Literature DB >> 16511246

Overexpression, purification and crystallization of an archaeal DNA ligase from Pyrococcus furiosus.

Hirokazu Nishida1, Daisuke Tsuchiya, Yoshizumi Ishino, Kosuke Morikawa.   

Abstract

DNA ligases seal single-strand breaks in double-stranded DNA and their function is essential to maintain the integrity of the genome during various aspects of DNA metabolism, such as replication, excision repair and recombination. DNA-strand breaks are frequently generated as reaction intermediates in these events and the sealing of these breaks depends solely on the proper function of DNA ligase. Crystals of the archaeal DNA ligase from Pyrococcus furiosus were obtained using 6.6%(v/v) ethanol as a precipitant and diffracted X-rays to 1.7 A resolution. They belong to the monoclinic space group P2(1), with unit-cell parameters a = 61.1, b = 88.3, c = 63.4 A, beta = 108.9 degrees. The asymmetric unit contains one ligase molecule.

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Year:  2005        PMID： 16511246      PMCID： PMC1978145          DOI： 10.1107/S1744309105038649

Source DB:  PubMed          Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun        ISSN： 1744-3091


  14 in total

1.  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 2.  DNA ligases in the repair and replication of DNA.

Authors:  D J Timson; M R Singleton; D B Wigley
Journal:  Mutat Res       Date:  2000-08-30       Impact factor: 2.433

Review 3.  Bacterial DNA ligases.

Authors:  A Wilkinson; J Day; R Bowater
Journal:  Mol Microbiol       Date:  2001-06       Impact factor: 3.501

4.  Crystal structure of an ATP-dependent DNA ligase from bacteriophage T7.

Authors:  H S Subramanya; A J Doherty; S R Ashford; D B Wigley
Journal:  Cell       Date:  1996-05-17       Impact factor: 41.582

5.  Processing of X-ray diffraction data collected in oscillation mode.

Authors:  Z Otwinowski; W Minor
Journal:  Methods Enzymol       Date:  1997       Impact factor: 1.600

6.  Crystal structure of eukaryotic DNA ligase-adenylate illuminates the mechanism of nick sensing and strand joining.

Authors:  M Odell; V Sriskanda; S Shuman; D B Nikolov
Journal:  Mol Cell       Date:  2000-11       Impact factor: 17.970

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Authors:  I R Lehman
Journal:  Science       Date:  1974-11-29       Impact factor: 47.728

8.  Solvent content of protein crystals.

Authors:  B W Matthews
Journal:  J Mol Biol       Date:  1968-04-28       Impact factor: 5.469

9.  Human DNA ligase I completely encircles and partially unwinds nicked DNA.

Authors:  John M Pascal; Patrick J O'Brien; Alan E Tomkinson; Tom Ellenberger
Journal:  Nature       Date:  2004-11-25       Impact factor: 49.962

10.  Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.

Authors:  S Shuman; Y Liu; B Schwer
Journal:  Proc Natl Acad Sci U S A       Date:  1994-12-06       Impact factor: 11.205
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  6 in total

1.  Cryo-EM structures and biochemical insights into heterotrimeric PCNA regulation of DNA ligase.

Authors:  Aleksandr Sverzhinsky; Alan E Tomkinson; John M Pascal
Journal:  Structure       Date:  2021-11-26       Impact factor: 5.006

2.  A purple acidophilic di-ferric DNA ligase from Ferroplasma.

Authors:  Manuel Ferrer; Olga V Golyshina; Ana Beloqui; Lars H Böttger; José M Andreu; Julio Polaina; Antonio L De Lacey; Alfred X Trautwein; Kenneth N Timmis; Peter N Golyshin
Journal:  Proc Natl Acad Sci U S A       Date:  2008-06-24       Impact factor: 11.205

3.  Mechanism of replication machinery assembly as revealed by the DNA ligase-PCNA-DNA complex architecture.

Authors:  Kouta Mayanagi; Shinichi Kiyonari; Mihoko Saito; Tsuyoshi Shirai; Yoshizumi Ishino; Kosuke Morikawa
Journal:  Proc Natl Acad Sci U S A       Date:  2009-03-02       Impact factor: 11.205

4.  Enzyme-adenylate structure of a bacterial ATP-dependent DNA ligase with a minimized DNA-binding surface.

Authors:  Adele Williamson; Ulli Rothweiler; Hanna Kirsti Schrøder Leiros
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2014-10-29

5.  Exonuclease processivity of archaeal replicative DNA polymerase in association with PCNA is expedited by mismatches in DNA.

Authors:  Takuya Yoda; Maiko Tanabe; Toshiyuki Tsuji; Takao Yoda; Sonoko Ishino; Tsuyoshi Shirai; Yoshizumi Ishino; Haruko Takeyama; Hirokazu Nishida
Journal:  Sci Rep       Date:  2017-03-16       Impact factor: 4.379

6.  A high-throughput assay for the comprehensive profiling of DNA ligase fidelity.

Authors:  Gregory J S Lohman; Robert J Bauer; Nicole M Nichols; Laurie Mazzola; Joanna Bybee; Danielle Rivizzigno; Elizabeth Cantin; Thomas C Evans
Journal:  Nucleic Acids Res       Date:  2015-09-13       Impact factor: 16.971
  6 in total

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