Damage recognition by UV damage endonuclease from Schizosaccharomyces pombe

DNA Repair

Volumn 8, Issue 5, 2009, Pages 600-611

  Paspaleva, Keti ^a   Moolenaar, Geri F ^a   Goosen, Nora ^a  

^a LEIDEN UNIVERSITY   (Netherlands)

Author keywords

Damage recognition; DNA repair; UVDE

Indexed keywords

CURVED DNA; DNA (APURINIC OR APYRIMIDINIC SITE) LYASE; ENDONUCLEASE; MUTANT PROTEIN; PURINE; PYRIMIDINE; SOLVENT; TYROSINE;

ARTICLE; DNA HELIX; ENZYME ACTIVE SITE; ENZYME ACTIVITY; ENZYME MECHANISM; HYDROPHOBICITY; MOLECULAR STABILITY; NONHUMAN; PH; PRIORITY JOURNAL; PROTEIN DNA BINDING; SCHIZOSACCHAROMYCES POMBE; ULTRAVIOLET RADIATION;

2-AMINOPURINE; BLOTTING, WESTERN; CELL NUCLEUS; DNA DAMAGE; DNA REPAIR; DNA, FUNGAL; ENDODEOXYRIBONUCLEASES; FLUORESCENT ANTIBODY TECHNIQUE; IMMUNOPRECIPITATION; MUTATION; SCHIZOSACCHAROMYCES; SCHIZOSACCHAROMYCES POMBE PROTEINS; TYROSINE; ULTRAVIOLET RAYS;

SCHIZOSACCHAROMYCES POMBE;

EID: 63549096515     PISSN: 15687864     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.dnarep.2008.12.004     Document Type: Article

References (32)

