-
1
-
-
33947209952
-
Water structural changes in the L and M intermediates of bacteriorhodopsin as revealed by time-resolved step-scan FTIR spectroscopy
-
Morgan, J. E., A. S. Vakkasoglu, R. B. Gennis and A. Maeda (2007) Water structural changes in the L and M intermediates of bacteriorhodopsin as revealed by time-resolved step-scan FTIR spectroscopy. Biochemistry 46, 2787-2796.
-
(2007)
Biochemistry
, vol.46
, pp. 2787-2796
-
-
Morgan, J.E.1
Vakkasoglu, A.S.2
Gennis, R.B.3
Maeda, A.4
-
2
-
-
0033609904
-
Structure of bacteriorhodopsin at 1.55 Å resolution
-
Luecke, H., B. Schobert, H.-T. Richter, J.-P. Cartailler and J. K. Lanyi (1999) Structure of bacteriorhodopsin at 1.55 Å resolution. J. Mol. Biol. 291, 899-911.
-
(1999)
J. Mol. Biol
, vol.291
, pp. 899-911
-
-
Luecke, H.1
Schobert, B.2
Richter, H.-T.3
Cartailler, J.-P.4
Lanyi, J.K.5
-
3
-
-
0026725522
-
Surface-bound optical probes monitor proton translocation and surface potential changes during the bacteriorhodopsin photocyle
-
Heberle, J. and N. A. Dencher (1992) Surface-bound optical probes monitor proton translocation and surface potential changes during the bacteriorhodopsin photocyle. Proc. Natl Acad. Sci. USA 89, 5996-6000.
-
(1992)
Proc. Natl Acad. Sci. USA
, vol.89
, pp. 5996-6000
-
-
Heberle, J.1
Dencher, N.A.2
-
4
-
-
14844347271
-
Proton binding within a membrane protein by a protonated water cluster
-
Garczarek, F., L. S. Brown, J. K. Lanyi and K. Gerwert (2005) Proton binding within a membrane protein by a protonated water cluster. Proc. Natl Acad. Sci. USA 102, 3633-3638.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 3633-3638
-
-
Garczarek, F.1
Brown, L.S.2
Lanyi, J.K.3
Gerwert, K.4
-
5
-
-
0029665673
-
A linkage of the pKa's of asp-85 and glu-204 forms part of the reprotonation switch of bacteriorhodopsin
-
Richter, H.-T., L. S. Brown, R. Needleman and J. K. Lanyi (1996) A linkage of the pKa's of asp-85 and glu-204 forms part of the reprotonation switch of bacteriorhodopsin. Biochemistry 35, 4054-4062.
-
(1996)
Biochemistry
, vol.35
, pp. 4054-4062
-
-
Richter, H.-T.1
Brown, L.S.2
Needleman, R.3
Lanyi, J.K.4
-
6
-
-
0036968773
-
Crystallographic structure of the retinal and the protein after deprotonation of the Schiff base: The switch in the bacteriorhodopsin photocycle
-
Lanyi, J. K. and B. Schobert (2002) Crystallographic structure of the retinal and the protein after deprotonation of the Schiff base: The switch in the bacteriorhodopsin photocycle. J. Mol. Biol. 321, 727-737.
-
(2002)
J. Mol. Biol
, vol.321
, pp. 727-737
-
-
Lanyi, J.K.1
Schobert, B.2
-
7
-
-
0034321020
-
Proton transfer in bacteriorhodopsin: Structure, excitation, IR spectra, and potential energy surface analyses by an ab initio QM/MM method
-
Hayashi, S. and I. Ohmine (2000) Proton transfer in bacteriorhodopsin: Structure, excitation, IR spectra, and potential energy surface analyses by an ab initio QM/MM method. J. Phys. Chem. B 104, 10678-10691.
-
(2000)
J. Phys. Chem. B
, vol.104
, pp. 10678-10691
-
-
Hayashi, S.1
Ohmine, I.2
-
8
-
-
7744225102
-
Key role of electrostatic interactions in bacteriorhodopsin proton transfer
-
Bondar, A.-N., S. Fischer, J. C. Smith, M. Elstner and S. Suhai (2004) Key role of electrostatic interactions in bacteriorhodopsin proton transfer. J. Am. Chem. Soc. 126, 14668-14677.
-
(2004)
J. Am. Chem. Soc
, vol.126
, pp. 14668-14677
-
-
Bondar, A.-N.1
Fischer, S.2
Smith, J.C.3
Elstner, M.4
Suhai, S.5
-
9
-
-
33847250470
-
Suppression of the back proton-transfer from Asp85 to the retinal Schiff base in bacteriorhodopsin: A theoretical analysis of structural elements
-
Bondar, A.-N., S. Suhai, S. Fischer, J. C. Smith and M. Elstner (2007) Suppression of the back proton-transfer from Asp85 to the retinal Schiff base in bacteriorhodopsin: A theoretical analysis of structural elements. Struct. Biol. 57, 454-469.
-
(2007)
Struct. Biol
, vol.57
, pp. 454-469
-
-
Bondar, A.-N.1
Suhai, S.2
Fischer, S.3
Smith, J.C.4
Elstner, M.5
-
10
-
-
1242274581
-
Dynamics of proton transfer in bacteriorhodopsin
-
Lee, Y.-S. and M. Krauss (2004) Dynamics of proton transfer in bacteriorhodopsin. J. Am. Chem. Soc. 126, 2225-2230.
