Sensing DNA damage by PARP-like fingers

Nucleic Acids Research

Volumn 31, Issue 23, 2003, Pages 6689-6699

  Petrucco, Stefania ^a  

^a UNIVERSITY OF PARMA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS PROTEIN; DNA; DOUBLE STRANDED DNA; NAKED DNA; NICOTINAMIDE ADENINE DINUCLEOTIDE ADENOSINE DIPHOSPHATE RIBOSYLTRANSFERASE; PHOSPHATASE; ZINC FINGER PROTEIN;

3' UNTRANSLATED REGION; AMINO TERMINAL SEQUENCE; ARTICLE; BINDING AFFINITY; CONTROLLED STUDY; DNA BINDING; DNA DAMAGE; DNA HELIX; DNA REPAIR; DNA STRAND BREAKAGE; DNA TEMPLATE; MOLECULAR RECOGNITION; NONHUMAN; PRIORITY JOURNAL; PROTEIN FUNCTION; ZINC FINGER MOTIF;

AMINO ACID SEQUENCE; CATALYTIC DOMAIN; DNA; DNA DAMAGE; DNA REPAIR; DNA, SINGLE-STRANDED; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; PHOSPHORIC DIESTER HYDROLASES; POLY(ADP-RIBOSE) POLYMERASES; PROTEIN BINDING; PROTEIN CONFORMATION; ZINC FINGERS;

ARABIDOPSIS;

EID: 0345531090     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkg890     Document Type: Article

References (34)

