Characterization and photochemistry of 13-desmethyl bacteriorhodopsin

Journal of Physical Chemistry B

Volumn 109, Issue 33, 2005, Pages 16142-16152

  Gillespie, Nathan B ^a,b   Ren, Lei ^a,b   Ramos, Lavoisier ^a   Daniell, Heather ^a   Dews, Deborah ^a   Utzat, Karissa A ^a   Stuart, Jeffrey A ^b   Buck, Charles H ^b   Birge, Robert R ^a  

^a UNIVERSITY OF CONNECTICUT   (United States)

^b SYRACUSE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

13-DESMETHYL (DM); BACTERIORHODOPSIN (BR); CONFORMATIONAL ANALYSIS; MOLECULAR ORBITAL THEORY;

ACTIVATION ENERGY; CHROMOPHORES; CONFORMATIONS; FOURIER TRANSFORM INFRARED SPECTROSCOPY; ISOMERIZATION; LOW TEMPERATURE EFFECTS; MOLECULAR DYNAMICS; PHOTOCHEMICAL REACTIONS; PHOTONS; RELAXATION PROCESSES; THERMODYNAMIC STABILITY; WATER;

PIGMENTS;

BACTERIORHODOPSIN; HYDROGEN; PROTON;

ARTICLE; CHEMICAL STRUCTURE; CHEMISTRY; INFRARED SPECTROSCOPY; KINETICS; METABOLISM; PHOTOCHEMISTRY; RAMAN SPECTROMETRY; RETINA; THEORETICAL MODEL;

BACTERIORHODOPSINS; HYDROGEN; KINETICS; MODELS, THEORETICAL; MOLECULAR STRUCTURE; PHOTOCHEMISTRY; PROTONS; RETINA; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; SPECTRUM ANALYSIS, RAMAN;

EID: 24944444255     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp052124+     Document Type: Article

References (61)