-
(2004)
J. Am. Chem. Soc
, vol.126
, pp. 2225-2230
-
-
Lee, Y.-S.1
Krauss, M.2
-
11
-
-
0022718628
-
Controlling the pKa of the bacteriorhodopsin Schiff base by use of artificial retinal analogues
-
Sheves, M., A. Albeck, N. Friedman and M. Ottolenghi (1986) Controlling the pKa of the bacteriorhodopsin Schiff base by use of artificial retinal analogues. Proc. Natl Acad. Sci. USA 83, 3262-3266.
-
(1986)
Proc. Natl Acad. Sci. USA
, vol.83
, pp. 3262-3266
-
-
Sheves, M.1
Albeck, A.2
Friedman, N.3
Ottolenghi, M.4
-
13
-
-
0036089699
-
Magnetic resonance studies on the bacteriorhodopsin pump cycle
-
Hezfeld, J. and J. C. Lansing (2002) Magnetic resonance studies on the bacteriorhodopsin pump cycle. Annu. Rev. Biophys. Biomol. Struct. 31, 73-95.
-
(2002)
Annu. Rev. Biophys. Biomol. Struct
, vol.31
, pp. 73-95
-
-
Hezfeld, J.1
Lansing, J.C.2
-
14
-
-
0025157075
-
Protonation state of Asp (Glu)-85 regulates the purple-to-blue transition in bacteriorhodopsin mutants Arg-82 fi Ala and Asp-85 fi Glu: The blue form is inactive in proton translocation
-
Subramaniam, S., T. Marti and H. G. Khorana (1990) Protonation state of Asp (Glu)-85 regulates the purple-to-blue transition in bacteriorhodopsin mutants Arg-82 fi Ala and Asp-85 fi Glu: The blue form is inactive in proton translocation. Proc. Natl Acad. Sci. USA 87, 1013-1017.
-
(1990)
Proc. Natl Acad. Sci. USA
, vol.87
, pp. 1013-1017
-
-
Subramaniam, S.1
Marti, T.2
Khorana, H.G.3
-
15
-
-
0024280218
-
Chromophore structure in bacteriorhodpsin's N intermediate: Implications for the proton pumping mechanism
-
Fodor, S. P. A., J. B. Ames, R. Gebhard, E. M. M. van den Berg, W. Stoeckenius, J. Lugtenburg and R. A. Mathies (1988) Chromophore structure in bacteriorhodpsin's N intermediate: Implications for the proton pumping mechanism. Biochemistry 27, 7097-7101.
-
(1988)
Biochemistry
, vol.27
, pp. 7097-7101
-
-
Fodor, S.P.A.1
Ames, J.B.2
Gebhard, R.3
van den Berg, E.M.M.4
Stoeckenius, W.5
Lugtenburg, J.6
Mathies, R.A.7
-
16
-
-
0024959624
-
412 intermediate contains a 13-cis, 14-s-trans, 15-antiretinal Schiff base chromophore
-
412 intermediate contains a 13-cis, 14-s-trans, 15-antiretinal Schiff base chromophore. Biochemistry 28, 3681-3687.
-
(1989)
Biochemistry
, vol.28
, pp. 3681-3687
-
-
Ames, A.B.1
Fodor, S.P.A.2
Gebhard, R.3
Raap, J.4
van den Berg, E.M.M.5
Lugtenburg, J.6
Mathies, R.A.7
-
17
-
-
0026602025
-
Water structural changes in the bacteriorhodopsin photocycle: Analysis by Fourier-transform infrared spectroscopy
-
Maeda, A., J. Sasaki, Y. Shichida and T. Yoshizawa (1992) Water structural changes in the bacteriorhodopsin photocycle: Analysis by Fourier-transform infrared spectroscopy. Biochemistry 31, 462-467.
-
(1992)
Biochemistry
, vol.31
, pp. 462-467
-
-
Maeda, A.1
Sasaki, J.2
Shichida, Y.3
Yoshizawa, T.4
-
18
-
-
0037432333
-
Water molecule rearrangements around Leu93 and Trp182 in the formation of the L intermediate in bacteriorhodopsin's photocycle
-
Maeda, A., F. L. Tomson, R. B. Gennis, S. P. Balashov and T. G. Ebrey (2003) Water molecule rearrangements around Leu93 and Trp182 in the formation of the L intermediate in bacteriorhodopsin's photocycle. Biochemistry 42, 2535-2541.
-
(2003)
Biochemistry
, vol.42
, pp. 2535-2541
-
-
Maeda, A.1
Tomson, F.L.2
Gennis, R.B.3
Balashov, S.P.4
Ebrey, T.G.5
-
20
-
-
33846519913
-
Participation of internal water molecules and clusters in the unidirectional lightinduced proton transfer in bacteriorhodopsin
-
Edited by M. Wada, K. Shimazaki and M. Iino, pp, Springer Verlag, Tokyo
-
Maeda, A., S. P. Balashov and T. G. Ebrey (2005) Participation of internal water molecules and clusters in the unidirectional lightinduced proton transfer in bacteriorhodopsin. In Light Sensing in Plants (Edited by M. Wada, K. Shimazaki and M. Iino), pp. 213-221. Springer Verlag, Tokyo.
-
(2005)
Light Sensing in Plants
, pp. 213-221
-
-
Maeda, A.1
Balashov, S.P.2
Ebrey, T.G.3
-
21
-
-
33846467755
-
Water as a cofactor in the unidirectional light-driven proton transfer steps in bacteriorhodopsin
-
Maeda, A., J. E. Morgan, R. B. Gennis and T. G. Ebrey (2006) Water as a cofactor in the unidirectional light-driven proton transfer steps in bacteriorhodopsin. Photochem. Photobiol. 82, 1396-1405.