1. Kanno S., Iwai S., Takao M., and Yasui A. Repair of apurinic/apyrimidinic sites by UV damage endonuclease; a repair protein for UV and oxidative damage. Nucleic Acids Res. 27 (1999) 3096-3103
2. Avery A.M., Kaur B., Taylor J.S., Mello J.A., Essigmann J.M., and Doetsch P.W. Substrate specificity of ultraviolet DNA endonuclease (UVDE/Uve1p) from Schizosaccharomyces pombe. Nucleic Acids Res. 27 (1999) 2256-2264
3. Kaur B., Fraser J.L.A., Freyer G.A., Davey S., and Doetsch P.W. A Uve1p-mediated mismatch repair pathway in Schizosaccharomyces pombe. Mol. Cell. Biol. 19 (1999) 4703-4710
4. Bowman K.K., Cidik K., Smith C.A., Taylor J.S., Doetsch P.W., and Freyer G.A. A new ATP-independent DNA endonuclease from Schizosaccharomyces pombe that recognizes cyclobutane pyrimidine dimers and 6-4 photoproducts. Nucleic Acids Res. 22 (1994) 2032-3026
5. Yajima H., Takao M., Yasuhira S., Zhao J.H., Ishii C., Inoue H., and Yasui A. A eukaryotic gene encoding an endonuclease that specifically repairs DNA damaged by ultraviolet light. EMBO J. 14 (1995) 2393-2399
6. Takao M., Yonemasu R., Yamamoto K., and Yasui A. Characterization of a UV endonuclease gene from the fission yeast Schizosaccharomyces pombe and its bacterial homolog. Nucleic Acids Res. 24 (1996) 1267-1271
7. Earl A.M., Rankin S.K., Kim K.P., Lamendola O.N., and Battista J. Genetic evidence that the uvsE gene product of Deinococcus radiodurans R1 is a UV damage endonuclease. J. Bacteriol. 184 (2002) 1003-1009
8. Goosen N., and Moolenaar G.F. Repair of UV damage in bacteria. DNA Repair 7 (2008) 353-379
9. Paspaleva K., Thomassen E., Pannu N.S., Iwai S., Moolenaar G.F., Goosen N., and Abrahams J.P. Crystal structure of the DNA repair enzyme UV damage endonuclease. Structure 15 (2007) 1316-1324
10. Hosfield D.J., Guan Y., Haas B.J., Cunningham R.P., and Tainer J.A. Structure of the DNA repair enzyme Endo IV and its DNA complex: double-nucleotide flipping at abasic sites and three-metal-ion catalysis. Cell 98 (1999) 397-408
11. Studier F.W., Rosenberg A.H., Dunn J.J., and Dubendorff J.W. Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol. 185 (1990) 60-89
12. Iwai S. Chemical synthesis of oligonucleotides containing damaged bases for biological studies. Nucleosides Nucleotides Nucleic Acids 25 (2006) 561-582
13. Verhoeven E.E., van Kesteren M., Turner J.J., van der Marel G.A., van Boom J.H., Moolenaar G.F., and Goosen N. The C-terminal region of Escherichia coli UvrC contributes to the flexibility of the UvrABC nucleotide excision repair system. Nucleic Acids Res. 30 (2002) 2492-2500
14. Moolenaar G.F., Schut M., and Goosen N. Binding of the UvrB dimer to non-damaged and damaged DNA: residues Y92 and Y93 influence the stability of both subunits. DNA Repair 4 (2005) 699-713
15. Allan B.W., and Reich N.O. Targeted base stacking disruption by the EcoRI DNA methyltransferase. Biochemistry 35 (1996) 14757-14762
16. Christine K.S., MacFarlane IV A.W., Yang K., and Stanley R.J. Cyclobutylpyrimidine dimer base flipping by DNA photolyase. J. Biol. Chem. 277 (2002) 38339-38344
17. Holz B., Klimasaukas S., Serva S., and Weinhold E. 2-Aminopurine as a fluorescent probe for DNA base flipping by methyltransferases. Nucleic Acids Res. 26 (1998) 1076-1083
18. McCullough A.K., Dodson M.L., Schärer O.D., and Lloyd R.S. The role of base flipping in damage recognition and catalysis by T4 endonuclease V. J. Biol. Chem. 272 (1997) 27210-27217
19. Bandwar R.P., and Patel S.S. Peculiar 2-aminopurine fluorescence monitors the dynamics of open complex formation by bacteriophage T7 RNA polymerase. J. Biol. Chem. 276 (2001) 14075-14082
20. Malta E., Moolenaar G.F., and Goosen N. Base flipping in nucleotide excision repair. J. Biol. Chem. 281 (2006) 2184-2194
21. Rai P., Cole T.D., Thompson E., Millar D.P., and Linn S. Steady-state and time-resolved fluorescence studies indicate an unusual conformation of 2-aminopurine within ATAT and TATA duplex DNA sequences. Nucleic Acids Res. 31 (2003) 2323-2332
22. Padan I., Zilberstein D., and Schuldiner S. pH homeostasis in bacteria. Biochim. Biophys. Acta 650 (1981) 151-166
23. Parikh S.S., Mol C.D., Slupphaug G., Bharati S., Krokan H.E., and Tainer J.A. Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA. EMBO J. 17 (1998) 5214-5226
24. Parikh S.S., Putnam C.D., and Tainer J.A. Lessons learned from structural results on uracil-DNA glycosylase. Mutat. Res. 460 (2000) 183-199
25. Truglio J.J., Croteau D.L., Van Houten B., and Kisker C. Prokaryotic nucleotide excision repair, the UvrABC system. Chem. Rev. 106 (2006) 233-252
26. Gillet L.C., and Scharer O.D. Molecular mechanisms of mammalian global genome nucleotide excision repair. Chem. Rev. 106 (2006) 253-276
27. Miaskiewicz K., Miller J., Ornstein R., and Osman R. Molecular dynamics simulations of the effects of ring-saturated thymine lesions on DNA structure. Biopolymers 35 (1995) 113-124
28. Aller P., Rould M.A., Hogg M., Wallace S.S., and Doublie S. A structural rationale for stalling of a replicative DNA polymerase at the most common oxidative thymine lesion, thymine glycol. Proc. Natl. Acad. Sci. U.S.A. 104 (2007) 814-818
29. Kim J.-K., and Choi B. The solution structure of DNA duplex-decamer containing the (6-4) photoproduct of thymidylyl(3′ → 5′)thymidine by NMR and relaxation matrix refinement. Eur. J. Biochem. 228 (1995) 849-854
30. Park H., Zhang K., Ren Y., Nadji S., Sinha N., Taylor J., and Kang C. Crystal structure of a DNA decamer containing a cis-syn thymine dimer. Proc. Natl. Acad. Sci. U.S.A. 99 (2002) 15965-15970
31. Chen J., Dupradeau F.-Y., Case D.A., Turner C.J., and Stubbe J.A. DNA oligonucleotides with A, T, G or C opposite an abasic site: structure and dynamics. Nucleic Acids Res. 36 (2008) 253-262
32. Garcin E.D., Hosfield D.J., Desai S.A., Haas B.J., Björas M., Cunningham R.P., and Tainer J.A. DNA apurinic-apyrimidinic site binding and excision by endonuclease IV. Nat. Struct. Mol. Biol. 15 (2008) 515-522