Interactions of human nucleotide excision repair protein XPA with DNA and RPA70ΔC327: Chemical shift mapping and 15-N NMR relaxation studies

Biochemistry

Volumn 38, Issue 46, 1999, Pages 15116-15128

  Buchko, Garry W ^a,b   Daughdrill, Gary W ^a   De Lorimier, Robert ^b   Sudha Rao, B K ^a   Isern, Nancy G ^a   Lingbeck, Jody M ^d   Taylor, John Stephen ^d   Wold, Marc S ^c   Gochin, Miriam ^e   Spicer, Leonard D ^b   Lowry, David F ^a   Kennedy, Michael A ^a  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^b DUKE UNIVERSITY MEDICAL CENTER   (United States)

^c UNIVERSITY OF IOWA   (United States)

^d WASHINGTON UNIVERSITY   (United States)

^e UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; NUCLEOTIDE; PROTEIN; REPLICATION PROTEIN A;

ARTICLE; DNA BINDING; EXCISION REPAIR; HUMAN; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL; PROTEIN DNA INTERACTION; PROTEIN STRUCTURE; PROTON NUCLEAR MAGNETIC RESONANCE; STRUCTURE ANALYSIS;

BINDING SITES; DNA; DNA REPAIR; DNA REPLICATION; DNA, SINGLE-STRANDED; DNA-BINDING PROTEINS; HUMANS; NITROGEN ISOTOPES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; OLIGODEOXYRIBONUCLEOTIDES; PEPTIDE FRAGMENTS; PROTEIN CONFORMATION; REPLICATION PROTEIN A; RNA-BINDING PROTEINS; SOLUTIONS; THERMODYNAMICS; XERODERMA PIGMENTOSUM GROUP A PROTEIN;

EID: 0033576262     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi991755p     Document Type: Article

References (67)