1. Béjà, O.; Spudich, E.; Spudich, J.; Leclerc, M.; DeLong, E. Nature 2001, 411, 786.
2. Stuart, J. A.; Birge, R. R. Characterization of the primary photochemical events in bacteriorhodopsin and rhodopsin. In Biomembranes; Lee, A. G., Ed.; JAI Press: London, 1996; Vol. 2A, p 33.
3. Ebrey, T.; Koutalos, Y. Prog. Retinal Eye Res. 2001, 20, 49.
4. Lanyi, J. K. Annu. Rev. Physiol. 2004, 66, 665.
5. Ren, L.; Martin, C. H.; Wise, K. J.; Gillespie, N. B.; Luecke, H.; Lanyi, J. K.; Spudich, J. L.; Birge, R. R. Biochemistry 2001, 40, 13906.
6. Kusnetzow, A. K.; Dukkipati, A.; Babu, K. R.; Ramos, L.; Knox, B. E.; Birge, R. R. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 941.
7. Balashov, S. P. Isr. J. Chem. 1995, 35, 415.
8. Seltzer, S. J. Am. Chem. Soc. 1994, 116, 9383.
9. Hiraki, K.; Hamanaka, T.; Zheng, X.-G.; Shinada, T.; Kim, J.-M.; Yoshihara, K.; Kito, Y. Biophys. J. 2002, 83, 3460.
10. Steinberg, G.; Sheves, M.; Bressler, S.; Ottolenghi, M. Biochemistry 1994, 33, 12439.
11. Gärtner, W.; Towner, P.; Hopf, H.; Oesterhelt, D. Biochemistry 1983, 22, 2637.
12. Noguchi, T.; Kolaczkowski, S.; Gaertner, W.; Atkinson, G. H. J. Phys. Chem. 1990, 94, 4920.
13. Brack, T. L.; Gaertner, W.; Atkinson, G. H. Chem. Phys. Lett. 1992, 190, 298.
14. Tallent, J. R.; Stuart, J. A.; Song, Q. W.; Schmidt, E. J.; Martin, C. H.; Birge, R. R. Biophys. J. 1998, 75, 1619.
15. Tokunga, F.; Ebrey, T. Biochemistry 1978, 17, 1915.
16. Ahl, P.; Stem, L.; Mogi, T.; Khorana, H.; Rothschild, K. Biochemistry 1989, 28, 10028.
17. Balogh-Nair, V. Synthetic analogues to probe molecular events in visual transduction and proton pumping by bacteriorhodopsin. In Biophysical studies of retinal proteins; Ebrey, T. G., Frauenfelder, H., Honig, B., Nakanishi, K., Eds.; University of Illinois Press: 1987; p 52.
18. Beischel, C. J.; Mani, V.; Govindjee, R.; Ebrey, T. G.; Knapp, D. R.; Crouch, R. K. Photochem. Photobiol. 1991, 54, 977.
19. Braiman, M. S.; Klinger, A. L.; Doebler, R. Biophys. J. 1992, 62, 56.
20. Crouch, R.; Scott, R.; Ghent, S.; Govindjee, R.; Chang, C.; Ebrey, T. Photochem. Photobiol. 1986, 43, 297.
21. Downie, J. D.; Smithey, D. T. Optics Lett. 1996, 21, 680.
22. Duñach, M.; Marti, T.; Khorana, H.; Rothschild, K. Proc. Natl. Acad. Sci. U.S.A. 1990, 87, 9873.
23. Drachev, L.; Kaulen, A.; Khorana, H.; Mogi, T.; Postanogova, N.; Skulachev, V.; Stern, L. Biokhimiya 1992, 57, 749.
24. He, Y.; Krebs, M. P.; Fischer, W. B.; Khorana, H. G.; Rothschild, K. J. Biochemistry 1993, 32, 2282.
25. Heyne, K.; Herbst, J.; Domingez-Herradon, B.; Alexiev, U.; Diller, R. J. Phys. Chem. B 2000, 10, 6053.
26. Toth-Boconadi, R.; Keszthelyi, L.; Stoeckenius, W. Biophys. J. 2003, 84, 3848.
27. Rouhani, S.; Cartailler, J.; Facciotti, M.; Walian, P.; Needleman, R.; Lanyi, J.; Glaeser, R.; Luecke, H. J. Mol. Biol. 2001, 313, 615.
28. Weidlich, O.; Friedman, N.; Sheves, M.; Siebert, F. Biochemistry 1995, 34, 13502.
29. Weidlich, O.; Schalt, B.; Friedman, N.; Sheves, M.; Lanyi, J. K.; Brown, L. S.; Siebert, F. Biochemistry 1996, 35, 10807.
30. Weidlich, O.; Ujj, L.; Jager, F.; Atkinson, G. H. Biophys. J. 1997, 72, 2329.
31. Harbison, G. S.; Smith, S. O.; Pardoen, J. A.; Winkel, J.; Lugtenburg, J.; Herzfeld, J.; Mathies, R. A.; Griffin, R. G. Proc. Natl. Acad. Sci. U.S.A. 1984, 81, 1706.