-
(2006)
Photochem. Photobiol
, vol.82
, pp. 1396-1405
-
-
Maeda, A.1
Morgan, J.E.2
Gennis, R.B.3
Ebrey, T.G.4
-
22
-
-
0029033911
-
Water structural changes at the proton uptake site (the Thr46-Asp96 domain) in the L intermediate of bacteriorhodopsin
-
Yamazaki, Y., M. Hatanaka, H. Kandori, J. Sasaki, W. F. J. Karstens, J. Raap, J. Lugtenburg, M. Bizounok, J. Herzfeld, R. Needleman, J. K. Lanyi and A. Maeda (1995) Water structural changes at the proton uptake site (the Thr46-Asp96 domain) in the L intermediate of bacteriorhodopsin. Biochemistry 34, 7088-7093.
-
(1995)
Biochemistry
, vol.34
, pp. 7088-7093
-
-
Yamazaki, Y.1
Hatanaka, M.2
Kandori, H.3
Sasaki, J.4
Karstens, W.F.J.5
Raap, J.6
Lugtenburg, J.7
Bizounok, M.8
Herzfeld, J.9
Needleman, R.10
Lanyi, J.K.11
Maeda, A.12
-
23
-
-
0028134307
-
The retinal Schiff base-counterion complex of bacteriorhodopsin: Changed geometry during the photocycle is a cause of proton transfer to aspartate 85
-
Brown, L. S., Y. Gat, M. Sheves, Y. Yamazaki, A. Maeda, R. Needleman and J. K. Lanyi (1994) The retinal Schiff base-counterion complex of bacteriorhodopsin: Changed geometry during the photocycle is a cause of proton transfer to aspartate 85. Biochemistry 33, 12001-12011.
-
(1994)
Biochemistry
, vol.33
, pp. 12001-12011
-
-
Brown, L.S.1
Gat, Y.2
Sheves, M.3
Yamazaki, Y.4
Maeda, A.5
Needleman, R.6
Lanyi, J.K.7
-
24
-
-
0029757992
-
Thermodynamic stability of water molecules in the bacteriorhodopsin proton channel: A molecular dynamics free energy perturbation study
-
Roux, B., M. Nina, R. Pomes and J. C. Smith (1996) Thermodynamic stability of water molecules in the bacteriorhodopsin proton channel: A molecular dynamics free energy perturbation study. Biophys. J. 71, 670-681.
-
(1996)
Biophys. J
, vol.71
, pp. 670-681
-
-
Roux, B.1
Nina, M.2
Pomes, R.3
Smith, J.C.4
-
25
-
-
0346366810
-
Crystal structure of the L intermediate of bacteriorhodopsin: Evidence for vertical translocation of a water molecule during the proton pumping cycle
-
Kouyama, T., T. Nishikawa, T. Tokuhisa and H. Okumura (2004) Crystal structure of the L intermediate of bacteriorhodopsin: Evidence for vertical translocation of a water molecule during the proton pumping cycle. J. Mol. Biol. 335, 531-546.
-
(2004)
J. Mol. Biol
, vol.335
, pp. 531-546
-
-
Kouyama, T.1
Nishikawa, T.2
Tokuhisa, T.3
Okumura, H.4
-
26
-
-
0344629882
-
Water-mediated hydrogenbonded network on the cytoplasmic side of the Schiff base of the L photointermediate of bacteriorhodopsin
-
Maeda, A., J. Herzfeld, M. Belenky, R. Needleman, R. B. Gennis, S. P. Balashov and T. G. Ebrey (2003) Water-mediated hydrogenbonded network on the cytoplasmic side of the Schiff base of the L photointermediate of bacteriorhodopsin. Biochemistry 42, 14122-14129.
-
(2003)
Biochemistry
, vol.42
, pp. 14122-14129
-
-
Maeda, A.1
Herzfeld, J.2
Belenky, M.3
Needleman, R.4
Gennis, R.B.5
Balashov, S.P.6
Ebrey, T.G.7
-
27
-
-
0033529250
-
Chromophore-protein-water interactions in the L intermediate of bacteriorhodopsin: FTIR study of the photoreaction of L at 80 K
-
Maeda, A., F. L. Tomson, R. B. Gennis, T. G. Ebrey and S. P. Balashov (1999) Chromophore-protein-water interactions in the L intermediate of bacteriorhodopsin: FTIR study of the photoreaction of L at 80 K. Biochemistry 38, 8800-8807.
-
(1999)
Biochemistry
, vol.38
, pp. 8800-8807
-
-
Maeda, A.1
Tomson, F.L.2
Gennis, R.B.3
Ebrey, T.G.4
Balashov, S.P.5
-
28
-
-
0347717799
-
Deformation of helix C in the low temperature L-intermediate of bacteriorhodopsin
-
Edman, K., A. Royant, G. Larsson, F. Jacobson, T. Taylor, D. van der Spoel, E. M. Landau, E. Pebay-Peyroula and R. Neutze (2004) Deformation of helix C in the low temperature L-intermediate of bacteriorhodopsin. J. Biol. Chem. 279, 2147-2158.
