Cadmium mutagenicity and human nucleotide excision repair protein XPA: CD, EXAFS and 1H/15N-NMR spectroscopic studies on the zinc(II)- and cadmium(II)-associated minimal DNA-binding domain (M98-F219)

Carcinogenesis

Volumn 21, Issue 5, 2000, Pages 1051-1057

  Buchko, Garry W ^a   Hess, Nancy J ^a   Kennedy, Michael A ^a  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CADMIUM; CYSTEINE; DNA; DNA BINDING PROTEIN; GLYCEROL; NITROGEN 15; POLYDEOXYRIBONUCLEOTIDE SYNTHASE; SULFUR; ZINC;

ABSORPTION SPECTROSCOPY; ARTICLE; BINDING SITE; CIRCULAR DICHROISM; EXCISION REPAIR; HUMAN; MUTAGENICITY; NONHUMAN; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEAR OVERHAUSER EFFECT; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN STRUCTURE; PROTON NUCLEAR MAGNETIC RESONANCE; XERODERMA PIGMENTOSUM;

EID: 0034118938     PISSN: 01433334     EISSN: None     Source Type: Journal    
DOI: 10.1093/carcin/21.5.1051     Document Type: Article

References (61)

1. Cleaver, J.E. and Kraemer, K.H. (1989) Xeroderma pigmentosum and cockayne syndrome. In Scriver, S.C., Beaudet, A.L., Sly, W.S. and Valle, D. (eds) The Metabolic Basis of Inherited Disease. McGraw-Hill, New York, pp. 4393-4419.
2. Friedberg, E.C., Walker, G.C. and Siede, W. (1995) DNA Repair and Mutagenesis. American Society for Microbiology, Washington, DC, pp. 283-365.
3. Sancar, A. (1995) DNA excision repair. J. Biol. Chem., 270, 15915-15918.
4. Wood, R.D. (1997) Nucleotide excision repair in mammalian cells. J. Biol. Chem., 272, 23454-23468.
5. Mu, D., Hsu, D.S. and Sancar, A. (1996) Reaction mechanism of human DNA repair excision nuclease. J. Biol. Chem., 271, 8285-8294.
6. Cleaver, J.E. and States, J.C. (1997) The DNA damage-recognition problem in human and other eukaryotic cells: the XPA damage binding protein. Biochem. J., 328, 1-12.
7. Robins, P., Jones, C.J., Biggerstaff, M., Lindahl, T. and Wood, R.D. (1991) Complementation of DNA repair in xeroderma pigmentosum group A cell extracts by a protein with affinity for damaged DNA. EMBO J., 10, 3913-3921.
8. Jones, C.J. and Wood, R.D. (1993) Preferential binding of the xeroderma pigmentosum group A complementing protein to damaged DNA. Biochemistry, 32, 12096-12104.
9. Asahina, H., Kuraoka, I., Shirakawa, M., Morita, E.H., Miura, N., Miyamoto, I., Ohtsuka, E., Okada, Y. and Tanaka, K. (1994) The XPA protein is a zinc metalloprotein with an ability to recognize various kinds of DNA damage. Mutat. Res., 315, 229-238.
10. Li, L., Elledge, S.J., Peterson, C.A., Bales, E.S. and Legerski, R.J. (1994) Specific association between the human DNA repair proteins XPA and ERCC1. Proc. Natl Acad. Sci. USA, 91, 5012-5016.
11. Park, C.-H., Mu, D., Reardon, J.T. and Sancar, A. (1995) The general transcription-repair factor TFIIH is recruited to the excision repair complex by the XPA protein independent of the TFIIE transcription factor. J. Biol. Chem., 270, 4896-4901.
12. Matsuda, T., Saijo, M., Kuraoka, I., Kobayashi, R., Nakatsu, Y., Nagai, A., Enjoji, T., Masutani, C., Sugasawa, K., Hanoaka, F., Yasui, A. and Tanaka, K. (1995) DNA repair protein XPA binds replication protein A (RPA). J. Biol. Chem., 270, 4152-4157.
13. Wakasugi, M. and Sancar, A. (1999) Order of assembly of human DNA repair excision nuclease. J Biol. Chem., 274, 18759-18768.
14. Sugasawa, K., Ng, J.M.Y., Masutani, C., Iwai, S., van der Spek, P.J., Eker, A.P.M., Hanaoka, F., Bootsma, D. and Hoeijmakers, J.H.J. (1998) Xeroderma pigmentosum group C protein complex is the initiator of global genome nucleotide excision repair. Mol. Cell, 2, 223-232.
15. Kuraoka, I., Morita, E.H., Saijo, M., Matsuda, T., Morikawa, K., Shirakawa, M. and Tanaka, K. (1996) Identification of a damaged-DNA binding domain of the XPA protein. Mutat. Res., 362, 87-95.
16. Buchko, G.W., Ni, S., Thrall, B.D. and Kennedy, M.A. (1998) Structural features of the minimal DNA binding domain (M98-F219) of human nucleotide excision repair protein XPA. Nucleic Acids Res., 26, 2779-2788.
