Literature DB >> 11058099

Structural and mechanistic conservation in DNA ligases.

A J Doherty1, S W Suh.   

Abstract

DNA ligases are enzymes required for the repair, replication and recombination of DNA. DNA ligases catalyse the formation of phosphodiester bonds at single-strand breaks in double-stranded DNA. Despite their occurrence in all organisms, DNA ligases show a wide diversity of amino acid sequences, molecular sizes and properties. The enzymes fall into two groups based on their cofactor specificity, those requiring NAD(+) for activity and those requiring ATP. The eukaryotic, viral and archael bacteria encoded enzymes all require ATP. NAD(+)-requiring DNA ligases have only been found in prokaryotic organisms. Recently, the crystal structures of a number of DNA ligases have been reported. It is the purpose of this review to summarise the current knowledge of the structure and catalytic mechanism of DNA ligases.

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Year:  2000        PMID: 11058099      PMCID: PMC113121          DOI: 10.1093/nar/28.21.4051

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  57 in total

1.  Structure of the adenylation domain of an NAD+-dependent DNA ligase.

Authors:  M R Singleton; K Håkansson; D J Timson; D B Wigley
Journal:  Structure       Date:  1999-01-15       Impact factor: 5.006

2.  Conversion of a DNA ligase into an RNA capping enzyme.

Authors:  A J Doherty
Journal:  Nucleic Acids Res       Date:  1999-08-15       Impact factor: 16.971

3.  Crystal structure of NAD(+)-dependent DNA ligase: modular architecture and functional implications.

Authors:  J Y Lee; C Chang; H K Song; J Moon; J K Yang; H K Kim; S T Kwon; S W Suh
Journal:  EMBO J       Date:  2000-03-01       Impact factor: 11.598

Review 4.  Mammalian DNA ligases.

Authors:  T Lindahl; D E Barnes
Journal:  Annu Rev Biochem       Date:  1992       Impact factor: 23.643

5.  Mutational analysis of Escherichia coli DNA ligase identifies amino acids required for nick-ligation in vitro and for in vivo complementation of the growth of yeast cells deleted for CDC9 and LIG4.

Authors:  V Sriskanda; B Schwer; C K Ho; S Shuman
Journal:  Nucleic Acids Res       Date:  1999-10-15       Impact factor: 16.971

6.  The crystal structure of the complex of replication protein A subunits RPA32 and RPA14 reveals a mechanism for single-stranded DNA binding.

Authors:  A Bochkarev; E Bochkareva; L Frappier; A M Edwards
Journal:  EMBO J       Date:  1999-08-16       Impact factor: 11.598

7.  DNA ligase III is recruited to DNA strand breaks by a zinc finger motif homologous to that of poly(ADP-ribose) polymerase. Identification of two functionally distinct DNA binding regions within DNA ligase III.

Authors:  Z B Mackey; C Niedergang; J M Murcia; J Leppard; K Au; J Chen; G de Murcia; A E Tomkinson
Journal:  J Biol Chem       Date:  1999-07-30       Impact factor: 5.157

8.  In vitro mutagenesis and functional expression in Escherichia coli of a cDNA encoding the catalytic domain of human DNA ligase I.

Authors:  K Kodama; D E Barnes; T Lindahl
Journal:  Nucleic Acids Res       Date:  1991-11-25       Impact factor: 16.971

9.  Footprinting of Chlorella virus DNA ligase bound at a nick in duplex DNA.

Authors:  M Odell; S Shuman
Journal:  J Biol Chem       Date:  1999-05-14       Impact factor: 5.157

Review 10.  RNA capping enzyme and DNA ligase: a superfamily of covalent nucleotidyl transferases.

Authors:  S Shuman; B Schwer
Journal:  Mol Microbiol       Date:  1995-08       Impact factor: 3.501

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  50 in total

1.  Real-time monitoring of nucleic acid ligation in homogenous solutions using molecular beacons.

Authors:  Zhiwen Tang; Kemin Wang; Weihong Tan; Jun Li; Lingfeng Liu; Qiuping Guo; Xiangxian Meng; Changbei Ma; Shasheng Huang
Journal:  Nucleic Acids Res       Date:  2003-12-01       Impact factor: 16.971

2.  Discovery and characterization of a thermostable bacteriophage RNA ligase homologous to T4 RNA ligase 1.

Authors:  Thorarinn Blondal; Sigridur H Hjorleifsdottir; Olafur F Fridjonsson; Arnthor Aevarsson; Sigurlaug Skirnisdottir; Anna Gudny Hermannsdottir; Gudmundur O Hreggvidsson; Albert Vernon Smith; Jakob K Kristjansson
Journal:  Nucleic Acids Res       Date:  2003-12-15       Impact factor: 16.971

3.  DNA ligases ensure fidelity by interrogating minor groove contacts.

Authors:  Pingfang Liu; Artur Burdzy; Lawrence C Sowers
Journal:  Nucleic Acids Res       Date:  2004-08-24       Impact factor: 16.971

4.  The hyperthermophilic euryarchaeon Archaeoglobus fulgidus repairs uracil by single-nucleotide replacement.

Authors:  Ingeborg Knævelsrud; Marivi N Moen; Kristin Grøsvik; Gyri T Haugland; Nils-Kåre Birkeland; Arne Klungland; Ingar Leiros; Svein Bjelland
Journal:  J Bacteriol       Date:  2010-05-07       Impact factor: 3.490

5.  Direct comparison of nick-joining activity of the nucleic acid ligases from bacteriophage T4.

Authors:  Desmond R Bullard; Richard P Bowater
Journal:  Biochem J       Date:  2006-08-15       Impact factor: 3.857

6.  Characterization of an ATP-dependent DNA ligase from the acidophilic archaeon "Ferroplasma acidarmanus" Fer1.

Authors:  Brian R Jackson; Catherine Noble; Manuel Lavesa-Curto; Philip L Bond; Richard P Bowater
Journal:  Extremophiles       Date:  2006-11-30       Impact factor: 2.395

7.  Kinetoplastid RNA editing ligases 1 and 2 exhibit different electrostatic properties.

Authors:  Alireza Shaneh; Reza Salavati
Journal:  J Mol Model       Date:  2009-05-27       Impact factor: 1.810

8.  Uracil-DNA glycosylase of Thermoplasma acidophilum directs long-patch base excision repair, which is promoted by deoxynucleoside triphosphates and ATP/ADP, into short-patch repair.

Authors:  Marivi N Moen; Ingeborg Knævelsrud; Gyri T Haugland; Kristin Grøsvik; Nils-Kåre Birkeland; Arne Klungland; Svein Bjelland
Journal:  J Bacteriol       Date:  2011-06-10       Impact factor: 3.490

9.  The UL6 gene product forms the portal for entry of DNA into the herpes simplex virus capsid.

Authors:  W W Newcomb; R M Juhas; D R Thomsen; F L Homa; A D Burch; S K Weller; J C Brown
Journal:  J Virol       Date:  2001-11       Impact factor: 5.103

10.  Analysis of the DNA joining repertoire of Chlorella virus DNA ligase and a new crystal structure of the ligase-adenylate intermediate.

Authors:  Mark Odell; Lucy Malinina; Verl Sriskanda; Marianna Teplova; Stewart Shuman
Journal:  Nucleic Acids Res       Date:  2003-09-01       Impact factor: 16.971

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