Nucleotide-induced conformational changes in the Saccharomyces cerevisiae SR protein kinase, Sky1p, revealed by X-ray crystallography

Biochemistry

Volumn 42, Issue 32, 2003, Pages 9575-9585

  Nolen, Brad ^a   Ngo, Jacky ^a   Chakrabarti, Sutapa ^a   Vu, Don ^a   Adams, Joseph A ^a   Ghosh, Gourisankar ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONFORMATIONS; ENZYMES; RNA; SINGLE CRYSTALS; YEAST;

PHOSPHORYLATION;

BIOCHEMISTRY;

ADENOSINE DIPHOSPHATE; ADENOSINE TRIPHOSPHATE; APOENZYME; GLYCINE; PHOSPHOTRANSFERASE; PROTEIN; PROTEIN KINASE; PROTEIN SERINE KINASE; SKY1P PROTEIN; SR PROTEIN KINASE; UNCLASSIFIED DRUG;

ARTICLE; CONFORMATIONAL TRANSITION; CRYSTAL STRUCTURE; ENZYME ACTIVE SITE; ENZYME PHOSPHORYLATION; MOLECULAR DYNAMICS; MOLECULAR MECHANICS; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN INTERACTION; RNA PROCESSING; SACCHAROMYCES CEREVISIAE; X RAY CRYSTALLOGRAPHY;

AMINO ACID MOTIFS; AMINO ACIDS; APOENZYMES; BINDING SITES; CRYSTALLOGRAPHY, X-RAY; ELECTROSTATICS; HYDROGEN BONDING; MODELS, MOLECULAR; NUCLEOTIDES; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN-SERINE-THREONINE KINASES; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE PROTEINS;

SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 0042527480     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi0344331     Document Type: Article

References (56)

