Protein kinetics: Structures of intermediates and reaction mechanism from time-resolved x-ray data

Proceedings of the National Academy of Sciences of the United States of America

Volumn 101, Issue 14, 2004, Pages 4799-4804

  Schmidt, Marius ^a,b   Pahl, Reinhard ^c   Srajer, Vukica ^b,c   Anderson, Spencer ^c   Ren, Zhong ^e   Ihee, Hyotcherl ^b,f   Rajagopal, Sudarshan ^b   Moffat, Keith ^b,c,d  

^a TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^b UNIVERSITY OF CHICAGO   (United States)

^c UNIVERSITY OF CHICAGO   (United States)

^d UNIVERSITY OF CHICAGO   (United States)

^e Renz Research   (United States)

^f Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

Author keywords

Chemical, kinetic mechanism; Time resolved crystallography

Indexed keywords

ARTICLE; CRYSTAL STRUCTURE; CRYSTALLOGRAPHY; DECOMPOSITION; DENSITY; ELECTRON; KINETICS; PRIORITY JOURNAL; PROTEIN STRUCTURE; STOICHIOMETRY; X RAY;

BACTERIAL PROTEINS; CRYSTALLOGRAPHY, X-RAY; KINETICS; PHOTORECEPTORS, MICROBIAL;

MUS;

EID: 1842738214     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0305983101     Document Type: Article

References (38)

