Probing the structure of the PI-SceI-DNA complex by affinity cleavage and affinity photocross-linking

Journal of Biological Chemistry

Volumn 275, Issue 4, 2000, Pages 2705-2712

  Hu, Dongli ^a   Crist, Michael ^a   Duan, Xiaoqun ^b   Quiocho, Florante A ^b   Gimble, Frederick S ^a,c  

^a TEXAS A AND M UNIVERSITY   (United States)

^b BAYLOR COLLEGE OF MEDICINE   (United States)

^c TEXAS A AND M HEALTH SCIENCE CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BROMIDE; EDETIC ACID; ENDONUCLEASE; INTEIN;

ARTICLE; CROSS LINKING; CRYSTAL STRUCTURE; CRYSTALLIZATION; DNA BINDING; DNA DAMAGE; ENZYME ACTIVITY; ENZYME SPECIFICITY; GENOME; PRIORITY JOURNAL; PROTEIN PROCESSING; PROTEIN STRUCTURE; SITE DIRECTED MUTAGENESIS; YEAST;

BASE SEQUENCE; CRYSTALLOGRAPHY, X-RAY; CYSTEINE; DNA; ENDODEOXYRIBONUCLEASES; MODELS, MOLECULAR; MOLECULAR PROBES; MOLECULAR SEQUENCE DATA; MOLECULAR STRUCTURE; PHOTOAFFINITY LABELS; PROTON-TRANSLOCATING ATPASES; SACCHAROMYCES CEREVISIAE PROTEINS;

EID: 0034723273     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.275.4.2705     Document Type: Article

References (42)

1. Belfort, M., and Roberts, R. J. (1997) Nucleic Acids Res. 25, 3379-3388
2. Gimble, F. S., and Thorner, J. (1992) Nature 367, 301-306
3. Gimble, F. S., and Thorner, J. (1993) J. Biol. Chem. 268, 21844-21853
4. Hirata, R., Ohsumi, Y., Nakano, A., Kawasaki, H., Suzuki, K., and Anraku, Y. (1990) J. Biol. Chem. 265, 6726-6733
5. Kane, P. M., Yamashiro, C. T., Wolczyk, D. F., Neff, N., Goebl, M., and Stevens, T. H. (1990) Science 250, 651-657
6. Gimble, F. S., and Wang, J. (1996) J. Mol. Biol. 263, 163-180
7. Wende, W., Grindl, W., Christ, F., Pingoud, A., and Pingoud, V. (1996) Nucleic Acids Res. 24, 4123-4132
8. Grindl, W., Wende, W., Pingoud, V., and Pingoud, A. (1998) Nucleic Acids Res. 26, 1857-1862
9. Duan, X., Gimble, F. S., and Quiocho, F. A. (1997) Cell 89, 555-564
10. Jurica, M. S., Monnat, R. J., Jr., and Stoddard, B. L. (1998) Mol. Cell 2, 469-476
11. Gimble, F. S., and Stephens, B. W. (1995) J. Biol. Chem. 270, 5849-5856
12. Aggarwal, A. K., and Wah, D. A. (1998) Curr. Opin. Struct. Biol. 8, 19-25
13. Gimble, F. S., Hu, D., Duan, X., and Quiocho, F. A. (1998) J. Biol. Chem. 273, 30524-30529
14. Heath, P. J., Stephens, K. M., Monnat, R. J., Jr., and Stoddard, B. L. (1997) Nat. Struct. Biol. 4, 468-476
15. Hu, D., Crist, M., Duan, X., and Gimble, F. S. (1999) Biochemistry 38, 12621-12628
16. Pingoud, V., Thole, H., Christ, F., Grindl, W., Wende, W., and Pingoud, A. (1999) J. Biol. Chem. 274, 10235-10243
17. He, Z., Crist, M., Yen, H., Duan, X., Quiocho, F. A., and Gimble, F. S. (1998) J. Biol. Chem. 273, 4607-4615
18. Otwinowski, Z., and Minor, W. (1997) Methods Enzymol. 276, 307-326
19. Collaborative Computing Project (1994) Acta Crystallogr. Sec. A. 4, 760-763
20. Brünger, A. T. (1992) X-PLOR version 3.1: A System for X-ray Crystallography and NMR, Yale University Press, New Haven, CT
21. Jones, T. A., Zou, J. Y., Cowan, S. W., and Kjeldgaard. (1991) Acta Crystallogr. Sec. A. 47, 110-119
22. Kabsch, W., and Sander, C. (1983) Biopolymers 22, 2577-2637
23. Ho, S. N., Hunt, H. D., Horton, R. M., Pullen, J. K., and Pease, L. R. (1989) Gene (Amst.) 77, 51-59
24. Dumoulin, P., Oertel-Buchheit, P., Granger-Schnarr, M., and Schnarr, M. (1993) Proc. Natl. Acad. Sci U. S. A. 90, 2030-2034
25. Murakami, K., Kimura, M., Owens, J. T., Meares, C. F., and Ishihama, A. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 1709-1714
26. Greiner, D. P., Miyake, R., Moran, J. K., Jones, A. D., Negishi, T., Ishihama, A., and Meares, C. F. (1997) Bioconj. Chem. 8, 44-48
27. Papavassiliou, A. G. (1994) Methods Mol. Biol. 30, 43-78
28. Carter, E., and Tung, C.-S. (1996) Comput. Appl. Biosci. 12, 25-30
29. Lavery, R., and Sklenar, H. (1988) J. Biomol. Struct. Dyn. 6, 63-91
30. Duan, X. (1998) X-ray Structure of PI-SceI, a Homing Endonuclease with Protein Splicing Activity. Ph.D. thesis, Baylor College of Medicine, Houston, TX
31. Hall, T. M. T., Porter, J. A., Young, K. E., Koonin, E. V., Beachy, P. A., and Leahy, D. J. (1997) Cell 91, 85-97
32. Murakami, K., Owens, J. T., Belyaeva, T. A., Meares, C. F., Busby, S. J., and Ishihama, A. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 11274-11278
33. Owens, J. T., Chmura, A. J., Murakami, K., Fujita, N., Ishihama, A., and Meares, C. F. (1998) Biochemistry 37, 7670-7675
34. Oakley, M. G., and Dervan, P. B. (1990) Science 248, 847-850
35. Dervan, P. B. (1991) Methods Enzymol. 208, 497-515
36. Ebright, Y. W., Chen, Y., Pendergrast, P. S., and Ebright, R. H. (1992) Biochemistry 31, 10664-10670
37. Chen, Y., and Ebright, R. H. (1993) J. Mol. Biol. 230, 453-460
38. Dumoulin, P., Ebright, R. H., Knegtel, R., Kaptein, R., Granger-Schnarr, M., and Schnarr, M. (1996) Biochemistry 35, 4279-4286
39. Silva, G. H., Dalgaard, J. Z., Belfort, M., and Van Roey, P. (1999) J. Mol. Biol. 286, 1123-1136
40. Dalgaard, J. Z., Moser, M. J., Hughey, R., and Mian, I. S. (1997) J. Comput. Biol. 4, 193-214
41. Derbyshire, V., Wood, D. W., Wu, W., T., D. J., Dalgaard, J. Z., and Belfort, M. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 11466-11471
42. Christopher, J. A. (1998) SPOCK software, Version 1.0b135, Texas A & M University, College Station, TX