-
(2004)
J. Biol. Chem
, vol.279
, pp. 2147-2158
-
-
Edman, K.1
Royant, A.2
Larsson, G.3
Jacobson, F.4
Taylor, T.5
van der Spoel, D.6
Landau, E.M.7
Pebay-Peyroula, E.8
Neutze, R.9
-
29
-
-
33845971819
-
Structural changes in the L photointermediate of bacteriorhodopsin
-
Lanyi, J. K. and B. Schobert (2007) Structural changes in the L photointermediate of bacteriorhodopsin. J. Mol. Biol. 365, 1379-1392.
-
(2007)
J. Mol. Biol
, vol.365
, pp. 1379-1392
-
-
Lanyi, J.K.1
Schobert, B.2
-
30
-
-
0019121686
-
A new pathway in the photoreaction cycle of trans-bacteriorhodopsin and the absorption spectra of its intermediates
-
Iwasa, T., F. Tokunaga and T. Yoshizawa (1980) A new pathway in the photoreaction cycle of trans-bacteriorhodopsin and the absorption spectra of its intermediates. Biophys. Struct. Mech. 6, 253-270.
-
(1980)
Biophys. Struct. Mech
, vol.6
, pp. 253-270
-
-
Iwasa, T.1
Tokunaga, F.2
Yoshizawa, T.3
-
31
-
-
0019871837
-
Environmental effects on formation and photoreaction of the M412 photoproduct of bacteriorhodopsin: Implications for the mechanism of proton pumping
-
Kalisky, O., M. Ottolenghi, B. Honig and R. Korenstein (1981) Environmental effects on formation and photoreaction of the M412 photoproduct of bacteriorhodopsin: Implications for the mechanism of proton pumping. Biochemistry 20, 649-655.
-
(1981)
Biochemistry
, vol.20
, pp. 649-655
-
-
Kalisky, O.1
Ottolenghi, M.2
Honig, B.3
Korenstein, R.4
-
32
-
-
0029861264
-
Spectrally silent transitions in the bacteriorhodopsin photocycle
-
Chizhov, I., D. S. Chernavskii, M. Engelhard, K.-H. Mueller, B. V. Zubov and B. Hess (1996) Spectrally silent transitions in the bacteriorhodopsin photocycle. Biophys. J. 71, 2329-2345.
-
(1996)
Biophys. J
, vol.71
, pp. 2329-2345
-
-
Chizhov, I.1
Chernavskii, D.S.2
Engelhard, M.3
Mueller, K.-H.4
Zubov, B.V.5
Hess, B.6
-
33
-
-
0025968915
-
Protein dynamics in the bacteriorhodopsin photocycle: Submillisecond Fourier transform infrared spectra of the L, M, and N photointermediates
-
Braiman, M. S., O. Bousche and K. J. Rothschild (1991) Protein dynamics in the bacteriorhodopsin photocycle: Submillisecond Fourier transform infrared spectra of the L, M, and N photointermediates. Proc. Natl Acad. Sci. USA 88, 2388-2392.
-
(1991)
Proc. Natl Acad. Sci. USA
, vol.88
, pp. 2388-2392
-
-
Braiman, M.S.1
Bousche, O.2
Rothschild, K.J.3
-
34
-
-
0027429642
-
A modelindependent approach to assigning bacteriorhodopsin's intramolecular reactions to photocycle intermediates
-
Heβling, B., G. Souvignir and K. Gerwert (1993) A modelindependent approach to assigning bacteriorhodopsin's intramolecular reactions to photocycle intermediates. Biophys. J. 65, 1929-1941.
-
(1993)
Biophys. J
, vol.65
, pp. 1929-1941
-
-
Heβling, B.1
Souvignir, G.2
Gerwert, K.3
-
35
-
-
0031553201
-
Infrared difference spectra of the intermediates L, M, N, and O of the bacteriorhodopsin photoreaction obtained by time-resolved attenuated total reflection spectroscopy
-
Zscherp, C. and J. Heberle (1997) Infrared difference spectra of the intermediates L, M, N, and O of the bacteriorhodopsin photoreaction obtained by time-resolved attenuated total reflection spectroscopy. J. Phys. Chem. B 101, 10542-10547.
-
(1997)
J. Phys. Chem. B
, vol.101
, pp. 10542-10547
-
-
Zscherp, C.1
Heberle, J.2
-
36
-
-
0041417311
-
Timeresolved step-scan Fourier transform infrared spectroscopy reveals differences between early and late M intermediates of bacteriorhodopsin
-
Rödig, C., I. Chizov, O. Weidlich and F. Siebert (1999) Timeresolved step-scan Fourier transform infrared spectroscopy reveals differences between early and late M intermediates of bacteriorhodopsin. Biophys. J. 76, 2687-2701.
-
(1999)
Biophys. J
, vol.76
, pp. 2687-2701
-
-
Rödig, C.1
Chizov, I.2
Weidlich, O.3
Siebert, F.4
-
38
-
-
0032502007
-
Interaction of the protonated Schiff base with the peptide backbone of valine 49 and the intervening water molecule in the N photointermediate of bacteriorhodopsin
-
Yamazaki, Y., H. Kandori, R. Needleman, J. K. Lanyi and A. Maeda (1998) Interaction of the protonated Schiff base with the peptide backbone of valine 49 and the intervening water molecule in the N photointermediate of bacteriorhodopsin. Biochemistry 37, 1559-1564.
