Post-replicative base excision repair in replication foci

EMBO Journal

Volumn 18, Issue 13, 1999, Pages 3834-3844

  Otterlei, Marit ^a   Warbrick, Emma ^b   Nagelhus, Toril A ^a,c   Haug, Terje ^a   Slupphaug, Geir ^a   Akbari, Mansour ^a   Aas, Per Arne ^a   Steinsbekk, Kristin ^a   Bakke, Oddmund ^d   Krokan, Hans E ^a  

^a NORWEGIAN UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Norway)

^b UNIVERSITY OF DUNDEE   (United Kingdom)

^c NORWEGIAN UNIVERSITY OF SCIENCE AND TECHNOLOGY   (Norway)

^d UNIVERSITY OF OSLO   (Norway)

Author keywords

Proliferating cell nuclear antigen; Replication foci; Replication protein A; Uracil DNA glycosylase

Indexed keywords

CYCLINE; DNA GLYCOSYLTRANSFERASE; NEUTRALIZING ANTIBODY; REPLICATION PROTEIN A; URACIL;

ARTICLE; BINDING SITE; CELL CYCLE S PHASE; CELL NUCLEUS; CONTROLLED STUDY; DNA HYBRIDIZATION; DNA REPLICATION; ENZYME LINKED IMMUNOSORBENT ASSAY; ENZYME LOCALIZATION; EXCISION REPAIR; HUMAN; HUMAN CELL; MOLECULAR INTERACTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN LOCALIZATION;

AMINO ACID SEQUENCE; BASE PAIR MISMATCH; BINDING SITES; CELL CYCLE; CELL LINE; CELL NUCLEUS; DEOXYURACIL NUCLEOTIDES; DNA; DNA GLYCOSYLASES; DNA REPAIR; DNA REPLICATION; DNA-BINDING PROTEINS; GENE EXPRESSION; HELA CELLS; HUMANS; KINETICS; MOLECULAR SEQUENCE DATA; N-GLYCOSYL HYDROLASES; PEPTIDE FRAGMENTS; PROLIFERATING CELL NUCLEAR ANTIGEN; RECOMBINANT FUSION PROTEINS; REPLICATION PROTEIN A; URACIL; URACIL-DNA GLYCOSIDASE; YEASTS;

ZIZIPHUS MAURITIANA;

EID: 0033168183     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/18.13.3834     Document Type: Article

References (69)

