The missing link between thermodynamics and structure in F1-ATPase

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

Volumn 100, Issue 3, 2003, Pages 874-879

  Yang, W ^a   Gao, Y Q ^b   Cui, Q ^c   Ma, J ^d   Karplus, M ^a,e  

^a HARVARD UNIVERSITY   (United States)

^b CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^c UNIVERSITY OF WISCONSIN MADISON   (United States)

^d BAYLOR COLLEGE OF MEDICINE   (United States)

^e UNIVERSITÉ LOUIS PASTEUR   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ENZYME; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE;

ARTICLE; BINDING SITE; CATALYSIS; CRYSTAL STRUCTURE; ENERGY; ENZYME ACTIVITY; ENZYME STRUCTURE; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; THERMODYNAMICS;

ADENOSINE DIPHOSPHATE; ADENOSINE TRIPHOSPHATE; ANIMALS; BINDING SITES; CATTLE; HYDROLYSIS; MAGNESIUM; MITOCHONDRIA; MODELS, CHEMICAL; MODELS, MOLECULAR; PROTEIN BINDING; PROTEIN CONFORMATION; PROTON-TRANSLOCATING ATPASES; THERMODYNAMICS; TIME FACTORS;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0037417786     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0337432100     Document Type: Article

References (47)

1. Boyer, P. D. (1998) Angew. Chem. Int. Ed. Engl. 37, 2296-2307.
2. Walker, J. E. (1998) Angew. Chem. Int. Ed. Engl. 37, 2309-2319.
3. Weber, J. & Senior, A. E. (1997) Biochim. Biophys. Acta 1319, 19-58.
4. Abrahams, J. P., Leslie, A. G. W., Lutter, R. & Walker, J. E. (1994) Nature 370, 621-628.
5. Braig, K., Menz, R. I., Montgomery, M. G., Leslie, A. G. W. & Walker, J. E. (2000) Structure (London) 8, 567-573.
6. Menz, R. I., Walker, J. E. & Leslie, A. G. W. (2001) Cell 106, 331-341.
7. Stock, D., Leslie, A. G. W. & Walker, J. E. (1999) Science 286, 1700-1705.
8. Penefsky, H. S. (1986) Methods Enzymol. 126, 608-619.
9. Senior, A. E. (1992) J. Bioenerg. Biomembr. 24, 479-484.
10. Noji, H., Yasuda, R., Yoshida, M. & Kinoshita, K., Jr. (1997) Nature 386, 299-302.
11. Nakamoto, R. K., Ketchum, C. J. & Al-Shawi, M. K. (1999) Annu. Rev. Biophys. Biomol. Struct. 28, 205-234.
12. Gao, J., Kuczera, K., Tidor, B. & Karplus, M. (1989) Science 244, 1069-1072.
13. Simonson, T., Archontis, G. & Karplus, M. (2002) Acc. Chem. Res. 35, 430-437.
14. Simonson, T., Archontis, G. & Karplus, M. (1997) J. Phys. Chem. B 41, 8347-8360.
15. Dinner, A., Blackburn, G. M. & Karplus, M. (2001) Nature 413, 752-755.
16. George, P., Witonsky, R. J., Trachtman, M., Wu, C., Dorwart, W., Richman, L., Richman, W., Shurayh, F. & Lentz, B. (1970) Biochim. Biophys. Acta 223, 1-15.
17. Bashford, D. & Karplus, M. (1990) Biochemistry 29, 10219-10225.
18. Schaefer, M., Sommer, M. & Karplus, M. (1997) J. Phys. Chem. B 101, 1663-1683.
19. Al-Shawi, M. K. & Senior, A. E. (1992) Biochemistry 31, 878-885.
20. Weber, J., Hammond, S. T., Wilke-Mounts, S. & Senior, A. E. (1998) Biochemistry 37, 608-614.
21. MacKerell, A. D., Jr., Bashford, D., Bellott, R. L., Dunbrack, R. L., Jr., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., et al. (1998) J. Phys. Chem. B 102, 3586-3616.
22. Jorgensen, W. L., Chandrasekhar, J., Madura, J. D., Impey, R. W. & Klein, M. L. (1983) J. Phys. Chem. 79, 926-935.
23. Neria, E., Fischer, S. & Karplus, M. (1996) J. Chem. Phys. 105, 1902-1921.
24. Stote, R. H., States, D. J. & Karplus, M. (1991) J. Chim. Phys. 88, 2419-2433.
25. Brooks, C., III, Bržnger, A. T. & Karplus, M. (1985) Biopolymers 24, 843-865.
26. Brooks, C., III, & Karplus, M. (1989) J. Mol. Biol. 208, 159-181.
27. Brooks, C., III, & Karplus, M. (1984) J. Chem. Phys. 79, 6312-6325.
28. Ryckaert, J., Ciccotti, G. & Berendsen, H. (1977) J. Comput. Phys. 23, 327-341.
29. Tidor, B. & Karplus, M. (1991) Biochemistry 30, 3217-3228.
30. Brooks, B. R., Bruccoleri, R. E., Olafson, B. D., States, D. J., Swaminathan, S. & Karplus, M. (1983) J. Comp. Chem. 4, 187-217.
31. Boresch, S. & Karplus, M. (1999) J. Phys. Chem. A 103, 119-136.
32. Allison, W. S. (1998) Acc. Chem. Res. 31, 819-826.
33. Lau, F. T. K. & Karplus, M. (1994) J. Mol. Biol. 236, 1049-1066.
34. Bash, P. A., Field, M. J., Davenport, R. C., Petsko, A., Ringe, D. & Karplus, M. (1991) Biochemistry 30, 5821-5832.
35. Cui, Q. & Karplus, M. (2001) J. Am. Chem. Soc. 123, 2284-2290.
36. Walker, J. E., Saraste, M., Runswick, M. J. & Gay, N. J. (1982) EMBO J. 1, 945-951.
37. Saraste, M., Sibbald, P. R. & Wittinghofer, A. (1990) Trends Biochem. Sci. 15, 430-434.
38. Nadanaciva, S., Weber, J., Wilke-Mounts, S. & Senior, A. E. (1999) Biochemistry 38, 15493-15499.
39. Le, N. P., Omote, H., Wada, Y., Al-Shawi, M. K., Nakamoto, R. K. & Futai, M. (2000) Biochemistry 39, 2778-2783.
40. Gibbons, C., Montgomery, M. G., Leslie, A. G. W. & Walker, J. E. (2000) Nat. Struct. Biol. 7, 1055-1061.
41. Senior, A. E. & Al-Shawi, M. K. (1992) J. Biol. Chem. 267, 21471-21478.
42. Bšckmann, R. A. & Grubmüller, H. (2002) Nat. Struct. Biol. 9, 198-202.
43. Ma, J., Flynn, T. C., Cui, Q., Leslie, A., Walker, J. E. & Karplus, M. (2002) Structure (London) 10, 921-931.
44. Wang, H. & Oster, G. (1998) Nature 396, 279-282.
45. Henry, E. R., Eaton, W. A. & Hochstrasser, R. M. (1986) Proc. Natl. Acad. Sci. USA 83, 8982-8986.
46. Boyer, P. D. (1979) in Membrane Bioenergetics, eds. Lee, C. P., Schatz, C. & Ernster, L. (Addison-Wesley, Waltham, MA), pp. 461-477.
47. Boyer, P. D. (1997) Annu. Rev. Biochem. 66, 717-749.