-
(1998)
Biochemistry
, vol.37
, pp. 1559-1564
-
-
Yamazaki, Y.1
Kandori, H.2
Needleman, R.3
Lanyi, J.K.4
Maeda, A.5
-
39
-
-
0038649076
-
Crystallographic structures of the M and N intermediates of bacteriorhodopsin: Assembly of a hydrogen-bonded chain of water molecules between Asp-96 and the retinal Schiff base
-
Schobert, B., L. S. Brown and J. K. Lanyi (2003) Crystallographic structures of the M and N intermediates of bacteriorhodopsin: Assembly of a hydrogen-bonded chain of water molecules between Asp-96 and the retinal Schiff base. J. Mol. Biol. 330, 553-570.
-
(2003)
J. Mol. Biol
, vol.330
, pp. 553-570
-
-
Schobert, B.1
Brown, L.S.2
Lanyi, J.K.3
-
40
-
-
0034702762
-
Relocation of internal bound water in bacteriorhodopsin during the photoreaction of M at low temperature: An FTIR study
-
Maeda, A., F. L. Tomson, R. B. Gennis, H. Kandori, T. G. Ebrey and S. P. Balashov (2000) Relocation of internal bound water in bacteriorhodopsin during the photoreaction of M at low temperature: An FTIR study. Biochemistry 39, 10154-10162.
-
(2000)
Biochemistry
, vol.39
, pp. 10154-10162
-
-
Maeda, A.1
Tomson, F.L.2
Gennis, R.B.3
Kandori, H.4
Ebrey, T.G.5
Balashov, S.P.6
-
41
-
-
0034725554
-
Coupling photoisomerization of retinal to direction transport in bacteriorhodopsin
-
Luecke, H., B. Schobert, J.-P. Cartailler, H.-T. Richter, A. Rosengarth, R. Needleman and J. K. Lanyi (2000) Coupling photoisomerization of retinal to direction transport in bacteriorhodopsin. J. Mol. Biol. 300, 1237-1255.
-
(2000)
J. Mol. Biol
, vol.300
, pp. 1237-1255
-
-
Luecke, H.1
Schobert, B.2
Cartailler, J.-P.3
Richter, H.-T.4
Rosengarth, A.5
Needleman, R.6
Lanyi, J.K.7
-
42
-
-
0342646933
-
Structural alterations for proton translocation in the M state of wild-type bacteriorhodopsin
-
Sass, H. J., G. Bü ldt, R. Gessenich, D. Hehn, D. Neff, R. Schlessinger, J. Berendzen and P. Ormos (2000) Structural alterations for proton translocation in the M state of wild-type bacteriorhodopsin. Nature 406, 549-653.
-
(2000)
Nature
, vol.406
, pp. 549-653
-
-
Sass, H.J.1
Bü ldt, G.2
Gessenich, R.3
Hehn, D.4
Neff, D.5
Schlessinger, R.6
Berendzen, J.7
Ormos, P.8
-
43
-
-
3843096037
-
Crystal structure of the M intermediate of bacteriorhodopsin: Allosteric structural changes mediated by sliding movement of a transmembrane helix
-
Takeda, K., Y. Matsui, N. Kamiya, S. Adachi, H. Okumura and T. Kouyama (2004) Crystal structure of the M intermediate of bacteriorhodopsin: Allosteric structural changes mediated by sliding movement of a transmembrane helix. J. Mol. Biol. 341, 1023-1037.
-
(2004)
J. Mol. Biol
, vol.341
, pp. 1023-1037
-
-
Takeda, K.1
Matsui, Y.2
Kamiya, N.3
Adachi, S.4
Okumura, H.5
Kouyama, T.6
-
44
-
-
0037133499
-
Interaction of internal water molecules with the Schiff base in the L intermediate of the bacteriorhodopsin photocycle
-
Maeda, A., S. P. Balashov, J. Lugtenburg, M. A. Verhoeven, J. Herzfeld, M. Belenky, R. B. Gennis, F. L. Tomson and T. G. Ebrey (2002) Interaction of internal water molecules with the Schiff base in the L intermediate of the bacteriorhodopsin photocycle. Biochemistry 41, 3803-3809.
-
(2002)
Biochemistry
, vol.41
, pp. 3803-3809
-
-
Maeda, A.1
Balashov, S.P.2
Lugtenburg, J.3
Verhoeven, M.A.4
Herzfeld, J.5
Belenky, M.6
Gennis, R.B.7
Tomson, F.L.8
Ebrey, T.G.9
-
45
-
-
84989669798
-
Fourier transform infrared spectral studies on the Schiff base mode of all-trans bacteriorhodopsin and its photointermediates, K and L
-
Maeda, A., J. Sasaki, J.-M. Pfefferlé , Y. Shichida and T. Yoshizawa (1991) Fourier transform infrared spectral studies on the Schiff base mode of all-trans bacteriorhodopsin and its photointermediates, K and L. Photochem. Photobiol. 54, 911-921.
-
(1991)
Photochem. Photobiol
, vol.54
, pp. 911-921
-
-
Maeda, A.1
Sasaki, J.2
Pfefferlé, J.-M.3
Shichida, Y.4
Yoshizawa, T.5
-
46
-
-
0000311181
-
Evidence for light-induced 13-cis, 14-s-cis isomerization in bacteriorhodopsin obtained by FTIR difference spectroscopy using isotopically labeled retinal
-
Gerwert, K. and F. Siebert (1986) Evidence for light-induced 13-cis, 14-s-cis isomerization in bacteriorhodopsin obtained by FTIR difference spectroscopy using isotopically labeled retinal. EMBO J. 5, 805-811.