1. Fu, X. D. (1995) RNA 1, 663-80.
2. Blencowe, B. J., Bowman, J. A., McCracken, S., and Rosonina, E. (1999) Biochem. Cell Biol. 77, 277-291.
3. Xiao, S. H., and Manley, J. L. (1997) Genes Dev. 11, 334-344.
4. Wang, H. Y., Lin, W., Dyck J. A., Yeakley, J. M., Songyang, Z., Cantley, L. C., and Fu, X. D. (1998) J. Cell Biol. 140, 737-750.
5. Stojdl, D. F., and Bell, J. C. (1999) Biochem. Cell Biol. 77, 293-298.
6. Yeakley, J. M., Tronchere, H., Olesen, J., Dyck, J. A., Wang, H. Y., and Fu, X. D. (1999) J. Cell Biol. 145, 447-455.
7. Hartmann, A. M., Rujescu, D., Giannakouros, T., Nikolakaki, E., Goedert, M., Mandelkow, E. M., Gao, Q. S., Andreadis, A., and Stamm, S. (2001) Mol. Cell. Neurosci. 18, 80-90.
8. Gui, J. F., Tronchere, H., Chandler, S. D., and Fu, X. D. (1994) Proc. Natl. Acad. Sci. U.S.A. 91, 10824-10828.
9. Colwill, K., Feng, L. L., Yeakley, J. M., Gish, G. D., Caceres, J. F., Pawson, T., and Fu, X. D. (1996) J. Biol. Chem. 271, 24569-24575.
10. Nikolakaki, E., Meier, J., Simos, G., Georgatos, S. D., and Giannakouros, T. (1997) J. Biol. Chem. 272, 6208-6213.
11. Papoutsopoulou, S., Nikolakaki, E., Chalepakis, G., Kruft, V., Chevaillier, P., and Giannakouros, T. (1999) Nucleic Acids Res. 27, 2972-2980.
12. Daub, H., Blencke, S., Habenberger, P., Kurtenbach, A., Dennenmoser, J., Wissing, J., Ullrich, A., and Cotten, M. (2002) J. Virol. 76, 8124-8137.
13. Tang, Z., Yanagida, M., and Lin, R. J. (1998) J. Biol. Chem. 273, 5963-5969.
14. Erez, O., and Kahana, C. (2001) Mol. Cell. Biol. 21, 175-184.
15. Sanz, G., Mir, L., and Jacquemin-Sablon, A. (2002) Cancer Res. 62, 4453-4458.
16. Schenk, P. W., Boersma, A. W., Brok, M., Burger, H., Stoter, G., and Nooter, K. (2002) Mol. Pharmacol. 61, 659-666.
17. Nolen, B., Yun, C. Y., Wong, C. F., McCammon, J. A., Fu, X. D., and Ghosh, G. (2001) Nat. Struct. Biol. 8, 176-183.
18. Sowadski, J. M., Epstein, L. F., Lankiewicz, L., and Karlsson, R. (1999) Pharmacol. Ther. 82, 157-164.
19. Zheng, J., Knighton, D. R., Xuong, N. H., Taylor, S. S., Sowadski, J. M., and Ten Eyck, L. F. (1993) Protein Sci. 2, 1559-1573.
20. Shaffer, J., and Adams, J. A. (1999) Biochemistry 38, 5572-5581.
21. Shaffer, J., and Adams, J. A. (1999) Biochemistry 38, 12072-12079.
22. Jan, A. Y., Johnson E. F., Diamonti, A. J., Carraway, I. K., and Anderson, K. S. (2000) Biochemistry 39, 9786-9803.
23. Shaffer, J., Sun, G., and Adams, J. A. (2001) Biochemistry 40, 11149-11155.
24. Andersen, M. D., Shaffer, J., Jennings, P. A., and Adams, J. A. (2001) J. Biol. Chem. 276, 14204-14211.
25. Hamuro, Y., Wong, L., Shaffer, J., Kim, J. S., Stranz, D. D., Jennings, P. A., Woods, V. L., Jr., and Adams, J. A. (2002) J. Mol. Biol. 323, 871-881.
26. Li, F., Gangal, M., Juliano, C., Gorfain, E., Taylor, S. S., and Johnson, D. A. (2002) J. Mol. Biol. 315, 459-469.
27. Ogawa, A., Takayama, Y., Sakai, H., Chong, K. T., Takeuchi, S., Nakagawa, A., Nada, S., Okada, M., and Tsukihara, T. (2002) J. Biol. Chem. 277, 14351-14354.
28. Gill, S. C., and von Hippel, P. H. (1989) Anal. Biochem. 182, 319-326.
29. 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., Sect. D 54 (Pt 5), 905-921.
30. Xu, R. M., Carrnel, G., Sweet, R. M., Kuret, J., and Cheng, X. (1995) EMBO J. 14, 1015-1023.
31. Longenecker, K. L., Roach, P. J., and Hurley, T. D. (1996) J. Mol. Biol. 257, 618-631.
32. Lowe, E. D., Noble, M. E., Skamnaki, V. T., Oikonomakos, N. G., Owen, D. J., and Johnson, L. N. (1997) EMBO J. 16, 6646-6658.
33. Zheng, J., Knighton, D. R., Ten Eyck, L. F., Karlsson, R., Xuong, N., Taylor, S. S., and Sowadski, J. M. (1993) Biochemistry 32, 2154-2161.
34. Buzko, O., and Shokat, K. M. (2002) Bioinformatics 18, 1274-1275.
35. Batkin, M., and Shaltiel, S. (1999) FEBS Lett. 452, 395-399.
36. Brown, N. R., Noble, M. E., Endicott, J. A., and Johnson, L. N. (1999) Nat. Cell Biol. 1, 438-443.
37. Favelyukis, S., Till, J. H., Hubbard, S. R., and Miller, W. T. (2001) Nat. Struct. Biol. 8, 1058-1063.
38. Cook, A., Lowe, E. D., Chrysina, E. D., Skamnaki, V. T., Oikonomakos, N. G., and Johnson, L. N. (2002) Biochemistry 41, 7301-7311.
39. Madhusudan, P. A., Xuong, N.-H., and Taylor, S. S. (2002) Nat. Struct. Biol. 9, 273-277.
40. Smith, C. M., Radzio-Andzelm, E., Madhusudan, P. A., and Taylor, S. S. (1999) Prog. Biophys. Mol. Biol. 71, 313-341.
41. Taylor, S. S., Knighton, D. R., Zheng, J., Ten Eyck, L. F., and Sowadski, J. M. (1992) Annu. Rev. Cell Biol. 8, 429-462.
42. Aimes, R. T., Hemmer, W., and Taylor, S. S. (2000) Biochemistry 39, 8325-8332.
43. Grant, B. D., Hemmer, W., Tsigelny, I., Adams, J. A., and Taylor, S. S. (1998) Biochemistry 37, 7708-7715.
44. Russo, A. A., Jeffrey, P. D., and Pavletich, N. P. (1996) Nat. Struct. Biol. 3, 696-700.
45. Aubol, B. E., Nolen, B., Vu, D., Ghosh, G., and Adams, J. A. (2002) Biochemistry 41, 10002-10009.
46. Adams, J. A. (2001) Chem. Rev. 101, 2271-2290.
47. Madhusudan, E. A. Trafny, Xuong, N. H., Adams, J. A., Ten Eyck, L. F., Taylor, S. S., and Sowadski, J. M. (1994) Protein Sci. 3, 176-187.
48. Niefind, K., Guerra, B., Pinna, L. A., Issinger, O. G., and Schomburg, D. (1998) EMBO J. 17, 2451-2462.
49. Hutter, M. C., and Helms, V. (1999) Protein Sci. 8, 2728-2733.
50. Gibbs, C. S., and Zoller, M. J. (1991) J. Biol. Chem. 266, 8923-8931.
51. Canagarajah, B. J., Khokhlatchev, A., Cobb, M. H., and Goldsmith, E. J. (1997) Cell 90, 859-869.
52. McRee, D. E., and David, P. R. (1999) Practical Protein Crystallography, 2nd ed., Academic Press, San Diego, CA.
53. Merritt, E. A., and Bacon, D. J. (1997) Methods Enzymol. 277, 505-524.
54. Jones, T. A., Zou, J. Y., Cowan, S. W., and Kjeldgaard. (1991) Acta Crystallogr., Sect. A 47 (Pt 2), 110-119.
55. Hayward, S., and Berendsen, H. J. (1998) Proteins: Struct., Funct., Genet. 30, 144-154.
56. Kraulis, P. J. (1991) J. Appl. Crystallogr. 24, 946-950.