Atomic resolution structures of bacteriorhodopsin photocycle intermediates: The role of discrete water molecules in the function of this light-driven ion pump

Biochimica et Biophysica Acta - Bioenergetics

Volumn 1460, Issue 1, 2000, Pages 133-156

  Luecke, Hartmut ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

High resolution membrane protein structure; Ion pump mechanism; Light driven ion transport

Indexed keywords

ALANINE; ARGININE; ASPARTIC ACID; BACTERIORHODOPSIN; LYSINE; PROLINE; PROTON PUMP; RETINAL; SCHIFF BASE; WATER;

HYDROGEN BOND; HYDROPHOBICITY; ION TRANSPORT; ISOMERISM; LIPID BILAYER; PKA; PRIORITY JOURNAL; PROTEIN STABILITY; PROTEIN STRUCTURE; PROTON TRANSPORT; REVIEW;

BACTERIORHODOPSINS; BINDING SITES; ION PUMPS; LIGHT; MODELS, MOLECULAR; MOLECULAR STRUCTURE; PHOTOCHEMISTRY; PROTEIN CONFORMATION; RETINALDEHYDE; SCHIFF BASES; STRUCTURE-ACTIVITY RELATIONSHIP; WATER;

BACTERIA (MICROORGANISMS);

EID: 0034734246     PISSN: 00052728     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0005-2728(00)00135-3     Document Type: Review

References (96)