-
(1986)
EMBO J
, vol.5
, pp. 805-811
-
-
Gerwert, K.1
Siebert, F.2
-
47
-
-
0022523222
-
Are C14-C15 single bond isomerization of the retinal chromophore involved in the proton-pumping mechanism of bacteriorhodopsin?
-
Smith, S. O., I. Hornung, R. van der Steen, J. A. Pardoen, M. S. Braiman, J. Lugtenburg and R. A. Mathies (1986) Are C14-C15 single bond isomerization of the retinal chromophore involved in the proton-pumping mechanism of bacteriorhodopsin? Proc. Natl Acad. Sci. USA 83, 967-971.
-
(1986)
Proc. Natl Acad. Sci. USA
, vol.83
, pp. 967-971
-
-
Smith, S.O.1
Hornung, I.2
van der Steen, R.3
Pardoen, J.A.4
Braiman, M.S.5
Lugtenburg, J.6
Mathies, R.A.7
-
48
-
-
0001303527
-
Synthesis and vibrational analysis of a locked 14-s-cis conformer of retinal
-
Cromwell, M. E. M., R. Gebhard, X.-Y. Li, E. S. Batenburg, J. C. P. Hopman, J. Lugtenburg and R. A. Mathies (1992) Synthesis and vibrational analysis of a locked 14-s-cis conformer of retinal. J. Am. Chem. Soc. 114, 10860-10869.
-
(1992)
J. Am. Chem. Soc
, vol.114
, pp. 10860-10869
-
-
Cromwell, M.E.M.1
Gebhard, R.2
Li, X.-Y.3
Batenburg, E.S.4
Hopman, J.C.P.5
Lugtenburg, J.6
Mathies, R.A.7
-
49
-
-
0025868156
-
Fourier transform infrared study of the N intermediate of bacteriorhodopsin
-
Pfefferlé , J.-M., A. Maeda, J. Sasaki and T. Yoshizawa (1991) Fourier transform infrared study of the N intermediate of bacteriorhodopsin. Biochemistry 30, 6548-6556.
-
(1991)
Biochemistry
, vol.30
, pp. 6548-6556
-
-
Pfefferlé, J.-M.1
Maeda, A.2
Sasaki, J.3
Yoshizawa, T.4
-
50
-
-
0030741221
-
The predischarge chromophore in bacteriorhodopsin: A 15N solid-state NMR study of the L photointermediate
-
Hu, J. G., B. Q. Sun, A. T. Petkova, R. G. Griffin and J. Herzfeld (1997) The predischarge chromophore in bacteriorhodopsin: A 15N solid-state NMR study of the L photointermediate. Biochemistry 36, 9316-9322.
-
(1997)
Biochemistry
, vol.36
, pp. 9316-9322
-
-
Hu, J.G.1
Sun, B.Q.2
Petkova, A.T.3
Griffin, R.G.4
Herzfeld, J.5
-
51
-
-
0021352893
-
Determination of retinal Schiff base configuration in bacteriorhodopsin
-
Smith, S. O., A. B. Meyers, J. A. Pardoen, C. Winkel, P. P. J. Mulder, J. Lugtenburg and R. A. Mathies (1984) Determination of retinal Schiff base configuration in bacteriorhodopsin. Proc. Natl Acad. Sci. USA 81, 2055-2059.
-
(1984)
Proc. Natl Acad. Sci. USA
, vol.81
, pp. 2055-2059
-
-
Smith, S.O.1
Meyers, A.B.2
Pardoen, J.A.3
Winkel, C.4
Mulder, P.P.J.5
Lugtenburg, J.6
Mathies, R.A.7
-
52
-
-
0037080338
-
Chromophore distortions in the bacteriorhodopsin photocycle: Evolution of the H-C14-C15-H dihedral angle measured by solid state NMR
-
Lansing, J. C., M. Hohwy, C. P. Jaroniec, A. F. L. Creemers, J. Lugtenburg, J. Herzfeld and R. G. Griffin (2002) Chromophore distortions in the bacteriorhodopsin photocycle: Evolution of the H-C14-C15-H dihedral angle measured by solid state NMR. Biochemistry 41, 431-438.
-
(2002)
Biochemistry
, vol.41
, pp. 431-438
-
-
Lansing, J.C.1
Hohwy, M.2
Jaroniec, C.P.3
Creemers, A.F.L.4
Lugtenburg, J.5
Herzfeld, J.6
Griffin, R.G.7
-
53
-
-
0027491027
-
Thermal motions and function of bacteriorhodopsin in purple membranes: Effects of temperature and hydration studied by neutron scattering
-
Ferrand, M., A. J. Dianoux, W. Petry and G. Zaccai (1993) Thermal motions and function of bacteriorhodopsin in purple membranes: Effects of temperature and hydration studied by neutron scattering. Proc. Natl Acad. Sci. USA 90, 9668-9672.
-
(1993)
Proc. Natl Acad. Sci. USA
, vol.90
, pp. 9668-9672
-
-
Ferrand, M.1
Dianoux, A.J.2
Petry, W.3
Zaccai, G.4
-
54
-
-
33644924622
-
A priori resolution of the intermediate spectra in the bacteriorhodopsin photocycle: The time evolution of the L spectrum revealed
-
Zimanyi, L., J. Saltiel, L. S. Brown and J. K. Lanyi (2006) A priori resolution of the intermediate spectra in the bacteriorhodopsin photocycle: The time evolution of the L spectrum revealed. J. Phys. Chem. A 110, 2318-2321.
