor: 49.962

Review 2.  Base-excision repair of oxidative DNA damage.

Authors:  Sheila S David; Valerie L O'Shea; Sucharita Kundu
Journal:  Nature       Date:  2007-06-21       Impact factor: 49.962

3.  Human thymine DNA glycosylase binds to apurinic sites in DNA but is displaced by human apurinic endonuclease 1.

Authors:  T R Waters; P Gallinari; J Jiricny; P F Swann
Journal:  J Biol Chem       Date:  1999-01-01       Impact factor: 5.157

4.  Analysis of substrate specificity of Schizosaccharomyces pombe Mag1 alkylpurine DNA glycosylase.

Authors:  Suraj Adhikary; Brandt F Eichman
Journal:  EMBO Rep       Date:  2011-12-01       Impact factor: 8.807

5.  Separation-of-function mutants unravel the dual-reaction mode of human 8-oxoguanine DNA glycosylase.

Authors:  Bjørn Dalhus; Monika Forsbring; Ina Høydal Helle; Erik Sebastian Vik; Rune Johansen Forstrøm; Paul Hoff Backe; Ingrun Alseth; Magnar Bjørås
Journal:  Structure       Date:  2011-01-12       Impact factor: 5.006

Review 6.  Nucleic acid recognition by tandem helical repeats.

Authors:  Emily H Rubinson; Brandt F Eichman
Journal:  Curr Opin Struct Biol       Date:  2011-12-09       Impact factor: 6.809

7.  Cloning and characterization of a functional human homolog of Escherichia coli endonuclease III.

Authors:  R Aspinwall; D G Rothwell; T Roldan-Arjona; C Anselmino; C J Ward; J P Cheadle; J R Sampson; T Lindahl; P C Harris; I D Hickson
Journal:  Proc Natl Acad Sci U S A       Date:  1997-01-07       Impact factor: 11.205

Review 8.  Structural studies of human alkyladenine glycosylase and E. coli 3-methyladenine glycosylase.

Authors:  T Hollis; A Lau; T Ellenberger
Journal:  Mutat Res       Date:  2000-08-30       Impact factor: 2.433

9.  Uracil-DNA glycosylase acts by substrate autocatalysis.

Authors:  A R Dinner; G M Blackburn; M Karplus
Journal:  Nature       Date:  2001-10-18       Impact factor: 49.962

10.  Inducible repair of O-alkylated DNA pyrimidines in Escherichia coli.

Authors:  T V McCarthy; P Karran; T Lindahl
Journal:  EMBO J       Date:  1984-03       Impact factor: 11.598

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  80 in total

Review 1.  A role for the base excision repair enzyme NEIL3 in replication-dependent repair of interstrand DNA cross-links derived from psoralen and abasic sites.

Authors:  Zhiyu Yang; Maryam Imani Nejad; Jacqueline Gamboa Varela; Nathan E Price; Yinsheng Wang; Kent S Gates
Journal:  DNA Repair (Amst)       Date:  2017-02-20

2.  Genome and cancer single nucleotide polymorphisms of the human NEIL1 DNA glycosylase: activity, structure, and the effect of editing.

Authors:  Aishwarya Prakash; Brittany L Carroll; Joann B Sweasy; Susan S Wallace; Sylvie Doublié
Journal:  DNA Repair (Amst)       Date:  2013-12-29

3.  Structural investigation of a viral ortholog of human NEIL2/3 DNA glycosylases.

Authors:  Aishwarya Prakash; Brian E Eckenroth; April M Averill; Kayo Imamura; Susan S Wallace; Sylvie Doublié
Journal:  DNA Repair (Amst)       Date:  2013-10-10

Review 4.  Targeting DNA repair in cancer: current state and novel approaches.

Authors:  Apostolos Klinakis; Dimitris Karagiannis; Theodoros Rampias
Journal:  Cell Mol Life Sci       Date:  2019-10-14       Impact factor: 9.261

5.  Molecular biology: Salvaging the genome.

Authors:  Sharanya Sivanand; Kathryn E Wellen
Journal:  Nature       Date:  2015-07-22       Impact factor: 49.962

6.  The substrate binding interface of alkylpurine DNA glycosylase AlkD.

Authors:  Elwood A Mullins; Emily H Rubinson; Brandt F Eichman
Journal:  DNA Repair (Amst)       Date:  2013-11-26

7.  Replication-Dependent Unhooking of DNA Interstrand Cross-Links by the NEIL3 Glycosylase.

Authors:  Daniel R Semlow; Jieqiong Zhang; Magda Budzowska; Alexander C Drohat; Johannes C Walter
Journal:  Cell       Date:  2016-09-29       Impact factor: 41.582

8.  Depurination of N7-methylguanine by DNA glycosylase AlkD is dependent on the DNA backbone.

Authors:  Emily H Rubinson; Plamen P Christov; Brandt F Eichman
Journal:  Biochemistry       Date:  2013-10-07       Impact factor: 3.162

9.  A Catalytic Role for C-H/π Interactions in Base Excision Repair by Bacillus cereus DNA Glycosylase AlkD.

Authors:  Zachary D Parsons; Joshua M Bland; Elwood A Mullins; Brandt F Eichman
Journal:  J Am Chem Soc       Date:  2016-09-01       Impact factor: 15.419

10.  Insights into conformational changes in AlkD bound to DNA with a yatakemycin adduct from computational simulations.

Authors:  Pavel Silvestrov; G Andrés Cisneros
Journal:  Theor Chem Acc       Date:  2018-05-12       Impact factor: 1.702

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