1. Cleaver, J. E., and Kraemer, K. H. (1989) in The Metabolic Basis of Inherited Disease (Scriver, S. C., Beaudet, A. L., Sly, W. S., and Valle, D., Eds.) McGraw-Hill Book Co., New York.
2. Friedberg, E. C., Walker, G. C., and Siede, W. (1995) DNA Repair and Mutagenesis, pp 283-365, American Society for Microbiology, Washington, DC.
3. Sancar, A. (1995) J. Biol. Chem. 270, 15915-15918.
4. Wood, R. D. (1997) J. Biol. Chem. 272, 23465-23468.
5. Mu, D., Park, C. H., Matsunaga, T., Hsu, D. S., Reardon, J. T., and Sancar, A. (1995) J. Biol. Chem. 270, 2415-2418.
6. Tanaka, K., Miura, N., Satokata, I., Miyamoto, I., Yoshida, M. C., Satoh, Y., Kondo, S., Yasui, A., Okayama, H., and Okada, Y. (1990) Nature 348, 73-76.
7. Tanaka, K. (1993) Jpn. J. Hum. Genet. 38, 1-14.
8. Cleaver, J. E., and States, J. C. (1997) Biochem. J. 328, 1-12.
9. Robins, P., Jones, C. J., Biggerstaff, M., Lindahl, T., and Wood, R. D. (1991) EMBO J. 10, 3913-3921.
10. Jones, C. J., and Wood, R. D. (1993) Biochemistry 32, 12096-12104.
11. Asahina, H., Kuraoka, I., Shirakawa, M., Morita, E. H., Miura, N., Miyamoto, I., Ohtsuka, E., Okada, Y., and Tanaka, K. (1994) Mutat. Res. 315, 229-238.
12. Li, L., Elledge, S. J., Peterson, C. A., Bales, E. S., and Legerski, R. J. (1994) Proc. Natl. Acad. Sci. U.S.A. 91, 5012-5016.
13. Park, C.-H., Mu, D., Reardon, J. T., and Sancar, A. (1995) J. Biol. Chem. 270, 4896-4901.
14. Matsuda, T., Saijo, M., Kuraoka, I., Kobayashi, T., Nakatsu, Y., Nagai, A., Enjoji, T., Masutani, C., Sugasawa, K., Hanoaka, F., Yasui, A., and Tanaka, T. (1995) J. Biol. Chem. 270, 4152-4157.
15. Li, R.-Y., Calsou, P., Jones, C. J., and Salles, B. (1998) J. Mol. Biol. 281, 211-218.
16. Sagasawa, 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) Mol. Cell 2, 223-232.
17. Coverley, D., Kenny, M., Munn, M. Rupp, W. D., Lane, D. P., and Wood, R. D. (1991) Nature 349, 538-541.
18. Satoh, M. S., Jones, C. J., Wood, R. D., and Lindahl, T. (1993) Proc. Natl. Acad. Sci U.S.A. 90, 6335-6339.
19. Kuraoka, I., Monta, E. H., Saijo, M., Matsuda, T., Monkawa, K., Shirakawa, M., and Tanaka, K. (1996) Mutat. Res. 362, 87-95.
20. Hess, N. J., Buchko, G. W., Conradson, S. D., Espinosa, F. J., Ni, S., Thrall, B. D., and Kennedy, M. A. (1998) Protein Sci. 7, 1970-1975.
21. Buchko, G. W., Ni, S., Thrall, B. D., and Kennedy, M. A. (1998) Nucleic Acids Res. 26, 2779-2788.
22. Ikegami, T., Kuraoka, I., Saijo, M., Kodo, N., Kyogoku, Y., Morikawa, K., Tanaka, K., and Shirakawa, M. (1998) Nat. Struct. Biol. 5, 701-706.
23. Chen, T., Reizer, J., Saier, M. H., Jr., Fairbrother, W. J., and Wright, P. E. (1993) Biochemistry 32, 32-37.
24. Lee, A. L., Volkman, B. F., Robertson, S. A., Rudner, D. Z., Barbash, D. A., Cline, T. W., Kanaar, R., Rio, D. C., and Wemmer, D. E. (1997) Biochemistry 36, 14306-14317.
25. Foster, M. P., Wuttke, D. S., Clemens, K. R., Jahnke, W., Radhakrishnan, I., Tennant, L., Reymond, M., Chung, J., and Wright, P. E. (1998) J. Biomol. NMR 12, 51-71.
26. Shukar, S. B., Hajduk, P. J., Meadows, R. P., and Fesik, S. W. (1996) Science 274, 1531-1534.
27. Williams, R. J. P. (1989) Eur. J. Biochem. 183, 479-497.
28. Kay, L. E., Torchia, D. A., and Bax, A. (1989) Biochemistry 28, 8972-8979.
29. Clore, G. M., Driscoll, P. C., Wingfield, P. T., and Gronenborn, A. M. (1990) Biochemistry 29, 7387-7401.
30. Farrow, N. A., Muhandiram, R., Singer, A. U., Pascal, S. M., Kay, C. M., Gish, G., Shoelson, S. E., Pawson, T., FormanKay, J. D., and Kay, L. E. (1994) Biochemistry 33, 5984-6003.
31. Mandel, A. M., Akke, M., and Palmer, A. G., III (1995) J. Mol. Biol. 246, 144-163.