17. 15N NMR relaxation studies. Biochemistry, 38, 15116-15128.
18. Ikegami, T., Kuraoka, I., Saijo, M., Kodo, N., Kyogoku, Y., Morikawa, K., Tanaka, K. and Shirakawa, M. (1998) Solution structure of the DNA- and RPA-binding domain of human repair factor XPA. Nature Struct. Biol., 5, 701-706.
19. Berg, J.M. and Shi, Y. (1996) The galvanization of biology. A growing appreciation of the roles of zinc. Science, 271, 1081-1086.
20. Miyamoto, I., Miura, N., Niwa, H., Miyazaki, J. and Tanaka, K. (1992) Mutational analysis of the structure and function of the xeroderma pigmentosum group A complementing protein. J. Biol. Chem., 67, 12182-12187.
21. 2+-substituted heme and myoglobin. J. Am. Chem. Soc., 111, 3195-3203.
22. Zhang, F.L., Fu, H.-W., Casey, P.J. and Bishop, W.R. (1996) Substitution of cadmium for zinc in farnesyl:protein transferase alters its substrate specificity. Biochemistry, 35, 8166-8171.
23. IARC (1993) Beryllium, Cadmium, Mercury, and Exposures in the Glass Manufacturing Industry. Monographs on the Evaluation of Carcinogenic Risks to Humans, Vol. 58. International Agency for Research on Cancer, Lyon.
24. Hartwig, A. and Beyersmann, D. (1989) Comutagenicity and inhibition of DNA repair by metal ions in mammalian cells. Biol Trace Elem. Res., 21, 359-365.
25. Nocentini, S. (1987) Inhibition of DNA replication and repair by cadmium in mammalian cells. Protective interaction of zinc. Nucleic Acids Res., 15, 4211-4225.
26. Hartmann, M. and Hartwig, A. (1998) Disturbance of DNA damage recognition after UV-irradiation by nickel (II) and cadmium (II) in mammalian cells. Carcinogenesis, 19, 617-621.
27. Waalkes, M.P. and Misra, R.R. (1996) Cadmium carcinogenicity and genotoxicity. In Chang, L.W, Magos, L. and Suzuki, T. (eds) Toxicology of Metals. CRC Press, Boca Raton, FL, pp. 231-243.
28. Hartwig, A. (1995) Current aspects in metal genotoxicity. Biometals, 8, 3-11.
29. Hess, N.J., Buchko, G.W., Conradson, S.D., Espinosa, F.J., Ni, S., Thrall, B.D. and Kennedy, M.A. (1998) Human nucleotide excision repair protein XPA: extended X-ray absorption fine-structure evidence for a metal-binding domain. Protein Sci., 7, 1970-1975.
30. McMaster, W.H., Kerr del Grande, N., Mallett, J.H. and Hubbell, J.H. (1969) Compilation of X-ray Cross Sections. University of California, Livermore, CA.
31. Rehr, J.J., Mustre de Leon, J., Zabinsky, S.I. and Albers.R.C. (1991) Theoretical X-ray absorption fine structure standards. J. Am. Chem. Soc., 113, 5135-5140.
32. Kay, L.E., Keifer, P. and Saarinen, T. (1992) Pure absorption gradient enhanced heteronuclear single quantum correlated spectroscopy with improved sensitivity. J. Am. Chem. Soc., 114, 10663-10665.
33. 3 domain of drk in folded and unfolded states using enhanced-sensitivity pulsed field gradient NMR techniques. J. Biol. NMR, 4, 845-858.
34. Holzwarth, G.M. and Doty, P. (1965) The ultraviolet circular dichroism of polypeptides. J. Am. Chem. Soc., 87, 218-228.
35. Hennessey, J.P. Jr and Johnson, W.C. Jr (1982) Experimental errors and their effect on analyzing circular dichroism spectra of proteins. Anal. Biochem., 125, 177-188.
36. Bruch, M.D., Dhingra, M.M. and Gierasch, L.M. (1991) Side chain backbone hydrogen bonding contributes to helix stability in peptides derived from an α-helical region of carboxypeptidase A. Proteins: Struct. Funct. Genet., 10, 130-139.
37. Rizo, J., Blanco, F.J., Kobe, B., Bruch, M.D. and Gierasch, L.M. (1993) Conformational behavior of Escherichia coli Omp A signal peptides in membrane mimetic environments. Biochemistry, 32, 4881-4894.
38. Creigton, T.E. (1993) Proteins: Structure and Molecular Properties. W.H. Freeman, New York, pp. 287-291.
39. Teo, B.K. (1985) EXAFS: Basic Principles and Data Analysis. Springer-Verlag, Berlin.
