A mechanism for the exclusion of low-fidelity human Y-family DNA polymerases from base excision repair

Genes and Development

Volumn 17, Issue 22, 2003, Pages 2777-2785

  Haracska, Lajos ^a   Prakash, Louise ^a   Prakash, Satya ^a  

^a UNIVERSITY OF TEXAS MEDICAL BRANCH   (United States)

Author keywords

5 doexyribose phosphate; 5 dRP lyase; Abasic site; Base excision repair; Y family DNA polymerases

Indexed keywords

5' DEOXYRIBOSE PHOSPHATE; DNA; DNA (APURINIC OR APYRIMIDINIC SITE) LYASE; DNA POLYMERASE; FUNCTIONAL GROUP; PHOSPHATE; SCHIFF BASE; UNCLASSIFIED DRUG;

ARTICLE; CARCINOGENESIS; CATALYSIS; COVALENT BOND; DNA SYNTHESIS INHIBITION; EXCISION REPAIR; INCIDENCE; MUTAGENESIS; PRIORITY JOURNAL; PROTEIN FAMILY;

DNA; DNA PRIMERS; DNA REPAIR; DNA-DIRECTED DNA POLYMERASE; EXODEOXYRIBONUCLEASES; GLUTATHIONE TRANSFERASE; HUMANS; PHOSPHORUS-OXYGEN LYASES; RECOMBINANT FUSION PROTEINS; RIBOSEMONOPHOSPHATES; SCHIFF BASES;

ZIZIPHUS MAURITIANA;

EID: 0344011559     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.1146103     Document Type: Article

References (40)

