Making ATP

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

Volumn 102, Issue 46, 2005, Pages 16539-16546

  Xing, Jianhua ^a   Liao, Jung Chi ^a   Oster, George ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

ATP synthase; ATP synthesis; F1F0 ATPase

Indexed keywords

ADENOSINE TRIPHOSPHATE; PROTEIN SUBUNIT;

ARTICLE; CATALYSIS; CHEMICAL BOND; HYDROLYSIS; MATHEMATICAL MODEL; METHODOLOGY; MOLECULAR DYNAMICS; MOLECULAR INTERACTION; PRIORITY JOURNAL; PROTEIN ASSEMBLY; PROTEIN STRUCTURE; QUALITY CONTROL; STRUCTURE ANALYSIS;

ADENOSINE DIPHOSPHATE; ADENOSINE TRIPHOSPHATE; CATALYTIC DOMAIN; HYDROLYSIS; MODELS, THEORETICAL; PROTON-TRANSLOCATING ATPASES;

EID: 28044451786     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0507207102     Document Type: Article

References (76)

1. Boyer, P. (1997) Annu. Rev. Biochem. 66, 717-749.
2. Kinosita, K., Adachi, K. & Itoh, H. (2004) Annu. Rev. Biophys. Biomol. Struct. 33, 245-268.
3. Nakamoto, R., Ketchum, C., Kuo, P., Peskova, Y. & Al-Shawi, M. (2000) Biochim. Biophys. Acta 1458, 289-299.
4. Weber, J. & Senior, A. E. (2003) FEBS Lett. 545, 61-70.
5. Weber, J. & Senior, A. (2000) Biochim. Biophys. Acta 1458, 300-309.
6. Xing, J., Wang, H. & Oster, G. (2005) Biophys. J. 89, 1551-1563.
7. Wang, H. & Oster, G. (1998) Nature 396, 279-282.
8. Li, G. H. & Cui, Q. (2002) Biophys. J. 83, 2457-2474.
9. Cui, Q., Li, G. H., Ma, J. P. & Karplus, M. (2004) J. Mol. Biol. 340, 345-372.
10. Zheng, W. J. & Doniach, S. (2003) Proc. Natl. Acad. Sci. USA 100, 13253-13258.
11. Ma, J. P. (2004) Curr. Protein Peptide Sci. 5, 119-123.
12. Tama, F., Gadea, F. X., Marques, O. & Sanejouand, Y. H. (2000) Proteins Struct. Funct. Genet. 41, 1-7.
13. Bockmann, R. A. & Grubmuller, H. (2003) Biophys. J. 85, 1482-1491.
14. Warshel, A. (1991) Computer Modeling of Chemical Reactions in Enzymes and Solutions (Wiley, New York).
15. Chang, Y. T. & Miller, W. H. (1990) J. Phys. Chem. 94, 5884-5888.
16. Kim, Y., Corchado, J. C., Villa, J., Xing, J. & Truhlar, D. G. (2000) J. Chem. Phys. 112, 2718-2735.
17. Lefohn, A. E., Ovchinnikov, M. & Voth, G. A. (2001) J. Phys. Chem. B 105, 6628-6637.
18. Xing, J., Wang, H.-Y., Dimroth, P., von Ballmoos, C. & Oster, G. (2004) Biophys. J. 87, 2148-2163.
19. Pedersen, P., Ko, Y. H. & Hong, S. (2000) J. Bioenerg. Biomembr. 32, 325-332.
20. Boyer, P. (1998) Biochim. Biophys. Acta 1365, 3-9.
21. Boyer, P. (2002) J. Biol. Chem. 277, 39045-39061.
22. Grabe, M., Wang, H. & Oster, G. (2000) Biophys. J. 78, 2798-2813.
23. Senior, A. E., Nadanaciva, S. & Weber, J. (2002) Biochim. Biophys. Acta 1553, 188-211.
24. Bustamante, C., Keller, D. & Oster, G. (2001) Acc. Chem. Res. 34, 412-420.
25. Dittrich, M., Hayashi, S. & Schulten, K. (2004) Biophys. J. 87, 2954-2967.
26. Dittrich, M., Hayashi, S. & Schulten, K. (2003) Biophys. J. 85, 2253-2266.
27. Antes, I., Chandler, D., Wang, H. & Oster, G. (2003) Biophys J. 85, 695-706.
28. Sun, S., Wang, H. & Oster., G. (2004) Biophys J. 86, 1373-1384.
29. Gao, Y., Yang, W., Marcus, R. & Karplus, M. (2003) Proc. Natl. Acad. Sci. USA 100, 11339-11344.
30. Nath, S. & Jain, S. (2000) Biochem. Biophys. Res. Commun. 272, 629-633.
31. Oster, G. & Wang, H. (2000) Biochim. Biophys. Acta 1458, 482-510.
32. Walker, J. (2000) Biochim. Biophys. Acta 1458, 221-514.
33. Stock, D., Gibbons, C., Arechaga, I., Leslie, A. & Walker, J. (2000) Curr. Opin. Struct. Biol. 10, 672-679.
34. Masaike, T., Muneyuki, E., Noji, H., Kinosita, K. & Yoshida, M. (2002) J. Biol. Chem. 277, 21643-21649.
35. Menz, R., Walker, J. & Leslie, A. (2001) Cell 106, 331-341.
36. Sun, S., Chandler, D., Dinner, A. & Oster, G. (2003) Eur. J. Biophys, 32, 676-683.