32. Scherrer, P.; Mathew, M. K.; Sperling, W.; Stoeckenius, W. Isomer ratio in dark-adapted bacteriorhodopsin. In Biophysical studies of retinal proteins; Ebrey, T. G., Frauenfelder, H., Honig, B., Nakanishi, K., Eds.; University of Illinois Press: 1987; p 206.
33. Popp, A.; Wolperdinger, M.; Hampp, N.; Bräuchle, C.; Oesterhelt, D. Biophys. J. 1993, 65, 1449.
34. Gillespie, N. B.; Wise, K. J.; Ren, L.; Stuart, J. A.; Marcy, D. L.; Hillebrecht, J.; Li, Q.; Ramos, L.; Jordan, K.; Fyvie, S.; Birge, R. R. J. Phys. Chem. B 2002, 106, 13352.
35. Birge, R. R.; Gillespie, N. B.; Izaguirre, E. W.; Kusnetzow, A.; Lawrence, A. F.; Singh, D.; Song, Q. W.; Schmidt, E.; Stuart, J. A.; Seetharaman, S.; Wise, K. J. J. Phys. Chem. B. 1999, 103, 10746.
36. Dancshazy, Z.; Tokaji, Z.; Der, A. FEBS Lett. 1999, 450, 154.
37. Gärtner, W.; Oesterhelt, D.; Vogel, J.; Maurer, R.; Schneider, S. Biochemistry 1988, 27, 3497.
38. Zinth, W. D., Jr.; Franz, M. A.; Kaiser, W. The primary steps of photosynthesis in Bacteriorhodopsin. In Spectroscopy of Biological Molecules-New Advances; Schmid, E. D., Schneider, F. W., Siebert, F., Eds.; Wiley: New York, 1988; p 269.
39. Scherrer, P.; Mathew, M. K.; Sperling, W.; Stoeckenius, W. Biochemistry 1989, 28, 829.
40. van den Tempel, P. J.; Huisman, H. O. Tetrahedron 1966, 22, 293.
41. Becher, B. M.; Cassim, J. Y. Prepr. Biochem. 1975, 5, 161.
42. Oesterhelt, D.; Stoeckenius, W. Methods Enzymol. 1974, 31, 667.
43. Luecke, H.; Schobert, B.; Richter, H. T.; Cartailler, J. P.; Lanyi, J. K. J. Mol. Biol. 1999, 297, 899.
44. Group, C. CAChe(r); Version 5.0 ed.; Fujitsu: Beaverton, Oregon, USA, 2001.
45. Sasaki, J.; Lanyi, J.; Needleman, R.; Yoshizawa, T.; Maeda, A. Biochemistry 1994, 33, 3178.
46. Brown, L. S.; Varo, G.; Hatanaka, M.; Sasaki, J.; Kandori, H.; Maeda, A.; Friedman, N.; Sheves, M.; Needleman, R.; Lanyi, J. K. Biochemistry 1995, 34, 12903.
47. Brown, L. S.; Sasaki, J.; Kandori, H.; Maeda, A.; Needleman, R.; Lanyi, J. K. J. Biol. Chem. 1995, 270, 27122.
48. Stewart, J. J. P. THEOCHEM 1997, 1997, 195.
49. Stewart, J. J. P. Int. J. Quantum Chem. 1996, 58, 133.
50. Birge, R. R.; Parsons, B.; Song, Q. W.; Tallent, J. R. Protein-based three-dimensional memories and associative processors. In Molecular Electronics; Ratner, M. A., Jortner, J., Eds.; Blackweel Science Ltd.: Oxford, 1997; p 439.
51. Birge, R. R.; Govender, D. S. K.; Gross, R. B.; Lawrence, A. F.; Stuart, J. A.; Tallent, J. R.; Tan, E.; Vought, B. W. IEEE IEDM Technical Digest 1994, 94, 3.
52. Rüdiger, M.; Tittor, J.; Gerwert, K.; Oesterhelt, D. Biochemistry 1997, 36, 4867.
53. Smith, S. O.; Braiman, M. S.; Myers, A. B.; Pardoen, J. A.; Courtin, J. M. L. J. Am. Chem. Soc. 1987, 109, 3108.
54. Smith, S. O.; Pardoen, J. A.; Lugtenburg, J.; Mathies, R. A. J. Phys. Chem. 1987, 91, 804.
55. Dancshazy, Z.; Tokaji, Z. FEBS Lett. 2000, 476, 171.
56. Balashov, S. P.; Ebrey, T. G. Photochem. Photobiol. 2001, 73, 453.
57. Lanyi, J.; Luecke, H. Curr. Opin. Struct. Biol. 2001, 11, 415.
58. Yoshizawa, T. K. O. In CRC Handbook of Organic Photochemistry and Photobiology; Horspool, W. M., Song, P.-S., Eds.; CRC Press: Boca Raton, FL, 1995; p 1493.
59. Lanyi, J. K.; Schobert, B. J. Mol. Biol. 2002, 327, 727.
60. Kresheck, G. C.; Lin, C. T.; Williamson, L. N.; Mason, W. R.; Jang, D. J.; El-Sayed, M. A. J. Photochem. Photobiol., B 1990, 7, 289.
61. Muller, J.; Munster, C.; Salditt, T. Biophys. J. 2000, 78, 3208.