1. Applegren, N. et al. (1995) Further characterization of the human cell multiprotein DNA replication complex. J. Cell. Biochem., 59, 91-107.
2. Ball, K.L., Lain, S., Fahraeus, R., Smythe, C. and Lane, D.P. (1996) Cell-cycle arrest and inhibition of Cdk4 activity by small peptides based on the carboxy-terminal domain of p21WAF1 Curr. Biol., 7, 71-80.
3. Bharati, S., Krokan, H.E., Kristiansen, L., Ottrelei, M. and Slupphaug, G. (1998) Human mitochondrial uracil-DNA glycosylase preform (UNG1) is processed to two forms one of which is resistant to inhibition by AP-sites. Nucleic Acids Res., 26, 4953-4959.
4. Bravo, R. and Macdonald-Bravo, H. (1987) Existence of two populations of cyclin/proliferating cell nuclear antigen during the cell cycle: association with DNA replication sites. J. Cell Biol., 105, 1549-1554.
5. 1-to S-phase transition in mammalian cells. Chromosoma, 103, 517-527.
6. Chien, C.T., Bartel, P.L., Sternglanz, R. and Fields, S. (1991) The two hybrid system: a method to identify and clone genes for proteins that interact with a protein of interest. Proc. Natl Acad. Sci. USA, 88, 9578-9582.
7. Chuang, L.S., Ian, H., Koh, T., Ng, H., Xu, G. and Li, B.L.F. (1997) Human DNA-(cytosine-5) methyltransferase-PCNA complex as a target for p21WAF1. Science, 277, 1996-2000.
8. DeMott, M.S., Shen, B., Parks, M.S., Bambara, R.A. and Zigman, S. (1996) Human RAD2 homologl 5′-to 3′-exo/endonuclease can efficiently excise a displaced DNA fragment containing a 5′-terminal abasic lesion by endonuclease activity. J. Biol. Chem., 271, 30068-30076.
9. DeMott, M.S., Zigman, S. and Bambara, R.A. (1998) Replication protein A stimulates long patch DNA base excision repair. J. Biol. Chem., 273, 27492-27498.
10. Erdile, L.F., Wold, M.S. and Kelly, T. (1990) The primary structure of the 32-kDa subunit of human replication protein A. J. Biol. Chem., 265, 3177-3182.
11. Fields, S. and Song, O. (1989) A novel genetic system to detect protein-protein interactions. Nature, 340, 245-246.
12. Frosina, G., Fortini, P., Rossi, O., Carrozzino, F., Raspaglio, G., Cox, L.S., Lane, D.P., Abbondandolo, A. and Dogliotti, E. (1996) Two pathways for base excision repair in mammalian cells. J. Biol. Chem., 271, 9573-9578.
13. Gary, R., Ludwig, D.L., Cornelius, H.L., MacInnes, M.A. and Park, M.S. (1997) The DNA repair endonuclease XPG binds to proliferating cell nuclear antigen (PCNA) and shares sequence elements with the PCNA-binding regions of FEN-1 and cyclin-dependent kinase inhibitor p21. J. Biol. Chem., 272, 24522-24529.
14. Gietz, D., St. Jean, A., Woods, R.A. and Schiestl, R.H. (1992) Improved method for high efficiency transformation of intact yeast cells. Nucleic Acids Res., 20, 1425.
15. Glassner, B.J., Posnick, L.M. and Samson, L.D. (1998) The influence of DNA glycosylases on spontaneous mutation. Mutat. Res., 400, 33-44.
16. WAF1/CIP1 complexed with human PCNA. Cell, 87, 1-20.
17. Hall, P.A., Kearsey, J.M., Coates, P.J., Norman, D.G. Warbrick, E. and Cox, L.S. (1995) Characterisation of the interaction between PCNA and Gadd45. Oncogene, 10, 2427-2433.
18. 1 cyclin-dependent kinases. Cell, 75, 805-816.
19. Haug, T., Skorpen, F., Kvaløy, K., Eftedal, I., Lund, H. and Krokan, H.E. (1996) Human uracil-DNA glycosylase gene: sequence organization, methylation pattern and mapping to chromosome 12q23-q24.1. Genomics, 36, 408-416.
20. Haug, T., Skorpen, F., Aas, P.A., Malm, V., Skjelbred, C. and Krokan, H.E. (1998) Regulation of expression of nuclear and mitochondrial forms of human uracil-DNA glycosylase. Nucleic Acids Res., 26, 1449-1457.
21. Haushalter, K.A., Stukenberg, P.T., Kirschner, M. and Verdine, G.L. (1999) Identification of a new uracil-DNA glycosylase family by expression cloning using synthetic inhibitors. Curr. Biol., 9, 174-185.
22. Jonsson, Z.O. and Hübscher, U. (1997) Proliferating cell nuclear antigen: more than a clamp for DNA polymerases. BioEssays, 19, 967-975.
23. Jonsson, Z.O., Hindges, R. and Hübscher, U. (1998) Regulation of DNA replication and repair proteins through interaction with the front side of proliferating cell nuclear antigen. EMBO J., 17, 2412-2425.
24. Kelman, Z. and Hurwitz, J. (1998) Protein-PCNA interactions: a DNA-scanning mechanism? Trends Biochem. Sci., 23, 236-238.
25. Kim, K., Biade, S. and Matsumoto, Y.J. (1998) Involvement of flap endonuclease 1 in base excision DNA repair. J. Biol. Chem., 273, 8842-8848.
