Crystal structure of a catalytic site mutant of β-amylase from Bacillus cereus var. mycoides cocrystallized with maltopentaose

Biochemistry

Volumn 42, Issue 19, 2003, Pages 5574-5581

  Miyake, Hideo ^a   Kurisu, Genji ^b   Kusunoki, Masami ^b   Nishimura, Sigenori ^a   Kitamura, Shinichi ^a   Nitta, Yasunori ^a  

^a Osaka Prefecture University   (Japan)

^b OSAKA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIVATION ENERGY; COMPLEXATION; CONFORMATIONS; CRYSTAL STRUCTURE; ENZYMES; MALTOSE; SUBSTRATES; X RAY ANALYSIS;

MUTANTS;

BIOCHEMISTRY;

BETA AMYLASE; GLUCOSE DERIVATIVE; MALTOPENTAOSE; MALTOSE; UNCLASSIFIED DRUG;

ARTICLE; BACILLUS CEREUS; CRYSTAL STRUCTURE; CRYSTALLIZATION; ENZYME ACTIVE SITE; ENZYME BINDING; ENZYME CONFORMATION; ENZYME STRUCTURE; ENZYME SUBSTRATE COMPLEX; NONHUMAN; PRIORITY JOURNAL; X RAY CRYSTALLOGRAPHY;

BACILLUS CEREUS; BETA-AMYLASE; BINDING SITES; CATALYTIC DOMAIN; CRYSTALLIZATION; CRYSTALLOGRAPHY, X-RAY; ELECTROSTATICS; HYDROGEN BONDING; MACROMOLECULAR SUBSTANCES; MODELS, MOLECULAR; OLIGOSACCHARIDES; POINT MUTATION; PROTEIN CONFORMATION; SUBSTRATE SPECIFICITY; THERMODYNAMICS;

BACILLUS CEREUS; BACTERIA (MICROORGANISMS); GLYCINE MAX;

EID: 0038629280     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi020712x     Document Type: Article

References (48)

