Insights into the mechanism of proton transport in cytochrome c oxidase

Journal of the American Chemical Society

Volumn 134, Issue 2, 2012, Pages 1147-1152

  Yamashita, Takefumi ^a,b   Voth, Gregory A ^a  

^a UNIVERSITY OF CHICAGO   (United States)

^b UNIVERSITY OF TOKYO   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ATP SYNTHASE; CATALYTIC SITES; CELLULAR RESPIRATION; CYTOCHROME C; CYTOCHROME C OXIDASE; DELOCALIZATIONS; ELECTRON TRANSFER; ELECTRON TRANSPORT CHAIN; ELECTRONIC CHARGES; INTERMEMBRANES; MATRIX; MOLECULAR DYNAMICS SIMULATIONS; MOLECULAR LEVELS; PROTON GRADIENT; PROTON TRANSPORT; PROTON-PUMPING; WATER MOLECULE;

ELECTRON TRANSITIONS; MOLECULAR DYNAMICS; MOLECULAR OXYGEN; PORPHYRINS;

PROTONS;

CYTOCHROME C OXIDASE; GLUTAMIC ACID; HEME; PROPIONIC ACID; PROTON PUMP; WATER;

ARTICLE; BINDING AFFINITY; CHEMICAL BOND; MOLECULAR DYNAMICS; MOLECULAR INTERACTION; OXIDATION; PROTEIN ANALYSIS; PROTEIN STRUCTURE; PROTON TRANSPORT; SIMULATION;

AMINO ACID SEQUENCE; ANIMALS; CATTLE; ELECTRON TRANSPORT COMPLEX IV; MODELS, MOLECULAR; PROTEIN CONFORMATION; PROTONS; WATER;

EID: 84855943335     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja209176e     Document Type: Article

References (37)

1. Gennis, R. B. Front. Biosci. 2004, 9, 581-591
2. Hosler, J. P.; Ferguson-Miller, S.; Mills, D. A. Annu. Rev. Biochem. 2006, 75, 165-187
3. Wikström, M.; Verkhovsky, M. I. Biochim. Biophys. Acta, Bioenerg. 2007, 1767, 1200-1214
4. Brzezinski, P.; Johansson, A. L. Biochim. Biophys. Acta, Bioenerg. 2010, 1797, 710-723
5. Iwata, S.; Ostermeier, C.; Ludwig, B.; Michel, H. Nature 1995, 376, 660-669
6. Tsukihara, T.; Aoyama, H.; Yamashita, E.; Tomizaki, T.; Yamaguchi, H.; ShinzawaItoh, K.; Nakashima, R.; Yaono, R.; Yoshikawa, S. Science 1996, 272, 1136-1144
7. Mitchell, R.; Rich, P. R. Biochim. Biophys. Acta, Bioenerg. 1994, 1186, 19-26
8. Michel, H. Biochemistry 1999, 38, 15129-15140
9. Kim, Y. C.; Wikström, M.; Hummer, G. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 13707-13712
10. Faxén, K.; Gilderson, G.; Ädelroth, P.; Brzezinski, P. Nature 2005, 437, 286-289
11. Belevich, I.; Verkhovsky, M. I.; Wikström, M. Nature 2006, 440, 829-832
12. Kaila, V. R. I.; Verkhovsky, M. I.; Hummer, G.; Wikström, M. Biochim. Biophys. Acta, Bioenerg. 2009, 1787, 1205-1214
13. Wikström, M.; Verkhovsky, M. I.; Hummer, G. Biochim. Biophys. Acta, Bioenerg. 2003, 1604, 61-65
14. Wikström, M.; Ribacka, C.; Molin, M.; Laakkonen, L.; Verkhovsky, M.; Puustinen, A. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 10478-10481
15. Agmon, N. Chem. Phys. Lett. 1995, 244, 456-462
16. Voth, G. A. Acc. Chem. Res. 2006, 39, 143-150
17. Swanson, J. M. J.; Maupin, C. M.; Chen, H. N.; Petersen, M. K.; Xu, J. C.; Wu, Y. J.; Voth, G. A. J. Phys. Chem. B 2007, 111, 4300-4314
18. Tsukihara, T.; Shimokata, K.; Katayama, Y.; Shimada, H.; Muramoto, K.; Aoyoma, H.; Mochizuki, M.; Shinzawa-Itoh, K.; Yamashita, E.; Yao, M.; Ishimura, Y.; Yoshikawa, S. Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 15304-15309
19. Gilderson, G.; Salomonsson, L.; Aagaard, A.; Gray, J.; Brzezinski, P.; Hosler, J. Biochemistry 2003, 42, 7400-7409
20. Roux, B. Comput. Phys. Commun. 1995, 91, 275-282
21. Tepper, H. L.; Voth, G. A. Biophys. J. 2005, 88, 3095-3108
22. Fadda, E.; Chakrabarti, N.; Pomès, R. J. Phys. Chem. B 2005, 109, 22629-22640
23. Siegbahn, P. E. M.; Blomberg, M. R. A.; Blomberg, M. L. J. Phys. Chem. B 2003, 107, 10946-10955
24. Kaila, V. R. I.; Sharma, V.; Wikström, M. Biochim. Biophys. Acta, Bioenerg. 2011, 1807, 80-84
25. Daskalakis, V.; Farantos, S. C.; Guallar, V.; Varotsis, C. J. Phys. Chem. B 2011, 115, 3648-3655
26. Ghosh, N.; Prat-Resina, X.; Gunner, M. R.; Cui, Q. Biochemistry 2009, 48, 2468-2485
27. Johansson, A. L.; Chakrabarty, S.; Berthold, C.; Högbom, M.; Warshel, A.; Brzezinski, P. Biochim. Biophys. Acta 2011, 1807, 1083-1094
28. Chakrabarty, S.; Namslauer, I.; Brzezinski, P.; Warshel, A. Biochim. Biophys. Acta, Bioenerg. 2011, 1807, 413-426
29. Pisliakov, A. V.; Sharma, P. K.; Chu, Z. T.; Haranczyk, M.; Warshel, A. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 7726-7731
30. Maupin, C. M.; Aradi, B.; Voth, G. A. J. Phys. Chem. B 2010, 114, 6922-6931
31. Goyal, P.; Elstner, M.; Cui, Q. J. Phys. Chem. B 2011, 115, 6790-6805
32. Yamashita, T.; Voth, G. A. J. Phys. Chem. B 2010, 114, 592-603
33. Kaila, V. R. I.; Verkhovsky, M. I.; Hummer, G.; Wikström, M. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 6255-6259
34. Maréchal, A.; Rich, P. R. Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 8634-8638
35. Xu, J.; Voth, G. A. Biochim. Biophys. Acta, Bioenerg. 2008, 1777, 196-201
36. Yang, S.; Cui, Q. Biophys. J. 2011, 101, 61-69
37. Humphrey, W.; Dalke, A.; Schulten, K. J. Mol. Graph. 1996, 14, 33-38