1. Lanyi J.K. J. Biol. Chem. 272:1997;31209-31212.
2. Lanyi J.K. J. Struct. Biol. 124:1998;164-178.
3. Oesterhelt D. Curr. Opin. Struct. Biol. 8:1998;489-500.
4. Haupts U., Tittor J., Oesterhelt D. Annu. Rev. Biophys. Biomol. Struct. 28:1999;367-399.
5. - Transporters in Biological Membranes, Springer Verlag, Berlin, 1994, p. 1-16.
6. Oesterhelt D. Isr. J. Chem. 35:1995;475-494.
7. Hoff W.D., Jung K.H., Spudich J.L. Annu. Rev. Biophys. Biomol. Struct. 26:1997;223-258.
8. Mitchell P. Nature. 191:1961;144-148.
9. Lanyi J.K., Váró G. Isr. J. Chem. 35:1995;365-386.
10. Maeda A. Isr. J. Chem. 35:1995;387-400.
11. Zheng L., Herzfeld J. J. Bioenerg. Biomembr. 24:1992;139-146.
12. Althaus T., Eisfeld W., Lohrmann R., Stockburger M. Isr. J. Chem. 35:1995;227-252.
13. Luecke H., Richter H.T., Lanyi J.K. Science. 280:1998;1934-1937.
14. Luecke H., Schobert B., Richter H.T., Cartailler J.-P., Lanyi J.K. J. Mol. Biol. 291:1999;899-911.
15. Harbison G.S., Roberts J.E., Herzfeld J., Griffin R.G. J. Am. Chem. Soc. 110:1988;7221-7223.
16. Birge R.R., Cooper T.M., Lawrence A.F., Masthay M.B., Vasilakis C., Zhang C.-F., Zidovetzki R. J. Am. Chem. Soc. 111:1989;4063-4074.
17. Birge R.R., Cooper T.M., Lawrence A.F., Masthay M.B., Zhang C.-F., Zidovetzki R. J. Am. Chem. Soc. 113:1991;4327-4328.
18. Braiman M.S., Mathies R.A. Proc. Natl. Acad. Sci. USA. 79:1982;403-407.
19. Siebert F., Mantele W. Eur. J. Biochem. 130:1983;565-573.
20. Rothschild K.J., Roepe P., Ahl P.L., Earnest T.N., Bogomolni R.A., Das Gupta S.K., Mulliken C.M., Herzfeld J. Proc. Natl. Acad. Sci. USA. 83:1986;347-351.
21. Maeda A., Kandori H., Yamazaki Y., Nishimura S., Hatanaka M., Chon Y.S., Sasaki J., Needleman R., Lanyi J.K. J. Biochem. (Tokyo). 121:1997;399-406.
22. Váró G., Lanyi J.K. Biochemistry. 30:1991;7165-7171.
23. Zimányi L., Váró G., Chang M., Ni B., Needleman R., Lanyi J.K. Biochemistry. 31:1992;8535-8543.
24. Gerwert K., Hess B., Soppa J., Oesterhelt D. Proc. Natl. Acad. Sci. USA. 86:1989;4943-4947.
25. Dioumaev A.K., Richter H.T., Brown L.S., Tanio M., Tuzi S., Saitô H., Kimura Y., Needleman R., Lanyi J.K. Biochemistry. 37:1998;2496-2506.
26. Richter H.T., Needleman R., Kandori H., Maeda A., Lanyi J.K. Biochemistry. 35:1996;15461-15466.
27. Kandori H., Yamazaki Y., Hatanaka M., Needleman R., Brown L.S., Richter H.T., Lanyi J.K., Maeda A. Biochemistry. 36:1997;5134-5141.
28. Henderson R. Annu. Rev. Biophys. Bioeng. 6:1977;87-109.
29. Henderson R., Unwin P.N. Nature. 257:1975;28-32.
30. Henderson R., Baldwin J.M., Ceska T.A., Zemlin F., Beckmann E., Downing K.H. J. Mol. Biol. 213:1990;899-929.
31. Grigorieff N., Ceska T.A., Downing K.H., Baldwin J.M., Henderson R. J. Mol. Biol. 259:1996;393-421.
32. Blaurock A.E., Stoeckenius W. Nature. 233:1971;152-155.
33. Steinhoff H.-J., Mollaaghababa R., Altenbach C., Hideg K., Krebs M., Khorana H.G., Hubbell W.L. Science. 266:1994;105-107.
34. Müller D.J., Fotiadis D., Engel A. FEBS Lett. 430:1998;105-111.
35. Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., Shindyalov I.N., Bourne P.E. Nucleic Acids Res. 28:2000;235-242.
36. Subramaniam S. Curr. Opin. Struct. Biol. 9:1999;462-468.
37. Sheldrick G.M., Schneider T. Methods Enzymol. 277:1997;319-343.
38. Landau E.M., Rosenbusch J.P. Proc. Natl. Acad. Sci. USA. 93:1996;14532-14535.
39. Rummel G., Hardmeyer A., Widmer C., Chiu M.L., Nollert P., Locher K.P., Pedruzzi I., Landau E.M., Rosenbusch J.P. J. Struct. Biol. 121:1998;82-91.
40. Pebay-Peyroula E., Rummel G., Rosenbusch J.P., Landau E.M. Science. 277:1997;1676-1681.
41. Essen L.O., Siegert R., Lehmann W.D., Oesterhelt D. Proc. Natl. Acad. Sci. USA. 95:1998;11673-11678.
42. Michel H., Oesterhelt D. Proc. Natl. Acad. Sci. USA. 77:1980;1283-1285.
43. Schertler G.F.X., Bartunik H.D., Michel H., Oesterhelt D. J. Mol. Biol. 234:1993;156-164.
44. Berlhali H., Nollert P., Royant A., Menzel C., Rosenbusch J., Landau E.M., Pebay-Peyroula E. Structure. 7:1999;909-917.
45. Hatanaka M., Kashima R., Kandori H., Friedman N., Sheves M., Needleman R., Lanyi J.K., Maeda A. Biochemistry. 36:1997;5493-5498.
46. Marti T., Otto H., Mogi T., Rösselet S.J., Heyn M.P., Khorana H.G. J. Biol. Chem. 266:1991;6919-6927.
47. Ihara K., Amemiya T., Miyashita Y., Mukohata Y. Biophys. J. 67:1994;1187-1191.
48. Weidlich O., Schalt B., Friedman N., Sheves M., Lanyi J.K., Brown L.S., Siebert F. Biochemistry. 35:1996;10807-10814.
49. Sonar S., Krebs M.P., Khorana H.G., Rothschild K.J. Biochemistry. 32:1993;2263-2271.