26. Klungland, A. and Lindahl, T. (1997) Second pathway for completion of human DNA base exicision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J., 16, 3341-3348.
27. Krokan, H. (1981) Preferential association of uracil-DNA glycosylase activity with replicating SV40 minichromosomes. FEBS Lett., 133, 89-91.
28. Krokan, H. and Eriksen, A. (1977) DNA synthesis in HeLa cells and isolated nuclei after treatment with an inhibitor of spermidine synthesis, methyl glyoxal bis (guanylhydrazone). Eur. J. Biochem. 72, 501-508.
29. Krokan, H.E. and Wittwer, C.U. (1981) Uracil-DNA-glycosylases from HeLa cells: general properties, substrate specificity and effect of uracil analogs. Nucleic Acids Res., 9, 2599-2613.
30. Krokan, H., Bjørkelid, E. and Prydz, H. (1975a) DNA synthesis in isolated HeLa cell nuclei. Optimalization of the system and characterization of the product. Biochemistry, 14, 4227-4232.
31. Krokan, H.E., Cooke, L. and Prydz, H. (1975b) DNA synthesis in isolated HeLa cell nuclei. Evidence for in vitro initiation of synthesis of small pieces of DNA and their subsequent ligation. Biochemistry, 14, 4233-4237.
32. Krokan, H.E., Standal, R. and Slupphaug, G. (1997) DNA glycosylases in base excision repair of DNA. Biochem. J., 325, 1-16.
33. Kubota, Y., Nash, R.A., Klungland, A., Schar, P., Barnes, D.E. and Lindahl, T. (1996) Reconstitution of DNA base excision-repair with purified human proteins: interaction between DNA polymerase β and the XRCC1 protein. EMBO J., 15, 6662-6670.
34. Leonhardt, H. and Cardoso, M.C. (1995) Targeting and association of proteins with functional domains in the nucleus: the insoluble solution. Int. Rev. Cytol., 162B, 303-335.
35. Li, C., Cao, L.G., Wang, Y.L. and Baril, E.F. (1993) Further purification and characterization of a multienzyme complex for DNA synthesis in human cells. J. Cell. Biochem., 53, 405-419.
36. Matsumoto, Y., Kim, K. and Bogenhagen, D.F. (1994) Proliferating cell nuclear antigen-dependent abasic site repair in Xenopus laevis oocytes: an alternative pathway of base excision DNA repair. Mol. Cell. Biol., 14, 6187-6197.
37. Mills, A.D., Blow, J.J., White, J.G., Amos, W.B., Wilcock, D. and Laskey, R.A. (1989) Replication occurs at discrete foci spaced throughout nuclei replication in vitro. J. Cell Sci., 94, 471-477.
38. Mol, C.D., Arvai, A.S., Slupphaug, G., Kavli, B., Alseth, I., Krokan, H.E. and Tainer, J.A. (1995) Crystal structure and mutational analysis of human uracil-DNA glycosylase: structural basis for specificity and catalysis. Cell, 80, 869-878.
39. Montecucco, A. et al. (1998) DNA ligase I is recruited to sites of DNA replication by an interaction with proliferating cell nuclear antigen: identification of a common targeting mechanism for the assembly of replication factories. EMBO J., 17, 3786-3795.
40. Muller, S.J. and Caradonna, S. (1991) Isolation and characterization of a human cDNA encoding uracil-DNA glycosylase. Biochim. Biophys. Acta, 1088, 197-207.
41. Murti, K.G., He, D.C., Brinkley, B.R., Scott, R. and Lee, S.H. (1996) Dynamics of human replication protein A subunit distribution and partitioning in the cell cycle. Exp. Cell Res., 223, 279-289.
42. Nagelhus, T.A., Slupphaug, G., Lindmo, T. and Krokan, H. (1995) Cell cycle regulation and subcellular localization of the major human uracil-DNA glycosylase. Exp. Cell Res., 220, 292-297.
43. Nagelhus, T.A et al. (1997) A sequence in the N-terminal region of human uracil-DNA glycosylase with homology to XPA interacts with the C-terminal part of the 34-kDa subunit of replication protein A. J. Biol. Chem., 272, 6561-6566.
44. Nakamura, H., Morita, T. and Sato, C. (1986) Structural organization of replicon domains during DNA synthetic phase in the mammalian nucleus. Exp. Cell Res., 165, 291-297.
45. Neddermann, P. and Jiricny, J. (1994) Efficient removal of uracil from G:U mispairs by the mismatch-specific thymine DNA glycosylase from HeLa cells. Proc. Natl Acad. Sci. USA, 91, 1642-1646.
46. Nicholl, I.D., Nealon, K. and Kenny, M.K. (1997) Reconstitution of human base excision repair with purified proteins. Biochemistry, 36, 7557-7566.
47. Nicolaides, N.C., Palombo, F., Kinzler, K.W., Vogelstein, B. and Jiricny, J. (1996) Molecular cloning of the N-terminus of GTBP. Genomics, 31, 395-397.
48. Nilsen, H., Otterlei, M., Haug, T., Solum, K., Nagelhus, T.A., Skorpen, F. and Krokan, H.E. (1997) Nuclear and mitochondrial uracil-DNA glycosylases are generated by alternative splicing and transcription from different positions in the UNG gene. Nucleic Acids Res., 25, 750-755.