1. Bailly, V. and Verly, W.G. 1988. Possible roles of β-elimination and δ-elimination reactions in the repair of DNA containing AP (apurinic/apyrimidinic) sites in mammalian cells. Biochem. J. 253: 553-559.
2. -. 1989. The multiple activities of Escherichia coli endonuclease IV and the extreme lability of 5′-terminal base-free deoxyribose 5-phosphates. Biochem. J. 259: 761-768.
3. Bebenek, K., Tissier, A., Frank, E.G., McDonald, J.P., Prasad, R., Wilson, S.H., Woodgate, R., and Kunkel, T.A. 2001. 5′-Deoxyribose phosphate lyase activity of human DNA polymerase ι in vitro. Science 291: 2156-2159.
4. Deterding, L.J., Prasad, R., Mullen, G.P., Wilson, S.H., and Tomer, K.B. 2000. Mapping of the 5′-2-deoxyribose-5-phosphate lyase active site in DNA polymerase β by mass spectrometry. J. Biol. Chem. 275: 10463-10471.
5. Dodson, M.L., Schrock, R.D., and Lloyd, R.S. 1993. Evidence for an imino intermediate in the T4 endonuclease V reaction. Biochemistry 32: 8284-8290.
6. Garcia-Diaz, M., Bebenek, K., Kunkel, T.A., and Blanco, L. 2001. Identification of an intrinsic 5′-deoxyribose-5-phosphate lyase activity in human DNA polymerase λ. J. Biol. Chem. 276: 34659-34663.
7. 6-methylguanine by yeast and human DNA polymerase η. Mol. Cell. Biol. 20: 8001-8007.
8. Haracska, L., Yu, S.-L., Johnson, R.E., Prakash, L., and Prakash, S. 2000b. Efficient and accurate replication in the presence of 7,8-dihydro-8-oxoguanine by DNA polymerase η. Nat. Genet. 25: 458-461.
9. Haracska, L., Johnson, R.E., Unk, I., Phillips, B., Hurwitz, J., Prakash, L., and Prakash, S. 2001a. Physical and functional interactions of human DNA polymerase η with PCNA. Mol. Cell. Biol. 21: 7199-7206.
10. -. 2001b. Targeting of human DNA polymerase ι to the replication machinery via interaction with PCNA. Proc. Natl. Acad. Sci. 98: 14256-14261.
11. Haracska, L., Prakash, L., and Prakash, S. 2002a. Role of human DNA polymerase κ as an extender in translesion synthesis. Proc. Natl. Acad. Sci. 99: 16000-16005.
12. Haracska, L., Unk, I., Johnson, R.E., Phillips, B.B., Hurwitz, J., Prakash, L., and Prakash, S. 2002b. Stimulation of DNA synthesis activity of human DNA polymerase κ by PCNA. Mol. Cell. Biol. 22: 784-791.
13. Helene, C., Toulme, J.-J., Behmoaras, T., and Cazenave, C. 1982. Mechanisms for the recognition of chemically-modified DNA by peptides and proteins. Biochimie 64: 697-705.
14. Johnson, R.E., Kondratick, C.M., Prakash, S., and Prakash, L. 1999a. hRAD30 mutations in the variant form of xeroderma pigmentosum. Science 285: 263-265.
15. Johnson, R.E., Prakash, S., and Prakash, L. 1999b. Efficient bypass of a thymine-thymine dimer by yeast DNA polymerase, Polη. Science 283: 1001-1004.
16. -. 2000a. The human DINB1 gene encodes the DNA polymerase Polθ. Proc. Natl. Acad. Sci. 97: 3838-3843.
17. Johnson, R.E., Washington, M.T., Haracska, L., Prakash, S., and Prakash, L. 2000b. Eukaryotic polymerases ι and ζ act sequentially to bypass DNA lesions. Nature 406: 1015-1019.
18. Johnson, R.E., Washington, M.T., Prakash, S., and Prakash, L. 2000c. Fidelity of human DNA polymerase η. J. Biol. Chem. 275: 7447-7450.
19. Masutani, C., Kusumoto, R., Yamada, A., Dohmae, N., Yokoi, M., Yuasa, M., Araki, M., Iwai, S., Takio, K., and Hanaoka, F. 1999. The XPV (xeroderma pigmentosum variant) gene encodes human DNA polymerase η. Nature 399: 700-704.
20. Matsumoto, Y. and Kim, K. 1995. Excision of deoxyribose phosphate residues by DNA polymerase β during DNA repair. Science 269: 699-702.
21. Matsumoto, Y., Kim, K., Katz, D.S., and Feng, J. 1998. Catalytic center of DNA polymerase β for excision of deoxyribose phosphate groups. Biochemistry 37: 6456-6464.
22. Nakamura, J., Walker, V.E., Upton, P.B., Chiang, S.-Y., Kow, Y.W., and Swenberg, J.A. 1998. Highly sensitive apurinic/pyrimidinic site assay can detect spontaneous and chemically induced depurination under physiological conditions. Cancer Res. 58: 222-225.
23. Piersen, C.E., Prasad, R., Wilson, S.H., and Lloyd, R.S. 1996. Evidence for an imino intermediate in the DNA polymerase β deoxyribose phosphate excision reaction. J. Biol. Chem. 271: 17811-17815.
24. Pinz, K.G. and Bogenhagen, D.F. 2000. Characterization of a catalytically slow AP lyase activity in DNA polymerase γ and other family A DNA polymerases. J. Biol. Chem. 275: 12509-12514.
25. Prakash, S. and Prakash, L. 2002. Translesion DNA synthesis in eukaryotes: A one- or two-polymerase affair. Genes & Dev. 16: 1872-1883.
26. Prasad, R., Beard, W.A., Chyan, J.Y., Maciejewski, M.W., Mullen, G.P., and Wilson, S.H. 1998a. Functional analysis of the amino-terminal 8-kDa domain of DNA polymerase β as revealed by site-directed mutagenesis. J. Biol. Chem. 273: 11121-11126.
27. Prasad, R., Beard, W.A., Strauss, P.R., and Wilson, S.H. 1998b. Human DNA polymerase β deoxyribose phosphate lyase. J. Biol. Chem. 273: 15263-15270.
28. Prasad, R., Bebenek, K., Hou, E., Schock, D.D., Beard, W.A., Woodgate, R., Kunkel, T.A., and Wilson, S.H. 2003. Localization of the deoxyribose phosphate lyase active site in human DNA polymerase ι by controlled proteolysis. J. Biol. Chem. 278: 29649-29654.
29. Rajendran, S., Jezewska, M.J., and Bujalowski, W. 1998. Human DNA polymerase β recognizes single-stranded DNA using two different binding modes. J. Biol. Chem. 273: 31021-31031.
30. Seeberg, E., Eide, L., and Bjorås, M. 1995. The base excision repair pathway. Trends Biochem. Sci. 20: 391-397.
31. Sobol, R.W., Horton, J.K., Kuhn, R., Gu, H., Singhal, R.K., Prasad, R., Rajewsky, K., and Wilson, S.H. 1996. Requirement of mammalian DNA polymerase-β in base-excision repair. Nature 379: 183-186.
32. Sobol, R.W., Prasad, R., Evenski, A., Baker, A., Yang, X.-P., Horton, J.K., and Wilson, S.H. 2000. The lyase activity of the DNA repair protein β-polymerase protects from DNA-damage-induced cytotoxicity. Nature 405: 807-810.
33. Tissier, A., McDonald, J.P., Frank, E.G., and Woodgate, R. 2000. Polι, a remarkably error-prone human DNA polymerase. Genes & Dev. 14: 1642-1650.
34. Wallace, S.S. 1994. DNA damages processed by base excision repair: Biological consequences. Int. J. Radiat. Biol. 66: 579-589.
35. -. 1997. Oxidative damage to DNA and its repair. In Oxidative stress and the molecular biology of antioxidant defenses (ed. J.G. Scandalios), pp. 49-90. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
36. Washington, M.T., Johnson, R.E., Prakash, S., and Prakash, L. 1999. Fidelity and processivity of Saccharomyces cerevisiae DNA polymerase η. J. Biol. Chem. 274: 36835-36838.
37. -. 2000. Accuracy of thymine-thymine dimer bypass by Saccharomyces cerevisiae DNA polymerase η. Proc. Natl. Acad. Sci. 97: 3094-3099.
38. Washington, M.T., Johnson, R.E., Prakash, L., and Prakash, S. 2002. Human DINBl-encoded DNA polymerase κ is a promiscuous extender of mispaired primer termini. Proc. Natl. Acad. Sci. 99: 1910-1914.
39. Wilson, S.H. 1998. Mammalian base excision repair and DNA polymerase β. Mutat. Res. 407: 203-215.
40. Yu, S.-L., Johnson, R.E., Prakash, S., and Prakash, L. 2001. Requirement of DNA polymerase η for error-free bypass of UV-induced CC and TC photoproducts. Mol. Cell. Biol. 21: 185-188.