1. Henrissat, B., and Davis, G. (1997) Curr. Opin. Struct. Biol. 7, 637-644.
2. Toda, H., Nitta, Y., Asanami, S., Kim, J. P., and Sakiyama, F. (1993) Eur. J. Biochem. 216, 25-38.
3. Nitta, Y., Tomita, K., Kohno, M., Nakashima, T., and Matsumoto, Y. (1991) Denpun Kagaku 38, 159-164.
4. Suganuma, T., Ohnishi, M., Hiromi, K., and Morita, Y. (1980) Agric. Biol. Chem. 44, 1111-1117.
5. Kato, M., Hiromi, K., and Morita, Y. (1974) J. Biochem. 75, 563-576.
6. Nitta, Y., Shirakawa, M., and Takasaki, Y. (1996) Biosci., Biotechnol., Biochem. 60, 823-827.
7. Mikami, B., Hehre, E. J., Sato, M., Katsube, Y., Hirose, M., Morita, Y., and Sacchettini, J. C. (1993) Biochemistry 32, 6836-6845.
8. Mikami, B., Degano, M., Hehre, E. J., and Sacchettini, J. C. (1994) Biochemistry 33, 7779-7787.
9. Adachi, M., Mikami, B., Katsube, T., and Utsumi, S. (1998) J. Biol. Chem. 273, 19859-19865.
10. Cheong, C. G., Eom, S. H., Chang, C., Shin, D. H., Song, H. K., Min, K., Moon, J. H., Kim, K. K., Hwang, K. Y., and Suh, S. W. (1995) Proteins 21, 105-117.
11. Mikami, B., Yoon, H. J., and Yoshigi, N. (1999) J. Mol. Biol. 285, 1235-1243.
12. Oyama, T., Kusunoki, M., Kishimoto, Y., Takasaki, Y., and Nitta, Y. (1999) J. Biochem. 125, 1120-1130.
13. Mikami, B., Adachi, M., Kage, T., Sarikaya, E., Nanmori, T., Shinke, R., and Utsumi, S. (1999) Biochemistry 38, 7050-7061.
14. Oyama, T., Miyake, H., Kusunoki, M., and Nitta, Y. (2002) J. Biochem. 133 (in press).
15. Lawson, C. L., van Montfort, R., Strokopytov, B., Rozeboom, H. J., Kalk, K. H., de Vries, G. E., Penninga, D., Dijkhuizen, L., and Dijkstra, B. W. (1994) J. Mol. Biol. 236, 590-600.
16. Sorimachi, K., Jacks, A. J., Le Gal-Coeffet, M. F., Williamson, G., Archer, D. B., and Williamson, M. P. (1996) J. Mol. Biol. 259, 970-987.
17. Isoda, Y., and Nitta, Y. (1986) J. Biochem. 99, 1631-1637.
18. Nitta, Y., Isoda, Y., Toda, H., and Sakiyama, F. (1989) J. Biochem. 105, 573-576.
19. Miyake, H., Otsuka, C., Nishimura, S., and Nitta, Y. (2002) J. Biochem. 131, 587-591.
20. Yoshioka, Y., Hasegawa, K., Matsuura, Y., Katsube, Y., and Kubota, M. (1997) J. Mol. Biol. 271, 619-628.
21. Hasegawa, K., Kubota, M., and Matsuura, Y. (1999) Protein Eng. 12, 819-824.
22. Fujimoto, Z., Takase, K., Doui, N., Momma, M., Matsumoto, T., and Mizuno, H. (1998) J. Mol. Biol. 277, 393-407.
23. Knegtel, R. M., Strokopytov, B., Penninga, D., Faber, O. G., Rozeboom, H. J., Kalk, K. H., Dijkhuizen, L., and Dijkstra, B. W. (1995) J. Biol. Chem. 270, 29256-29264.
24. Uitdehaag, J. C., Kalk, K. H., van Der Veen, B. A., Dijkhuizen, L., and Dijkstra, B. W. (1999) J. Biol. Chem. 274, 34868-34876.
25. Uitdehaag, J. C., van Alebeek, G. J., van Der Veen, B. A., Dijkhuizen, L., and Dijkstra, B. W. (2000) Biochemistry 39, 7772-7780.
26. Uitdehaag, J. C., Mosi, R., Kalk, K. H., van der Veen, B. A., Dijkhuizen, L., Withers, S. G., and Dijkstra, B. W. (1999) Nat. Struct. Biol. 6, 432-436.
27. McPhaerson, A. (1982) Preparation and Analysis of Protein Crystals, 1st ed., pp 96-97, John Wiley, New York.
28. Stura, E. A., and Wilson, I. A. (1992) A Practical Approach, in Crystallization of Nucleic Acids and Proteins (Ducruix, A., and Giege, R., Eds.) pp 99-126, IRL Press, Oxford, U.K.
29. Rossmann, M. G., and van Beeek, C. G. (1999) Acta Crystallogr. D55, 1631-1640.
30. Collaborative Computational Project Number 4 (1994) Acta Crystallogr. D50, 760-763.
31. Navaza, J. (1994) Acta Crystallogr. A50, 157-163.
32. Brunger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros., 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. D54, 905-921.
33. Brunger, A. T. (1992) Nature 355, 472-474.
34. Jones, T. A., Zou, J. Y., Cowan, S. W., and Kjeldgaard, M. (1991) Acta Crystallogr. A47, 110-119.
35. Takusagawa, F., and Jacobson, R. A. (1978) Acta Crystallogr. B34, 213-218.
36. Davies, G. J., Wilson, K. S., and Henrissat, B. (1997) Biochem. J. 321, 557-559.
37. Matsuura, Y., Kusunoki, M., Harada, W., and Kakudo, M. (1984) J. Biochem. 95, 697-702.
38. Strokopytov, B., Penninga, D., Rozeboom, H. J., Kalk, K. H., Dijkhuizen, L., and Dijkstra, B. W. (1995) Biochemistry 34, 2234-2240.
39. Brzozowski, A. M., and Davies, G. J. (1997) Biochemistry 36, 10837-10845.
40. Uitdehaag, J. C., van Der Veen, B. A., Dijkhuizen, L., and Dijkstra, B. W. (2002) Enzymol. Microb. Technol. 30, 295-304.
41. Penninga, D., van der Veen, B. A., Knegtel, R. M., van Hijum, S. A., Rozeboom, H. J., Kalk, K. H., Dijkstra, B. W., and Dijkhuizen, L. (1996) J. Biol. Chem. 271, 32777-32784.
42. van der Veen, B. A., van Alebeek, G. J., Uitdehaag, J. C., Dijkstra, B. W., and Dijkhuizen, L. (2000) Eur. J. Biochem. 267, 658-665.
43. Heightman, T. D., and Vasella, A. T. (1999) Angew. Chem., Int. Ed. 38, 750-770.
44. Varrot, A., Schülein, M., Pipelir, M., Vasella, A., and Dacies, G. J. (1999) J. Am. Chem. Soc. 121, 2621-2622.
45. Shimada, J., Kaneko, H., Takada, T., Kitamura, S., and Kajiwara, K. (2000) J. Phys. Chem. B 104, 2136-2147.
46. Kaneko, H., Kuriki, T., Handa, S., Takada, T., Takata, H., Yanase, M., Okada, S., Umeyama, H., and Shimada, J. (1998) Res. Commun. Biochem. Cell Mol. Biol. 2, 69-89.
47. Esonuf, R. M. (1997) J. Mol. Graphics 15, 132-134.
48. Merritt, E. A., and Murphy, M. E. P. (1994) Acta Crystallogr. D50, 869-873.