49. Otterlei, M., Haug, T., Nagelhus, T.A., Slupphaug, G., Lindmo, T. and Krokan, H.E. (1998) Nuclear and mitochondrial splice forms of human uracil-DNA glycosylase contain a complex nuclear localisation signal and a strong classical mitochondrial localisation signal, respectively. Nucleic Acids Res., 26, 4611-4617.
50. Parikh, S.S., Mol, C.D., Slupphaug, G., Bharati, S., Krokan, H.E. and Tainer, J.A. (1998) Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA. EMBO J., 17, 5214-5226.
51. Percival, K.J., Klein, M.B. and Burgers, P.M. (1989) Molecular cloning and primary structure of the uracil-DNA-glycosylase gene from Saccharomyces cerevisiae. J. Biol. Chem., 264, 2593-2598.
52. Rose, M.D., Winston, F. and Hieter, P. (1990) Methods in Yeast Genetics: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
53. Rothwell, D.G. and Hickson, I.D. (1997) Repair of apurinic/apyrimidinic (AP) sites in DNA by AP endonucleases. In Hickson, I.D. (ed.). Base Excision Repair of DNA Damage. Landes Bioscience, Austin, TX, pp. 67-80.
54. Seeberg, E., Eide, L. and Bjørås, M. (1995) The base excision repair pathway. Trends Biochem. Sci., 20, 391-397.
55. Simbulan-Rosenthal, C.M., Rosenthal, D.S., Hilz, H., Hickey, R., Malkas, L., Applegren, N., Wu, Y., Bers, G. and Smulson, M.E. (1996) The expression of poly (ADP-ribose) polymerase during differentiation-linked DNA replication reveals that it is a component of the multiprotein DNA replication complex. Biochemistry, 35, 11622-11633.
56. Singhal, R.K., Prasad, R. and Wilson, S.H. (1995) DNA polymerase β conducts the gap filling step in uracil-initiated base exicion repair in a bovine testis nuclear extract. J. Biol. Chem., 270, 949-957.
57. Slupphaug, G., Eftedal, I., Kavlie, B., Bharati, S., Helle, N.M., Haug, T., Levine, D.W. and Krokan, H.E. (1995) Properties of a recombinant human uracil-DNA glycosylase from the UNG gene and evidence that the UNG gene encodes the major uracil-DNA glycosylase. Biochemistry, 34, 128-138.
58. Slupphaug, G., Mol, C.D., Kavli, B., Arvai, A.S., Krokan, H.E. and Tainer, J.A. (1996) A nucleotide-flipping mechanism from the structure of human uracil-DNA glycosylase bound to DNA. Nature, 384, 87-92.
59. Srivastava, D.K., Berg, B.J., Prasad, R., Molina, J.T., Beard, W.A., Tomkinson, A.E. and Wilson, S.H. (1998) Mammalian abasic site base excision repair. Identification of the reaction sequence and rate-determining steps. J. Biol. Chem., 273, 21203-21209.
60. Stucki, M., Pascucci, B., Parlanti, E., Fortini, P., Wilson, S.H., Hubscher, U. and Dogliotti, E. (1998) Mammalian base excision repair by DNA polymerases δ and ε. Oncogene, 17, 835-843.
61. WAF1 and proliferating cell nuclear antigen. Cure Biol., 5, 275-282.
62. Warbrick, E., Lane, D.P., Glover, D.M. and Cox, L.S. (1997) Homologous regions of Fen1 and p21Cip1 compete for binding to the same site on PCNA: a potential mechanism to co-ordinate DNA replication and repair. Oncogene, 14, 2313-2321.
63. Warbrick, E., Heatherington, W., Lane, D.P. and Glover, D.M. (1998) PCNA binding proteins in Drosophila melanogaster: the analysis of a conserved PCNA binding domain. Nucleic Acids Res., 26, 3925-3932.
64. Waseem, N.H. and Lane, D.P. (1990) Monoclonal antibody analysis of the proliferating cell nuclear antigen (PCNA): Structural conservation and the detection of a nucleolar form. J. Cell Sci., 96, 121-129.
65. Waters, T.R., Gallinari, P., Jiricny, J. and Swann, P.F. (1999) Human thymine DNA glycosylase binds to apurinic sites in DNA but is displaced by human apurinic endonuclease 1. J. Biol. Chem., 274, 67-74.
66. Wist, E., Unhjem, O. and Krokan, H. (1978) Accumulation of small fragments of DNA in isolated HeLa cell nuclei due to transient incorporation of dUMP. Biochim. Biophys. Acta, 520, 253-270.
67. Wold, M.S. (1997) Replication protein A: a heterotrimeric, single-stranded DNA-binding protein required for eukaryotic DNA metabolism. Annu. Rev. Biochem., 66, 61-92.
68. Yamamoto, S., Takahashi, T. and Matsukage, A. (1984) Tight association of DNA polymerase a with granular structures in the nuclear matrix of chick embryo cell: immunocytochemical detection with monoclonal antibody against DNA polymerase α. Cell Struct. Funct., 9, 83-90.
69. Zhang, P., Sun, Y., Hsu, H., Zhang, L., Zhang, Y. and Lee, M.Y.W.T. (1998) The interdomain connector loop of human PCNA is involved in a direct interaction with human polymerase δ. J. Biol. Chem., 273, 713-719.