1. Gradwohl,G., Menissier de Murcia,J.M., Molinete,M., Simonin,F., Koken,M., Hoeijmakers,J.H. and de Murcia,G. (1990) The second zinc-finger domain of poly(ADP-ribose) polymerase determines specificity for single-stranded breaks in DNA. Proc. Natl Acad. Sci. USA, 87, 2990-2994.
2. Ikejima,M., Noguchi,S., Yamashita,R., Ogura,T., Sugimura,T., Gill,D.M. and Miwa,M. (1990) The zinc fingers of human poly(ADP-ribose) polymerase are differentially required for the recognition of DNA breaks and nicks and the consequent enzyme activation. Other structures recognize intact DNA. J. Biol. Chem., 265, 21907-21913.
3. Caldecott,K.W., Aoufouchi,S., Johnson,P. and Shall,S. (1996) XRCC1 polypeptide interacts with DNA polymerase beta and possibly poly (ADP-ribose) polymerase and DNA ligase III is a novel molecular 'nick-sensor' in vitro. Nucleic Acids Res., 24, 4387-4394.
4. Mackey,Z.B., Niedergang,C., Murcia,J.M., Leppard,J., Au,K., Chen,J., de Murcia,G. and Tomkinson,A.E. (1999) DNA ligase III is recruited to DNA strand breaks by a zinc finger motif homologous to that of poly(ADP-ribose) polymerase. Identification of two functionally distinct DNA binding regions within DNA ligase III. J. Biol. Chem., 274, 21679-21687.
5. D'Amours,D., Desnoyers,S., D'Silva,I. and Poirier,G.G. (1999) Poly(ADP-ribosyl)ation reactions in the regulation of nuclear functions. Biochem. J., 342, 249-268.
6. Taylor,R.M., Whitehouse,C.J. and Caldecott,K.W. (2000) The DNA ligase III zinc finger stimulates binding to DNA secondary structure and promotes end joining. Nucleic Acids Res., 28, 3558-3563.
7. Petrucco,S., Volpi,G., Bolchi,A., Rivetti,C. and Ottonello,S. (2002) A nick-sensing DNA 3′-repair enzyme from Arabidopsis. J. Biol. Chem., 277, 23675-23683.
8. de Murcia,G. and Menissier de Murcia,J. (1994) Poly(ADP-ribose) polymerase: a molecular nick-sensor. Trends Biochem. Sci., 19, 172-176.
9. Shall,S. and de Murcia,G. (2000) Poly(ADP-ribose) polymerase-1: what have we learned from the deficient mouse model? Mutat. Res., 460, 1-15.
10. Smith,S. (2001) The world according to PARP. Trends Biochem. Sci., 26, 174-179.
11. Whitehouse,C.J., Taylor,R.M., Thistlethwaite,A., Zhang,H., Karimi-Busheri,F., Lasko,D.D., Weinfeld,M. and Caldecott,K.W. (2001) XRCC1 stimulates human polynucleotide kinase activity at damaged DNA termini and accelerates DNA single-strand break repair. Cell, 104, 107-117.
12. Betti,M., Petrucco,S., Bolchi,A., Dieci,G. and Ottonello,S. (2001) A plant 3′-phosphoesterase involved in the repair of DNA strand breaks generated by oxidative damage. J. Biol. Chem., 276, 18038-18045.
13. Ward,J.E. (1998) DNA repair in higher eukaryotes. In Nickoloff,J.A. and Hoekstra,M.F. (eds), DNA Damage and Repair. Human Press, Inc., Totowa, NJ, Vol. 2, pp. 65-84.
14. Divine,K.K., Gilliland,F.D., Crowell,R.E., Stidley,C.A., Bocklage,T.J., Cook,D.L. and Belinsky,S.A. (2001) The XRCC1 399 glutamine allele is a risk factor for adenocarcinoma of the lung. Mutat. Res., 461, 273-278.
15. Sturgis,E.M., Castillo,E.J., Li,L., Zheng,R., Eicher,S.A., Clayman,G.L., Strom,S.S., Spitz,M.R. and Wei,Q. (1999) Polymorphisms of DNA repair gene XRCC1 in squamous cell carcinoma of the head and neck. Carcinogenesis, 20, 2125-2129.
16. Friedberg,E.C. (1995) Out of the shadows and into the light: the emergence of DNA repair. Trends Biochem. Sci., 20, 381.
17. Sancar,A. (1995) DNA repair in humans. Annu. Rev. Genet., 29, 69-105.
18. Caldecott,K.W. (2003) DNA single-strand break repair and spinocerebellar ataxia. Cell, 112, 7-10.
19. Hoeijmakers,J.H. (2001) Genome maintenance mechanisms for preventing cancer. Nature, 411, 366-374.
20. Marintchev,A., Mullen,M.A., Maciejewski,M.W., Pan,B., Gryk,M.R. and Mullen,G.P. (1999) Solution structure of the single-strand break repair protein XRCC1 N-terminal domain. Nature Struct. Biol., 6, 884-893.
21. Babiychuk,E., Cottrill,P.B., Storozhenko,S., Fuangthong,M., Chen,Y., O'Farrell,M.K., Van Montagu,M., Inze,D. and Kushnir,S. (1998) Higher plants possess two structurally different poly(ADP-ribose) polymerases. Plant J., 15, 635-645.
22. Thompson,J.D., Higgins,D.G. and Gibson,T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
23. Nicholas,K.B. and Nicholas,H.B.,JR (1997) GeneDoc: a tool for editing and annotating multiple sequence alignments. http://www.psc.edu/biomed/genedoc/index.html.
24. Karimi-Busheri,F., Daly,G., Robins,P., Canas,B., Pappin,D.J., Sgouros,J., Miller,G.G., Fakhrai,H., Davis,E.M., Le Beau,M.M. et al. (1999) Molecular characterization of a human DNA kinase. J. Biol. Chem., 274, 24187-24194.
25. LeCam,E., Fack,F., Menissier-de Murcia,J., Cognet,J.A., Barbin,A., Sarantoglou,V., Revet,B., Delain,E. and de Murcia,G. (1994) Conformational analysis of a 139 base-pair DNA fragment containing a single-stranded break and its interaction with human poly(ADP-ribose) polymerase. J. Mol. Biol., 235, 1062-1071.
26. Wang,Y.H., Barker,P. and Griffith,J. (1992) Visualization of diagnostic heteroduplex DNAs from cystic fibrosis deletion heterozygotes provides an estimate of the kinking of DNA by bulged bases. J. Biol. Chem., 267, 4911-4915.
27. Soldatenkov,V.A., Trofimova,I.N., Rouzaut,A., McDermott,F., Dritschilo,A. and Notario,V. (2002) Differential regulation of the response to DNA damage in Ewing's sarcoma cells by ETS1 and EWS/FLI-1. Oncogene, 21, 2890-2895.
28. Sastry,S.S., Buki,K.G. and Kun,E. (1989) Binding of adenosine diphosphoribosyltransferase to the termini and internal regions of linear DNAs. Biochemistry, 28, 5670-5680.
29. Dantzer,F., Schreiber,V., Niedergang,C., Trucco,C., Flatter,E., De La Rubia,G., Oliver,J., Rolli,V., Menissier-de Murcia,J. and de Murcia,G. (1999) Involvement of poly(ADP-ribose) polymerase in base excision repair. Biochimie, 81, 69-75.
30. Molinete,M., Vermeulen,W., Burkle,A., Menissier-de Murcia,J., Kupper,J.H., Hoeijmakers,J.H. and de Murcia,G. (1993) Overproduction of the poly(ADP-ribose) polymerase DNA-binding domain blocks alkylation-induced DNA repair synthesis in mammalian cells. EMBO J., 12, 2109-2117.
31. Schreiber,V., Hunting,D., Trucco,C., Gowans,B., Grunwald,D., De Murcia,G. and De Murcia,J.M. (1995) A dominant-negative mutant of human poly(ADP-ribose) polymerase affects cell recovery, apoptosis and sister chromatid exchange following DNA damage. Proc. Natl Acad. Sci. USA, 92, 4753-4757.
32. Masson,M., Niedergang,C., Schreiber,V., Muller,S., Menissier-de Murcia,J. and de Murcia,G. (1998) XRCC1 is specifically associated with poly(ADP-ribose) polymerase and negatively regulates its activity following DNA damage. Mol. Cell. Biol., 18, 3563-3571.
33. Okano,S., Lan,L., Caldecott,K.W., Mori,T. and Yasui,A. (2003) Spatial and temporal cellular responses to single-strand breaks in human cells. Mol. Cell. Biol., 23, 3974-3981.
34. Volker,M., Mone,M.J., Karmakar,P., van Hoffen,A., Schul,W., Vermeulen,W., Hoeijmakers,J.H., van Driel,R., van Zeeland,A.A. and Mullenders,L.H. (2001) Sequential assembly of the nucleotide excision repair factors in vivo. Mol. Cell, 8, 213-224.