Proton exit channels in bovine cytochrome c oxidase

Journal of Physical Chemistry B

Volumn 109, Issue 5, 2005, Pages 1999-2006

  Popović, Dragan M ^a   Stuchebrukhov, Alexei A ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CYTOCHROME C; ELECTROSTATIC POTENTIAL; PROTON PUMPING; PROTONATION;

BACTERIA; ELECTRON TRANSITIONS; ELECTROSTATICS; FREE ENERGY; MOLECULAR STRUCTURE; MUTAGENESIS; PROTONS; REDOX REACTIONS; SUBSTITUTION REACTIONS;

ENZYMES;

CYTOCHROME C OXIDASE; LYSINE; OXYGEN; PROTON; WATER;

ANIMAL; ARTICLE; CATALYSIS; CATTLE; CHEMICAL STRUCTURE; CHEMISTRY; ELECTRICITY; ELECTRON TRANSPORT; HEART MUSCLE; METABOLISM; OXIDATION REDUCTION REACTION; PROTEIN CONFORMATION; STATIC ELECTRICITY; THERMODYNAMICS;

ANIMALS; CATALYSIS; CATTLE; ELECTRON TRANSPORT; ELECTRON TRANSPORT COMPLEX IV; ELECTROSTATICS; LYSINE; MODELS, MOLECULAR; MYOCARDIUM; OXIDATION-REDUCTION; OXYGEN; PROTEIN CONFORMATION; PROTONS; STATIC ELECTRICITY; THERMODYNAMICS; WATER;

EID: 13444305368     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp0464371     Document Type: Article

References (55)