-
(2006)
J. Phys. Chem. A
, vol.110
, pp. 2318-2321
-
-
Zimanyi, L.1
Saltiel, J.2
Brown, L.S.3
Lanyi, J.K.4
-
55
-
-
33751156797
-
Protein dynamics in the bacteriorhodopsin photocycle: A nanosecond step-scan FTIR investigation of the KL to L transition
-
Hage, W., M. Kim, H. Frei and R. A. Mathies (1996) Protein dynamics in the bacteriorhodopsin photocycle: A nanosecond step-scan FTIR investigation of the KL to L transition. J. Phys. Chem. 100, 16026-16033.
-
(1996)
J. Phys. Chem
, vol.100
, pp. 16026-16033
-
-
Hage, W.1
Kim, M.2
Frei, H.3
Mathies, R.A.4
-
56
-
-
17644426679
-
Relocation of water molecules between the Schiff base and the Thr46-Asp96 region during light-driven unidirectional proton transport by bacteriorhodopsin: An FTIR study of the N intermediate
-
Maeda, A., R. B. Gennis, S. P. Balashov and T. G. Ebrey (2005) Relocation of water molecules between the Schiff base and the Thr46-Asp96 region during light-driven unidirectional proton transport by bacteriorhodopsin: An FTIR study of the N intermediate. Biochemistry 44, 5960-5968.
-
(2005)
Biochemistry
, vol.44
, pp. 5960-5968
-
-
Maeda, A.1
Gennis, R.B.2
Balashov, S.P.3
Ebrey, T.G.4
-
57
-
-
0025871066
-
Kinetics and spectroscopic evidence for an irreversible step between deprotonation and reprotonation of the Schiff base in the bacteriorhodopsin photocycle
-
Véró , G. and J. K. Lanyi (1991) Kinetics and spectroscopic evidence for an irreversible step between deprotonation and reprotonation of the Schiff base in the bacteriorhodopsin photocycle. Biochemistry 30, 5008-5015.
-
(1991)
Biochemistry
, vol.30
, pp. 5008-5015
-
-
Véró, G.1
Lanyi, J.K.2
-
58
-
-
0025820289
-
Thermodynamics and energy coupling in the bacteriorhodopsin photocycle
-
Véró , G. and J. K. Lanyi (1991) Thermodynamics and energy coupling in the bacteriorhodopsin photocycle. Biochemistry 30, 5016-5022.
-
(1991)
Biochemistry
, vol.30
, pp. 5016-5022
-
-
Véró, G.1
Lanyi, J.K.2
-
59
-
-
0030069626
-
Titration of aspartate-85 in bacteriorhodopsin: What it says about chromophore isomerization and proton release
-
Balashov, S. P., E. S. Imasheva, R. Govindjee and T. G. Ebrey (1996) Titration of aspartate-85 in bacteriorhodopsin: What it says about chromophore isomerization and proton release. Biophys. J. 70, 473-481.
-
(1996)
Biophys. J
, vol.70
, pp. 473-481
-
-
Balashov, S.P.1
Imasheva, E.S.2
Govindjee, R.3
Ebrey, T.G.4
-
60
-
-
0024282741
-
Bacteriorhodopsin photoreaction: Identification of a long-lived intermediate N (P, R350) at high pH and its M-like photoproduct
-
Kouyama, T., A. Nasuda-Kouyama, A. Ikegami, M. K. Mathew and W. Stoeckenius (1988) Bacteriorhodopsin photoreaction: Identification of a long-lived intermediate N (P, R350) at high pH and its M-like photoproduct. Biochemistry 27, 5855-5863.
-
(1988)
Biochemistry
, vol.27
, pp. 5855-5863
-
-
Kouyama, T.1
Nasuda-Kouyama, A.2
Ikegami, A.3
Mathew, M.K.4
Stoeckenius, W.5
-
61
-
-
0030087861
-
a increase of the chromophore counterion in bacteriorhodopsin: Implications for ion transport mechanisms of retinal proteins
-
a increase of the chromophore counterion in bacteriorhodopsin: Implications for ion transport mechanisms of retinal proteins. Biophys. J. 70, 939-946.
-
(1996)
Biophys. J
, vol.70
, pp. 939-946
-
-
Braiman, M.S.1
Dioumaev, A.2
Lewis, J.R.3
-
62
-
-
0029864761
-
a of the retinal Schiff base during the photocycle of bacteriorhodopsin
-
a of the retinal Schiff base during the photocycle of bacteriorhodopsin. Proc. Natl Acad. Sci. USA 93, 1731-1734.
-
(1996)
Proc. Natl Acad. Sci. USA
, vol.93
, pp. 1731-1734
-
-
Brown, L.S.1
Lanyi, J.K.2
-
64
-
-
0027457063
-
a of Asp-96 which follows a protein backbone conformational change
-
a of Asp-96 which follows a protein backbone conformational change. Biochemistry 32, 1981-1990.
-
(1993)
Biochemistry
, vol.32
, pp. 1981-1990
-
-
Cao, Y.1
Vé ró, G.2
Klinger, A.L.3
Czajkowsky, D.M.4
Braiman, M.S.5
Needleman, R.6
Lanyi, J.K.7
-
65
-
-
0028804793
-
Intramolecular charge transfer in the bacteriorhodopsin mutants Asp85 → Asn and Asp212 fi Asn: Effects of pH and anions
-
Moltke, S., M. P. Krebs, R. Mollaaghababa, H. G. Khorana and M. P. Heyn (1995) Intramolecular charge transfer in the bacteriorhodopsin mutants Asp85 → Asn and Asp212 fi Asn: Effects of pH and anions. Biophys. J. 69, 2074-2083.
