A Decade of Biochemical and Structural Studies of the DNA Repair Machinery of : Major Findings, Functional and Mechanistic Insight and Challenges

Overview

Journal Comput Struct Biotechnol J

Specialty Biotechnology

Date 2016 Dec 8

PMID 27924191

Citations 25

Authors

Joanna Timmins

Elin Moe

Affiliations

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References

Bentchikou E, Servant P, Coste G, Sommer S . Additive effects of SbcCD and PolX deficiencies in the in vivo repair of DNA double-strand breaks in Deinococcus radiodurans. J Bacteriol. 2007; 189(13):4784-90. PMC: 1913444. DOI: 10.1128/JB.00452-07. View

Kitayama S, Narumi I, Kikuchi M, Watanabe H . Mutation in recR gene of Deinococcus radiodurans and possible involvement of its product in the repair of DNA interstrand cross-links. Mutat Res. 2000; 461(3):179-87. DOI: 10.1016/s0921-8777(00)00044-6. View

Huang L, Hua X, Lu H, Gao G, Tian B, Shen B . Three tandem HRDC domains have synergistic effect on the RecQ functions in Deinococcus radiodurans. DNA Repair (Amst). 2006; 6(2):167-76. DOI: 10.1016/j.dnarep.2006.09.006. View

Kosa J, Zdraveski Z, Currier S, Marinus M, Essigmann J . RecN and RecG are required for Escherichia coli survival of Bleomycin-induced damage. Mutat Res. 2004; 554(1-2):149-57. DOI: 10.1016/j.mrfmmm.2004.04.011. View

Sarre A, Okvist M, Klar T, Hall D, Smalas A, McSweeney S . Structural and functional characterization of two unusual endonuclease III enzymes from Deinococcus radiodurans. J Struct Biol. 2015; 191(2):87-99. DOI: 10.1016/j.jsb.2015.05.009. View

Webb B, Cox M, Inman R . An interaction between the Escherichia coli RecF and RecR proteins dependent on ATP and double-stranded DNA. J Biol Chem. 1995; 270(52):31397-404. DOI: 10.1074/jbc.270.52.31397. View

Pellegrino S, Radzimanowski J, McSweeney S, Timmins J . Expression, purification and preliminary structural analysis of the head domain of Deinococcus radiodurans RecN. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012; 68(Pt 1):81-4. PMC: 3253842. DOI: 10.1107/S1744309111048743. View

Makharashvili N, Koroleva O, Bera S, Grandgenett D, Korolev S . A novel structure of DNA repair protein RecO from Deinococcus radiodurans. Structure. 2004; 12(10):1881-9. DOI: 10.1016/j.str.2004.08.006. View

Ayora S, Carrasco B, Cardenas P, Cesar C, Canas C, Yadav T . Double-strand break repair in bacteria: a view from Bacillus subtilis. FEMS Microbiol Rev. 2011; 35(6):1055-81. DOI: 10.1111/j.1574-6976.2011.00272.x. View

10.

Killoran M, Keck J . Structure and function of the regulatory C-terminal HRDC domain from Deinococcus radiodurans RecQ. Nucleic Acids Res. 2008; 36(9):3139-49. PMC: 2396406. DOI: 10.1093/nar/gkn143. View

11.

Ghosal D, Omelchenko M, Gaidamakova E, Matrosova V, Vasilenko A, Venkateswaran A . How radiation kills cells: survival of Deinococcus radiodurans and Shewanella oneidensis under oxidative stress. FEMS Microbiol Rev. 2005; 29(2):361-75. DOI: 10.1016/j.femsre.2004.12.007. View

12.

Narumi I, Satoh K, Cui S, Funayama T, Kitayama S, Watanabe H . PprA: a novel protein from Deinococcus radiodurans that stimulates DNA ligation. Mol Microbiol. 2004; 54(1):278-85. DOI: 10.1111/j.1365-2958.2004.04272.x. View

13.

Vujicic-Zagar A, Dulermo R, Le Gorrec M, Vannier F, Servant P, Sommer S . Crystal structure of the IrrE protein, a central regulator of DNA damage repair in deinococcaceae. J Mol Biol. 2009; 386(3):704-16. DOI: 10.1016/j.jmb.2008.12.062. View

14.

Kim J, Cox M . The RecA proteins of Deinococcus radiodurans and Escherichia coli promote DNA strand exchange via inverse pathways. Proc Natl Acad Sci U S A. 2002; 99(12):7917-21. PMC: 122995. DOI: 10.1073/pnas.122218499. View

15.

Timmins J, Leiros I, McSweeney S . Crystal structure and mutational study of RecOR provide insight into its mode of DNA binding. EMBO J. 2007; 26(13):3260-71. PMC: 1914108. DOI: 10.1038/sj.emboj.7601760. View

16.

Lindahl T . An N-glycosidase from Escherichia coli that releases free uracil from DNA containing deaminated cytosine residues. Proc Natl Acad Sci U S A. 1974; 71(9):3649-53. PMC: 433833. DOI: 10.1073/pnas.71.9.3649. View

17.

Saikrishnan K, Bidya Sagar M, Ravishankar R, Roy S, Purnapatre K, Handa P . Domain closure and action of uracil DNA glycosylase (UDG): structures of new crystal forms containing the Escherichia coli enzyme and a comparative study of the known structures involving UDG. Acta Crystallogr D Biol Crystallogr. 2002; 58(Pt 8):1269-76. DOI: 10.1107/s0907444902009599. View

18.

Shadrick W, Julin D . Kinetics of DNA unwinding by the RecD2 helicase from Deinococcus radiodurans. J Biol Chem. 2010; 285(23):17292-300. PMC: 2878492. DOI: 10.1074/jbc.M110.111427. View

19.

Pedersen H, Johnson K, McVey C, Leiros I, Moe E . Structure determination of uracil-DNA N-glycosylase from Deinococcus radiodurans in complex with DNA. Acta Crystallogr D Biol Crystallogr. 2015; 71(Pt 10):2137-49. DOI: 10.1107/S1399004715014157. View

20.

Blasius M, Buob R, Shevelev I, Hubscher U . Enzymes involved in DNA ligation and end-healing in the radioresistant bacterium Deinococcus radiodurans. BMC Mol Biol. 2007; 8:69. PMC: 1997131. DOI: 10.1186/1471-2199-8-69. View