50. Delaney J.K., Schweiger U., Subramaniam S. Proc. Natl. Acad. Sci. USA. 92:1995;11120-11124.
51. Lin S.W., Mathies R.A. Biophys. J. 56:1989;653-660.
52. Earnest T.N., Roepe P., Braiman M.S., Gillespie J., Rothschild K.J. Biochemistry. 25:1986;7793-7798.
53. Maeda A., Sasaki J., Yamazaki Y., Needleman R., Lanyi J.K. Biochemistry. 33:1994;1713-1717.
54. Hatanaka M., Kandori H., Maeda A. Biophys. J. 73:1997;1001-1006.
55. Kandori H., Yamazaki Y., Sasaki J., Needleman R., Lanyi J.K., Maeda A. J. Am. Chem. Soc. 117:1995;2118-2119.
56. Otto H., Marti T., Holz M., Mogi T., Stern L.J., Engel F., Khorana H.G., Heyn M.P. Proc. Natl. Acad. Sci. USA. 87:1990;1018-1022.
57. Brown L.S., Bonet L., Needleman R., Lanyi J.K. Biophys. J. 65:1993;124-130.
58. Keefe L.J., Sondek J., Shortle D., Lattman E.E. Proc. Natl. Acad. Sci. USA. 90:1993;3275.
59. T.G. Ebrey, in: M. Jackson (Ed.), Thermodynamics of Membranes, Receptors and Channels, CRC Press, New York, 1993, pp. 353-387.
60. Lanyi J.K. Biochim. Biophys. Acta. 1183:1993;241-261.
61. Cao Y., Váró G., Klinger A.L., Czajkowsky D.M., Braiman M.S., Needleman R., Lanyi J.K. Biochemistry. 32:1993;1981-1990.
62. Joshi M.K., Dracheva S., Mukhopadhyay A.K., Bose S., Hendler R.W. Biochemistry. 37:1998;14463-14470.
63. Kates M., Kushwaha S.C., Sprott G.D. Methods Enzymol. 88:1982;98-111.
64. Subramaniam S., Gerstein M., Oesterhelt D., Henderson R. EMBO J. 12:1993;1-8.
65. Vonck J. Biochemistry. 35:1996;5870-5878.
66. Farrens D.L., Altenbach C., Yang K., Hubbell W.L., Khorana H.G. Science. 274:1996;768-770.
67. Nicholls A., Sharp K.A., Honig B. Proteins. 11:1991;281-296.
68. White S.H., Wimley W.C. Annu. Rev. Biophys. Biomol. Struct. 28:1999;319-365.
69. Dracheva S., Bose S., Hendler R.W. FEBS Lett. 382:1996;209-212.
70. Luecke H., Schobert B., Richter H.T., Cartailler J.-P., Lanyi J.K. Science. 286:1999;255-260.
71. Subramaniam S., Lindahl I., Bullough P., Faruqi A.R., Tittor J., Oesterhelt D., Brown L., Lanyi J.K., Henderson R. J. Mol. Biol. 287:1999;145-161.
72. Kataoka M., Kamikubo H., Tokunaga F., Brown L.S., Yamazaki Y., Maeda A., Sheves M., Needleman R., Lanyi J.K. J. Mol. Biol. 243:1994;621-638.
73. Borucki B., Otto H., Heyn M.P. J. Phys. Chem. B. 102:1998;3821-3829.
74. Moltke S., Nevzorov A.A., Sakai N., Wallat I., Job C., Nakanishi K., Heyn M.P., Brown M.F. Biochemistry. 37:1998;11821-11835.
75. Subramaniam S., Greenhalgh D.A., Rath P., Rothschild K.J., Khorana H.G. Proc. Natl. Acad. Sci. USA. 88:1991;6873-6877.
76. Brown L.S., Lanyi J.K. Proc. Natl. Acad. Sci. USA. 93:1996;1731-1734.
77. Balashov S.P., Imasheva E.S., Govindjee R., Ebrey T.G. Biophys. J. 70:1996;473-481.
78. Richter H.T., Brown L.S., Needleman R., Lanyi J.K. Biochemistry. 35:1996;4054-4062.
79. Braiman M.S., Dioumaev A.K., Lewis J.R. Biophys. J. 70:1996;939-947.
80. Kamikubo H., Kataoka M., Váró G., Oka T., Tokunaga F., Needleman R., Lanyi J.K. Proc. Natl. Acad. Sci. USA. 93:1996;1386-1390.
81. Cao Y., Váró G., Chang M., Ni B., Needleman R., Lanyi J.K. Biochemistry. 30:1991;10972-10979.
82. Holz M., Drachev L.A., Mogi T., Otto H., Kaulen A.D., Heyn M.P., Skulachev V.P., Khorana H.G. Proc. Natl. Acad. Sci. USA. 86:1989;2167-2171.
83. Tittor J., Soell C., Oesterhelt D., Butt H.-J., Bamberg E. EMBO J. 8:1989;3477-3482.
84. Edman K., Nollert P., Royant A., Belrhali H., Pebay-Peyroula E., Hajdu J., Neutze R., Landau E.M. Nature. 401:1999;822-826.
85. H. Luecke, B. Schobert, J.P. Cartailler, H.T. Richter, A. Rosengarth, R. Needleman, J.K. Lanyi (accepted).
86. Brown L.S., Sasaki J., Kandori H., Maeda A., Needleman R., Lanyi J.K. J. Biol. Chem. 270:1995;27122-27126.
87. Petkova A.T., Hu J.G.G., Bizounok M., Simpson M., Griffin R.G., Herzfeld J. Biochemistry. 38:1999;1562-1572.
88. Scherrer P., Mathew M.K., Sperling W., Stoeckenius W. Biochemistry. 28:1989;829-834.
89. Smith S.O., De Groot H.J.M., Gebhard R., Courtin J., Lugtenburg J., Herzfeld J., Griffin R.G. Biochemistry. 28:1989;8897-8904.
90. Sasaki J., Brown L.S., Chon Y.-S., Kandori H., Maeda A., Needleman R., Lanyi J.K. Science. 269:1995;73-75.
91. Brown L.S., Needleman R., Lanyi J.K. Biochemistry. 35:1996;16048-16054.
92. Mitchell P. Science. 206:1979;1148-1159.
93. Balashov S.P., Govindjee R., Kono M., Imasheva E., Lukashev E., Ebrey T.G., Crouch R.K., Menick D.R., Feng Y. Biochemistry. 32:1993;10331-10343.
94. N. Guex, M.C. Peitsch, Swiss-PdbViewer v3.51, http://www.expasy.ch/spdbv/mainpage.html, 1997.
95. Ceska T.A. J. Struct. Biol. 127:1999;135-140.
96. Ceska T.A. J. Struct. Biol. 129:2000;100.