1. Bolduc, J. M., Dyer, D. H., Scott, W. G., Singer, P., Sweet, R. M., Koshland, D. E. & Stoddard, B. L. (1995) Science 268, 1312-1318.
2. Ostermann, A., Waschipky, R., Parak, F. G. & Nienhaus G. U. (1999) Nature 404, 205-208.
3. Schlichting, I., Berendzen, J., Chu, K., Stock, A. M., Maves, S. A., Benson, D. E., Sweet, R. M., Ringe, D., Petsko, G. & Sligar, S. (2000) Science 287, 1615-1622.
4. Long, S. B., Casey, P. J. & Beese, L. S. (2002) Nature 419, 645-650.
5. Moffat, K. & Henderson, R. (1995) Curr. Opin. Struct. Biol. 5, 656-663.
6. Doster, W, & Settles, M. (1998) in Les Houches Lecture, Workshop on the Hydration Processes in Biology, eds. Bellisent-Funel, M. C., & Teixera, J. (1OS Press, Amsterdam), pp. 177-191.
7. Parak, F., Knapp, E. W. & Kucheida, D. (1982) J. Mol. Biol. 161, 177-194.
8. Fenimore, P. W., Frauenfelder, H., McMahon, B. H. & Parak, F. (2003) Proc. Natl. Acad. Sci. USA 99, 16047-16051.
9. Parak, F. (2003) Rep. Prog. Phys. 66, 103-129.
10. Karplus, M. (1999) in Simplicity and Complexity in Proteins and Nucleic Acids, eds. Frauenfelder, H., Deisenhofer, J. & Wolynes P. (Dahlem Univ. Press, Berlin), p. 39.
11. Moffat, K. (1989) Annu. Rev. Biophys. Biophys. Chem. 18, 309-323.
12. Bourgeois, D., Ursby, T., Wulff, M., Pradervand, C., Legrand, A., Schildkamp, W., Laboure, S., Srajer, V., Teng, T. Y., Roth, M., et al. (1996) J. Synchrotron Rad. 3, 65-74.
13. Srajer, V., Teng, T. Y., Ursby, T., Pradervand, C., Ren, Z., Adachi, S., Schildkamp, W., Bourgeois, D., Wulff, M. & Moffat, K. (1996) Science 274, 1726-1729.
14. Ren, Z., Bourgeois, D., Helliwell, J. R., Moffat, K., Srajer, V. & Stoddard, B. L. (1999) J. Synchrotron Rad. 6, 891-917.
15. Ren, Z., Perman, B., Srajer, V., Teng, T. Y., Pradervand, C., Bourgeois, D., Schotte, F., Ursby, T., Kort, R., Wulff, M., et al. (2001) Biochemistry 40, 13788-13801.
16. Srajer, V., Ren, Z., Teng, T. Y., Schmidt, M., Ursby, T., Bourgeois, D., Pradervand, C., Schildkamp, W., Wulff, M. & Moffat, K. (2001) Biochemistry 40, 13802-13815.
17. Moffat, K. (2001) Chem. Rev. (Washington, D.C.) 101, 1569-1581.
18. Schotte, F., Lim, M., Jackson, T. A., Smirnov, A. V., Soman, J., Olson, J. S., Philips, G. N., Jr., Wulff, M. & Anfinrud, P. A. (2003) Science 300, 1944-1947.
19. Schmidt, M., Rajagopal, S., Ren, Z. & Moffat, K. (2003) Biophys. J. 84, 2112-2129.
20. Henry, E. R. & Hofrichter, J. (1992) Methods Enzymol. 210, 129-192.
21. Cusanovic, M. A. & Meyer, T. E. (2003) Biochemistry 42, 4759-4770.
22. Sprenger, W. W., Hoff, W. D., Armitage, J. P. & Hellingwerf, K. J. (1993) J. Bacteriol. 175, 3096-3104.
23. Kort, R., Hoff, W. D., Van West, M., Kroon, A. R., Hoffer, S. M., Vlieg, K. H., Crielaand, W., Van Beeumen, J. J. & Hellingwerf, K. J. (1996) EMBO J. 15, 3209-3218.
24. Meyer, T. E., Tollin, G., Flazzard, J. H. & Cusanovich, E. (1989) Biophys. J. 56, 559-564.
25. Hoff, W. D., van Stokkum, I. H. M., van Ramesdonk, H. J., von Brederode, M. E., Brouwer, A. M., Fitch, J. C., Meyer, T. E., van Grondelle, R. & Hellingwerf, K. J. (1994) Biophys. J. 67, 1691-1705.
26. Ujj, L., Devanathan, S., Meyer, T. E., Cusanovich, M. A., Tollin, G. & Atkinkson, G. H. (1998) Biophys. J. 75, 406-412.
27. Brudler, R., Rammelsberg, R., Woo, T. T., Getzoff, E. & Gerwert, K. (2001) Nat. Struct. Biol. 8, 265-270.
28. Takeshita, K., Imamoto, Y., Kataoka, M., Tokunaga, F. & Terazima, M. (2002) Biochemistry 41, 3037-3048.
29. Genick, U. K., Soltis, S. M., Kuhn, P., Canestrelli, I. L. & Getzoff, D. E. (1998) Nature 392, 206-209.
30. Genick, U. K., Borgstahl, G. E., Ng, K., Ren, Z., Pradervand, C., Burke, P. M., Srajer, V., Teng, T. Y., Schildkamp, W., McRee, D. E., et al. (1997) Science 275, 1471-1475.
31. Perman, B., Srajer, V., Ren, Z., Teng, T. Y., Pradervand, C., Usrby, T., Bourgeois, D., Schotte, F., Wulff, M., Kort, R., et al. (1998) Science 279, 1946-1950.
32. Ren Z. & Moffat, K. (1995) J. Appl. Crystallogr. 28, 461-481.
33. Ren Z. & Moffat, K. (1995) J. Appl. Crystallogr. 28, 482-493.
34. Borgstahl, G. E. O., Williams, D. R. & Getzoff, D. E. (1995) Biochemistry 34, 6278-6287.
35. Brunger, A. T., Adams, P. D., Clore, G. M., Delano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J. S., Kuszewski, J., Nilges, N., Pannu, N. S., et al. (1998) Acta Crystallogr. D 54, 905-921.
36. Zimanyi, L., Kulcsar, A., Lanyi, J. K., Sears, D. F., Jr., & Saltiel, J. (1999) Proc. Natl. Acad. Sci. USA 96, 4408-4413.
37. Steinfeld, J. I., Francisco, J. S. & Hase, W. L. (1989) Chemical Kinetics and Dynamics (Prentice Hall, Englewood Cliffs, NJ).
38. Ng, K., Getzoff, E. D. & Moffat, K. (1995) Biochemistry 34, 879-890.