32. Lipari, G., and Szabo, A. (1982) J. Am. Chem. Soc. 104, 4546-4559.
33. Lipari, G., and Szabo, A. (1982) J. Am. Chem. Soc. 104, 4559-4570.
34. Gochin, M., and Roder, H. (1995) Protein Sci. 4, 296-305.
35. Taylor, J.-S., Garrett, D. S., and Cohrs, M. P. (1988) Biochemistry 27, 7206-7215.
36. Kim, J.-K., Patel, D., and Choi, B.-S. (1995) Photochem. Photobiol. 62, 44-50.
37. Spector, T. I., Cheatham, T. E., III, and Kollman, P. A. (1997) J. Am. Chem. Soc. 119, 7095-7104.
38. Miller, J. H., Cooney, M., Maiskiewicz, K., and Osman, R. (1998) in Molecular Modeling of Nucleic Acids, (Leontis, N. B., and Santa Lucia, J., Eds.) pp 312-328, ACS Symp. Ser. 682, ACS, Washington DC.
39. Baleja, J. D., Buchko, G. W., Weinfeld, M., and Sykes, B. D. (1993) J. Biomol. Struct. Dyn. 8, 747-762.
40. He, Z., Henrickson, L. A., Wold, M. S., and Ingles, C. J. (1995) Nature 374, 566-569.
41. Li, L., Lu, X., Peterson, C. A., and Legerski, R. J. (1995) Mol. Cell. Biol. 15, 5396-5402.
42. Walther, A. P., Gomes, X. V., Lao, Y., Lee, C. G., and Wold, M. S. (1999) Biochemistry 38, 3963-3973.
43. Buchko, G. W., Ni, S., Thrall, B. D., and Kennedy, M. A. (1997) J. Biol. NMR 10, 313-314.
44. Gomes, X. V., and Wood, M. S. (1995) J. Biol. Chem. 270, 4534-4543.
45. Hare, D. R., Wemmer, D. E., Chou, S.-H., Drobny, G. P., and Reid, B. R. (1983) J. Mol. Biol. 171, 319-336.
46. Caruthers, M. H. (1983) Science 230, 281-285.
47. Kay, L. E., Muhandiram, D. R., Farrow, N. A., Aubin, Y., and Forman-Kay, J. D. (1996) Biochemistry 35, 361-368.
48. Zhang, O., Kay, L. E., Olivier, J. P., and Forman-Kay, J. D. (1994) J. Biol. NMR 4, 845-858.
49. Vuister, G. W., Clore, G. M., Gronenborn, A. M., Powers, R., Garrett, D. S., Tschudin, R., and Bax, A. (1993) J. Magn. Reson. B 101, 210-213.
50. Constantine, K. L., Mueller, L., Goldfarb, V., Wittekind, M., Metzler, W. J., Yanchunas, J., Robertson, J. G., Malley, M. F., Friedrichs, M. S., and Farmer, B. T., II (1997) J. Mol. Biol. 267, 1223-1246.
51. Farmer, B. T., II, and Mueller, L. (1994) J. Biomol. NMR 4, 673-687.
52. Brünger, A. T. (1993) X-PLOR Manual, Version 3.1, Yale University Press, New Haven, CT.
53. Ikegami, T., Kuroaka, I., Saijo, M., Kodo, N., Kyogoku, Y., Morikawa, K., Tanaka, K., and Shirakawa, M. (1999) J. Biochem. 125, 495-506.
54. Peng, J. W., and Wagner, G. (1994) Methods Enzymol. 239, 563-654.
55. Cheng, J.-W., Lepre, C. A., Chambers, S. P., Fulghum, J. R., Thomson, J. A., and Moore, J. M. (1993) Biochemistry 32, 9000-9010.
56. Zhang, W., Smithgall, T. E., and Gmeiner, W. H. (1998) Biochemistry 37, 7119-7126.
57. Wakasugi, M., and Sancar, A. (1999) J. Biol. Chem. 274, 18759-18768.
58. Gunz, D., Hess, M. T., and Naegeli, H. (1996) J. Biol. Chem. 271, 25089-25098.
59. Nadassy, K., Wodak, S. J., and Janin, J. (1999) Biochemistry 38, 1999-2017.
60. Creighton, T. E. (1993) Proteins: Structure and Molecular Properties, pp 355-360, W. H. Freeman & Company, New York.
61. Holm, L., and Sander, C. (1998) Nucleic Acids Res. 26, 316-319.
62. Clugston, C. K., McLaughlin, K., Kenny, M. K., and Brown, R. (1992) Cancer Res. 52, 6375-6379.
63. Burns, J. L., Guzder, S. N., Sung, P., Prakash, S., and Prakash, L. (1996) J. Biol. Chem. 271, 11607-11610.
64. Reardon, J. T., Mu, D., and Sancar, A., (1996) J. Biol. Chem. 271, 19451-19456.
65. McGhee, J. D., and von Hoppel, P. H. (1974) J. Mol. Biol. 86, 469-489.
66. Oehler, S., Eismann, E. R., Kramer, H., and Muller-Hill, B. (1990) EMBO J. 9, 973-979.
67. Mu, D., Hsu, D. S., and Sancar, A. (1996) J. Biol. Chem. 271, 8285-8294.