37. Ogura, T., Whiteheart, S. W. & Wilkinson, A. J. (2004) J. Struct. Biol. 146, 106-112.
38. Oster, G. & Wang, H. (2002) in Molecular Motors, ed. Schliwa, M. (Wiley, New York), pp. 207-228.
39. Oster, G. & Wang, H. (2003) Trends Cell Biol. 13, 114-121.
40. Wang, H. & Oster, G. (2001) Europhys. Lett. 57, 134-140.
41. Kinosita, K., Yasuda, R. & Noji, H. (1999) in Essays in Biochemistry, ed. S. Higgins, G. B. (Portland Press, London), Vol. 35.
42. Kinosita, K., Yasuda, R., Noji, H. & Adachi, K. (2000) Philos. Trans. Biol. Sci. 355, 473-490.
43. Berzborn, R. & Schlitter, J. (2002) FEBS Lett. 533, 1-8.
44. Ma, J., Flynn, T., Cui, Q., Leslie, A., Walker, J. & Karplus, M. (2002) Structure (London) 10, 921-931.
45. Goldstein, H., Poole, C. P, & Safko, J. L. (2002) Classical Mechanics (Addison-Wesley, San Francisco).
46. Abrahams, J., Leslie, A., Lutter, R. & Walker, J. (1994) Nature 370, 621-628.
47. Adachi, K., Yasuda, R., Noji, H., Itoh, H., Harada, Y., Yoshida, M. & Kinosita, K. (2000) Proc. Natl. Acad. Sci. USA 97, 7243-7247.
48. Yasuda, R., Noji, H., Yoshida, M., Kinosita, K. & Itoh, H. (2001) Nature 410, 898-904.
49. Shimabukuro, K., Yasuda, R., Muneyuki, E., Hara, K. Y., Kinosita, K., Jr., & Yoshida, M. (2003) Proc. Natl. Acad. Sci. USA 100, 14731-14736.
50. Liao, J.-C., Jeong, Y.-J., Kim, D.-E., Patel, S. & Oster, G. (2005) J. Mol. Biol. 350, 452-475.
51. Boyer, P. (1993) Biochim. Biophys. Acta 1140, 215-250.
52. Tomashek, J. J., Glagoleva, O. B. & Brusilow, W. S. A. (2004) J. Biol. Chem. 279, 4465-4470.
53. Penefsky, H. S. (1991) in Advances in Enzymology, ed. Meister, A. (Wiley, New York), Vol. 64, pp. 173-214.
54. Boyer, F. D. (1989) FASEB J. 3, 2164-2178.
55. Wood, J., Wise, J., Senior, A., Futai, M. & Boyer, P. (1987) J. Biol. Chem. 262, 2180-2186.
56. Stroop, S. D. & Boyer, P. D. (1987) Biochemistry 26, 1479-1484.
57. Stroop, S. D. & Boyer, P. D. (1985) Biochemistry 24, 2304-2310.
58. O'Neal, C. & Boyer, P. (1984) J. Biol. Chem. 259, 5761-5767.
59. Kohlbrenner, W. & Boyer, P. (1983) J. Biol. Chem. 258, 10881-10886.
60. Hackney, D. D., Rosen, G. & Boyer, P. D. (1979) Proc. Natl. Acad. Sci. USA 76, 3646-3650.
61. Shin, K., Nakamoto, R., Maeda, M. & Futai, M. (1992) J. Biol. Chem. 267, 20835-20839.
62. Nakamoto, R., Maeda, M. & Futai, M. (1993) J. Biol. Chem. 268, 867-872.
63. Lotscher, H. R., Dejong, C. & Capaldi, R. A. (1984) Biochemistry 23, 4134-4140.
64. Dallmann, H. G., Flynn, T. G. & Dunn, S. D. (1992) J. Biol. Chem. 267, 18953-18960.
65. Aggeler, R., Haughton, M. A. & Capaldi, R. A. (1995) J. Biol. Chem. 270, 9185-9191.
66. Moyle, J. & Mitchell, P. (1975) FEBS Lett. 56, 55-61.
67. Hirono-Hara, Y., Noji, H., Nishiura, M.. Muneyuki, E., Hara, K. Y., Yasuda, R., Kinosita, K. & Yoshida, M. (2001) Proc. Natl Acad. Sci. USA 98, 13649-13654.
68. Matsui, T., Muneyuki, E., Honda, M., Allison, W., Dou, C. & Yoshida, M. (1997) J. Biol. Chem. 272, 8215-8221.
69. Vasilyeva, E. A., Minkov, I. B., Fitin, A. F. & Vinogradov, A. D. (1982) Biochem. J. 202, 15-23.
70. Feldman, R. I. & Boyer, F. D. (1985) J. Biol. Chem. 260, 3088-3094.
71. Hirono-Hara, Y., Ishuzuka, K., Kinosita, K., Yoshida, M. & Noji, H. (2005) Proc. Natl. Acad. Sci. USA 102, 4288-4293.
72. Gibbons, C., Montgomery, M., Leslie, A. & Walker, J. (2000) Nat. Struct. Biol. 7, 1055-1061.
73. Kagawa, R., Montgomery, M. G., Braig, K., Leslie, A. G. W. & Walker, J. E. (2004) EMBO J. 23, 2734-2744.
74. Bald, D., Amano, T., Muneyuki, E., Pitard, B., Rigaud, J. L., Kruip, J., Hisabori, T., Yoshida, M. & Shibata, M. (1998) J. Biol. Chem. 273, 865-870.
75. Syroeshkin, A. V., Bakeeva, L. E. & Cherepanov, D. A. (1998) Biochim. Biophys. Acta 1409, 59-71.
76. Kolomeisky, A. B. (2001) J. Chem. Phys. 115, 7253-7259.