40. Navaratnam, S., Myles, G.M., Strange, R.W. and Sancar, A. (1989) Evidence from extended X-ray absorption fine structure and site-specific mutagenesis for zinc fingers in uvrA protein of Escherichia coli. J. Biol. Chem., 264, 16067-16071.
41. Zhang, K. and Auld, D.S. (1995) Structure of binary and ternary complexes of zinc and cobalt carboxypeptidase A as determined by X-ray absorption fine structure. Biochemistry, 34, 16306-16312.
42. Strange, R.W., Murphy, L.M., Karlsson, B.G., Reinhammar, B. and Hasnain, S.S. (1996) Effect of pH and ligand binding on the structure of the Cu site of the Met121Glu mutant of azurin from Pseudomonas aeruginosa. Biochemistry, 34, 16391-16398.
43. Buchko, G.W., Iakoucheva, L.M., Kennedy, M.A., Ackerman, E.J. and Hess, N.J. (1999) Extended X-ray absorption fine structure evidence for a single metal binding domain in Xenopus laevis nucleotide excision repair protein XPA. Biochem. Biophys. Res. Commun., 254, 109-113.
44. Abrahams, I.L., Garner, C.D., Bremmer, I., Diakun, G.P. and Hasnain, S.S. (1985) Nature of the cadmium sites in rat liver metallothionein 1 from Cd K-edge EXAFS. J. Am. Chem. Soc., 107, 4596-4597.
45. 18-MT formed from rabbit liver metallothionein 2. J. Am. Chem. Soc., 116, 11004-11013.
46. 4 units in cadmium phytochelatin complexes from EXAFS spectroscopy. J. Chem. Soc. Chem. Commun., 1991, 1129-1130.
47. Pickering, I.J., Prince, R.C., George, G.N., Rauser, W.E., Wickramasinghe, W.A., Watson, A.A., Dameron, C.T., Dance, I.G., Fairlie, D.P. and Salt, D.E. (1999) X-ray absorption spectroscopy of cadmium phytochelatin and model systems. Biochim. Biophys. Acta. 1429, 351-364.
48. Shuker, S.B., Hajduk, P.J., Meadows, R.P. and Fesik, S.W. (1996) Discovering high-affinity ligands for proteins: SAR by NMR. Science, 274, 1531-1534.
49. Morita, E.H., Ohkubo, T., Kuraoko, I., Shirakawa, M., Tanaka, K. and Morikawa, K. (1996) Implications of the zinc-finger motif found in the DNA-binding domain of the human XPA protein. Genes Cells, 1, 437-442.
50. Wishart, D.S., Sykes, B.D. and Richards, F.M. (1992) The chemical shift index: a fast and simple method for the assignment of protein secondary structure through NMR spectroscopy. Biochemistry, 31, 1647-1651.
51. 113Cd derivative of desulforedoxin: investigation of the hydrogen bonding pattern at the metal center. Protein Sci., 7, 928-937.
52. Ikegami, T., Kuroaka, I., Saijo, M., Kodo, N., Kyogoku, Y., Morikawa, K., Tanaka, K. and Shirakawa, M. (1999) Resonance assignments, solution structure, and backbone dynamics of the DNA- and RPA-binding domain of human repair factor XPA. J. Biochem., 125, 495-506.
53. Taylor, R. and Kennard, O. (1984) Hydrogen-bond geometry in organic crystals. Acc. Chem. Res., 17, 320-326.
54. Pearson, G.K. (1966) Acids and bases. Science, 151, 172-177.
55. Krizek, B.A., Merkle, D.L. and Berg, J.M. (1993) Ligand variation and metal ion binding specificity in zinc finger peptides. Inorg. Chem., 32, 937-940.
56. Calsou, P., Frit, P., Bozzato, C. and Salles, B. (1996) Negative interference of metal (II) ions with nucleotide excision repair in human cell-free extracts. Carcinogenesis, 17, 2779-2782.
57. Sirover, M.A. and Loeb, L.A. (1976) Infidelity of DNA synthesis in vitro: screening for potential metal mutagens and carcinogens. Science, 194, 1434-1436.
58. Duane, M. (1974) Interactions of metal ions with nucleic acids. In Sigel, H. (ed.) Metal Ions in Biological Systems. Dekker, New York, pp. 1-43.
59. Waalkes, M.P. and Poirier, L.A. (1984) In vitro cadmium-DNA interactions: cooperatively of cadmium binding and competitive antagonism by calcium, magnesium, and zinc. Toxicol. Appl. Pharmacol., 75, 539-546.
60. Saenger, W. (1983) Principles of Nucleic Acids Structure. Springer-Verlag, New York, NY, pp. 201-219.
61. Kasprzak, K.S. (1996) Oxidative DNA damage in metal-induced carcinogenesis. In Chang, L.W., Magos, L. and Suzuki, T. (eds) Toxicology of Metals. CRC Press, Boca Raton, FL, pp. 299-320.