1. Popovic, D. M.; Stuchebrukhov, A. A. J. Am. Chem. Soc. 2004, 126, 1858.
2. Popovic, D. M.; Stuchebrukhov, A. A. FEBS Lett. 2004, 566, 126.
3. Wikström, M. Curr. Opin. Struct. Biol. 1998, 8, 480.
4. Michel, H.; Behr, J.; Harrenga, A.; Kannt, A. Annu. Rev. Biophys. Biomol. Struct. 1998, 27, 329.
5. Gennis, R. B. Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 12747.
6. Ferguson-Miller, S.; Babcock, G. T. Chem. Rev. 1996, 7, 2889.
7. Wikström, M. Biochemistry 2000, 39, 3515.
8. Michel, H. Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 12819.
9. Wikström, M. Nature 1989, 338, 776.
10. Mitchell, P. Nature 1961, 191, 144.
11. Konstantinov, A. A.; Siletsky, S.; Mitchell, D.; Kaulen, A.; Gennis, R. B. Proc. Natl. Acad. Sci. U.S.A. 1997, 94, 9085.
12. Ädelroth, P.; Gennis, R. B.; Brzezinski, P. Biochemistry 1998, 37, 2470.
13. Mills, D. A.; Ferguson-Miller, S. Biochim. Biophys. Acta 1998, 1365, 46.
14. Brzezinski, P.; Ädelroth, P. J. Bioeaerg. Biomembr. 1998, 30, 99.
15. Mitchell, P.; Rich, P. R. Biochim. Biophys. Acta 1994, 1186, 19.
16. Rich, P. R. Aust. J. Plant Physiol. 1995, 22, 479.
17. Iwata, S.; Ostermeier, C.; Ludwig, B.; Michel, H. Nature 1995, 376, 660.
18. Tsukihara, T.; Aoyama, H.; Yamashita, E.; Tomizaki, T.; Yamaguchi, H.; Shinzawa-Itoh, K.; Nakashima, R.; Yaono, R.; Yoshikawa, S. Science 1996, 272, 1136.
19. Ostermeier, C.; Harrenga, A.; Ermler, U.; Michel, H. Proc. Natl. Acad. Sci. U.S.A. 1997, 94, 10547.
20. Schmidt, B.; McCrackcn, J.; Ferguson-Miller, S. Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 15539-15542.
21. Wikström, M. Biochim. Biophys. Acta 2000, 1458, 188.
22. Puustinen, A.; Wikström, M. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 35.
23. Yoshikawa, S.; Shinzawa-Itoh, K.; Nakashima, R.; Yaono, R.; Yamashita, E.; Inoue, N.; Yao, M.; Fei, M. J.; Libeu, C. P.; Mizushima, T.; Yamaguchi, H.; Tomizaki, T.; Tsukihara, T. Science 1998, 280, 1723.
24. Kawasaki, M.; Mogi, T.; Anraku, Y. J. Biochem. 1997, 122, 422.
25. Pfitzner, U.; Odenwald, A.; Ortermann, T.; Weingard, L.; Ludwig, B.; Richter, O.-M. H. J. Bioenerg. Biomembr. 1998, 30, 89.
26. Das, T. K.; Gomes, C. M.; Teixeira, M.; Rousseau, D. L. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 9591.
27. Thomas, J. W.; Puustinen, A.; Alben, J. O.; Gennis, R. B.; Wikström, M. Biochemistry 1993, 32, 10923.
28. Qian, J.; Shi, W.; Pressler, M.; Hogansson, C.; Mills, D.; Babcock, G. T.; Ferguson-Miller, S. Biochemistry 1997, 36, 2539.
29. Popovic, D. M.; Quenneville, I.; Stuchebcukhov, A. A. J. Phys. Chem. B, to be published.
30. Quenneville, J.; Popovic, D. M.; Stuchebrukhov, A. A. J. Phys. Chem. B 2004, 108, 18383.
31. Onufriev, A.; Smondyrev, A.; Bashford, D. J. Mol. Biol. 2003, 332, 1183.
32. Das, T. K.; Tomson, F. L.; Gennis, R. B.; Gordon, M.; Rousseau, D. L. Biophys. J. 2001, 80, 2039.
33. Koutsoupakis, K.; Stavrakis, S.; Pinakoulaki, E.; Soulimane, T.; Varotsis, C. J. Biol. Chem. 2002, 277, 32860.
34. Iwaki, M.; Rich, P. R. J. Am. Chem. Soc. 2004, 126, 2386.
35. Spassov, V. Z.; Luecke, H.; Gerwert, K.; Bashford, D. J. Mol. Biol. 2001, 312, 203.
36. Bashford, D.; Gerwert, K. J. Mol. Biol. 1992, 224, 473.
37. Sampogna, R. V.; Honig, B. Biophys. J. 1994, 66, 1341.
38. Bashford, D. An object-oriented programming suite for electrostatic effects in biological molecules. In Scientific Computing in Object-Oriented Parallel Environments; Ishikawa, Y., Oldehoeft, R. R., Reynders, J. V. W., Tholburn, M., Eds.; Springer Berlin, 1997; Vol. 1343, p 233.
39. Popovic, D. M.; Zaric, S. D.; Rabenstein, B.; Knapp, E. W. J. Am. Chem. Soc. 2001, 123, 6040.
40. Popovic, D. M.; Zmiric, A.; Zaric, S. D.; Knapp, E. W. J. Am. Chem. Soc. 2002, 124, 3775.
41. Rabenstein, B. Karlsberg online manual. http://lie.chemie.fu-berlin/karlsberg/ed, 1999.
42. Lancaster, C. R.; Michel, H.; Honig, B.; Gunner, M. R. Biophys. J. 1996, 70, 2469.
43. Kannt, A.; Lancaster, R. D.; Michel, H. J. Bioenerg. Biomembr. 1998, 30, 81.
44. Kannt, A.; Lancaster, R. D.; Michel, H. Biophys. J. 1998, 74, 708.
45. Okuno, D.; Iwase, T.; Shinziwa-Itoh, K.; Yoshikawa, S.; Kitagawa, T. J. Am. Chem. Soc. 2003, 125, 7209.
46. Papa, S.; Capitanio, N.; Capitanio, G. Biochim. Biophys. Acta 2004, 1655, 353.
47. Mills, D. A.; Florens, L.; Hiser, C.; Qian, J.; Ferguson-Miller, S. Biochim. Biophys. Acta 2000, 1458, 180.
48. Zheng, X.; Medvedev, D. M.; Swanson, J.; Stuchebrukhov, A. A. Biochim. Biophys. Acta 2003, 1557, 99.
49. Zaslavsky, D.; Gennis, R. B. Biochim. Biophys. Acta 2000, 1458, 164.
50. Wikström, M.; Jasaitis, A.; Backgren, C.; Puustinen, A.; Verkhovsky, M. I. Biochim. Biophys. Acta 2000, 1459, 514.
51. Hofecker, I.; Schulten, K. Proteins 1998, 30, 100.
52. Karpefors, M.; Ädelroth, P.; Aagaard, A.; Sigurdson, H.; Sveosson-Ek, M.; Brzezinski, P. Biochim. Biophys. Acta 1998, 1365, 159.
53. Ruitenberg, M.; Kannt, A.; Bamberg, E.; Fendler, K.; Michel, H. Nature 2002, 417, 99.
54. Stuchebrukhov, A. A. J. Theor. Comput. Chem. 2003, 2, 91.
55. Kadenbach, B. Biochim. Biophys. Acta 2003, 1604, 77-94.