Crystal structures of type II restriction endonuclease EcoO109I and its complex with cognate DNA

Journal of Biological Chemistry

Volumn 280, Issue 7, 2005, Pages 5605-5610

  Hashimoto, Hiroshi ^a   Shimizu, Toshiyuki ^a   Imasaki, Tsuyoshi ^a   Kato, Matsuri ^a   Shichijo, Naoki ^a   Kita, Keiko ^b   Sato, Mamoru ^a  

^a YOKOHAMA CITY UNIVERSITY   (Japan)

^b KYOTO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CATALYSIS; COMPLEXATION; CRYSTAL STRUCTURE; DNA SEQUENCES; OXYGEN; PHOSPHORUS;

CATALYTIC DOMAINS; CLEAVAGE PATTERN; ECO0109I; TYPE II RESTRICTION ENDONUCLEASE;

ENZYMES;

DNA; LEWIS ACID; LYSINE; METAL ION; OXYGEN; PHOSPHORUS; PROTON; TYPE II SITE SPECIFIC DEOXYRIBONUCLEASE; WATER;

ARTICLE; CATALYSIS; CHEMICAL INTERACTION; COMPARATIVE STUDY; CRYSTAL STRUCTURE; DNA CLEAVAGE; DNA SEQUENCE; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FOLDING;

AMINO ACID SEQUENCE; BASE PAIRING; BASE SEQUENCE; BINDING SITES; CATALYTIC DOMAIN; CRYSTALLOGRAPHY, X-RAY; DEOXYRIBONUCLEASES, TYPE II SITE-SPECIFIC; DIMERIZATION; DNA; DNA-BINDING PROTEINS; ESCHERICHIA COLI; HYDROLYSIS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTATION; PROTEIN STRUCTURE, QUATERNARY;

EID: 14044252836     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M411684200     Document Type: Article

References (28)

1. Roberts, R. J., Belfort, M., Bestor, T., Bhagwat, A. S., Sickle, T. A., Bitinaite, J., Blumenthal, R. M., Degtyarev, S. Kh., Dryden, D. T., Dybvig, K., et al. (2003) Nucleic Acids Res. 31, 1805-1812
2. Galburt, E. A., and Stoddard, B. L. (2002) Biochemistry 41, 13851-13860
3. Venclovas, C., Timinskas, A., and Siksnys, V. (1994) Proteins 20, 279-282
4. Kovall, R. A., and Matthews, B. W. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 7893-7897
5. Kovall, R. A., and Matthews, B. W. (1999) Curr. Opin. Chem. Biol. 3, 578-583
6. Etzkorn, C., and Horton, N. C. (2004) Biochemistry 43, 13256-13270
7. Cheng, X., Baiendiran, K., Schildkraut, I., and Anderson, J. E. (1994) EMBO J. 13, 3927-3935
8. Pingoud, A., and Jeltsch, A. (2001) Nucleic Acids Res. 29, 3705-3727
9. Van der Woerd, M. J., Pelletier, J. J., Xu, S., and Friedman, M. (2001) Structure 9, 133-144
10. Grazulis, S., Deibert, M., Rimseliene, R., Skirgaila, R., Sasnauskas, G., Lagunavicius, A., Repin, V., Urbanke, C., Huber, R., and Siksnys, V. (2002) Nucleic Acids Res. 30, 876-885
11. Bozic, D., Grazulis, S., Siksnys, V., and Huber, R. (1996) J. Mol. Biol. 255, 176-186
12. Horton, N. C., Dorner, L. F., and Perona, J. J. (2002) Nat. Struct. Biol. 9, 42-47
13. Newman, M., Lunnen, K., Wilson, G., Greci, J., Schildkraut, I., and Phillips, S. E. V. (1998) EMBO J. 17, 5466-5476
14. Imasaki, T., Hashimoto, H., Shimizu, T., Kato, M., Tsuda, J., Kita, K., and Sato, M. (2004) Acta Crystallogr. Sect. D Biol. Crystallogr. 60, 1165-1166
15. Otwinowski, Z., and Minor, W. (1997) Methods Enzymol. 276, 307-326
16. Pflugrath, J. W. (1999) Acta Crystallogr. Sect. D Biol. Crystallogr. 55, 1718-1725
17. Terwilliger, T. C., and Berendzen, J. (1999) Acta Crystallogr. Sect. D Biol. Crystallogr. 55, 849-861
18. Jones, T. A., Zou, J.-Y., Cowan, S. W., and Kjeldgaard, M. (1991) Acta Crystallogr. Sect. A 47, 110-119
19. Brünger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Glos, P., Grosse-Kunstleve, R. W., Jiang, J.-S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T., and Warren, G. L. (1998) Acta Crystallogr. Sect. D Biol. Crystallogr. 54, 905-921
20. Murshudov, G. N., Vagin, A. A., and Dodson, E. J. (1997) Acta Crystallogr. Sect. D Biol. Crystallogr. 53, 240-255
21. Tenno, T., Fujiwara, K., Tochio, H., Iwai, K., Morita, E. H., Hayashi, H., Murata, S., Hiroaki, H., Sato, M., Tanaka, K., and Shirakawa, M. (2004) Genes Cells 9, 865-875
22. Svergun, D. I. (1999) Biophys. J. 76, 2879-2886
23. Kraulis, P. J. (1991) J. Appl. Crystallogr. 24, 946-950
24. Merritt, E. A., and Murphy, M. E. P. (1994) Acta Crystallogr. Sect. D Biol. Crystallogr. 50, 869-873
25. Laverly, R., and Sklenar, H. (1988) J. Biomol. Struct. Dyn. 6, 63-91
26. Sanner, M. F., Olson, A. J., and Spehner, J. C. (1996) Biopolymers 38, 305-320
27. Kita, K., Tsuda, J., and Nishigaki, R. (2001) Biosci. Biotechnol. Biochem. 65, 2512-2518
28. Harding, M. M. (2002) Acta Crystallogr. Sect. D Biol. Crystallogr. 58, 872-874