-
(1995)
Biophys. J
, vol.69
, pp. 2074-2083
-
-
Moltke, S.1
Krebs, M.P.2
Mollaaghababa, R.3
Khorana, H.G.4
Heyn, M.P.5
-
66
-
-
34347224775
-
Halide binding by the D212N mutant of bacteriorhodopsin affects hydrogen bonding of water in the active site
-
Shibata, M., M. Yoshitugu, N. Mizuide, K. Ihara and H. Kandori (2007) Halide binding by the D212N mutant of bacteriorhodopsin affects hydrogen bonding of water in the active site. Biochemistry 46, 7525-7535.
-
(2007)
Biochemistry
, vol.46
, pp. 7525-7535
-
-
Shibata, M.1
Yoshitugu, M.2
Mizuide, N.3
Ihara, K.4
Kandori, H.5
-
67
-
-
0028783627
-
The complex extracellular domain regulates the deprotonation and reprotonation of the retinal Schiff base during the bacteriorhodopsin photocycle
-
Brown, L. S., G. Vé ró , M. Hatanaka, J. Sasaki, H. Kandori, A. Maeda, N. Friedman, M. Sheves, R. Needleman and J. K. Lanyi (1995) The complex extracellular domain regulates the deprotonation and reprotonation of the retinal Schiff base during the bacteriorhodopsin photocycle. Biochemistry 34, 12903-12911.
-
(1995)
Biochemistry
, vol.34
, pp. 12903-12911
-
-
Brown, L.S.1
Vé ró, G.2
Hatanaka, M.3
Sasaki, J.4
Kandori, H.5
Maeda, A.6
Friedman, N.7
Sheves, M.8
Needleman, R.9
Lanyi, J.K.10
-
68
-
-
0027453982
-
Effect of the arginine-82 to alanine mutation in bacteriorhodopsin on dark adaptation, proton release, and the photochemical cycle
-
Balashov, S. P., R. Govindjee, M. Kono, E. S. Imasheva, E. Lukashev, T. G. Ebrey, R. K. Crouch, D. R. Menick and Y. Feng (1993) Effect of the arginine-82 to alanine mutation in bacteriorhodopsin on dark adaptation, proton release, and the photochemical cycle. Biochemistry 32, 10331-10343.
-
(1993)
Biochemistry
, vol.32
, pp. 10331-10343
-
-
Balashov, S.P.1
Govindjee, R.2
Kono, M.3
Imasheva, E.S.4
Lukashev, E.5
Ebrey, T.G.6
Crouch, R.K.7
Menick, D.R.8
Feng, Y.9
-
69
-
-
0028864699
-
Glutamic acid 204 in the terminal proton release group at the extracellular surface of bacteriorhodopsin
-
Brown, L. S., J. Sasaki, H. Kandori, A. Maeda, R. Needleman and J. K. Lanyi (1995) Glutamic acid 204 in the terminal proton release group at the extracellular surface of bacteriorhodopsin. J. Biol. Chem. 270, 27122-27126.
-
(1995)
J. Biol. Chem
, vol.270
, pp. 27122-27126
-
-
Brown, L.S.1
Sasaki, J.2
Kandori, H.3
Maeda, A.4
Needleman, R.5
Lanyi, J.K.6
-
70
-
-
0034029916
-
-
Lazarova, T., C. Sanz, E. Querol and E. Padró s (2000) Fourier transform infrared evidence for early deprotonation of Asp85 at alkaline pH in the photocycle of bacteriorhodopsin mutants containing E194Q. Biophys. J. 78, 2022-2030.
-
Lazarova, T., C. Sanz, E. Querol and E. Padró s (2000) Fourier transform infrared evidence for early deprotonation of Asp85 at alkaline pH in the photocycle of bacteriorhodopsin mutants containing E194Q. Biophys. J. 78, 2022-2030.
-
-
-
-
71
-
-
0035201708
-
Structure of an early intermediate in the M state phase of the bacteriorhodopsin photocycle
-
Facciotti, M. T., S. Rouhani, F. T. Burkard, F. M. Betancourt, K. H. Downing, R. B. Rose, G. McDermott and R. M. Glaeser (2001) Structure of an early intermediate in the M state phase of the bacteriorhodopsin photocycle. Biophys. J. 81, 3442-3455.
-
(2001)
Biophys. J
, vol.81
, pp. 3442-3455
-
-
Facciotti, M.T.1
Rouhani, S.2
Burkard, F.T.3
Betancourt, F.M.4
Downing, K.H.5
Rose, R.B.6
McDermott, G.7
Glaeser, R.M.8
-
73
-
-
0030780883
-
The role of water in the extracellular half channel of bacteriorhodopsin
-
Ganea, C., C. Gergely, K. Ludmann and G. Vé ró (1997) The role of water in the extracellular half channel of bacteriorhodopsin. Biophys. J. 73, 2718-2726.
-
(1997)
Biophys. J
, vol.73
, pp. 2718-2726
-
-
Ganea, C.1
Gergely, C.2
Ludmann, K.3
Vé ró, G.4
-
74
-
-
0028279038
-
Interaction of aspartate-85 with a water molecule and the protonated Schiff base in the L intermediate of bacteriorhodopsin: A Fourier transform infrared spectroscopic study
-
Maeda, A., J. Sasaki, Y. Yamazaki, R. Needleman and J. K. Lanyi (1994) Interaction of aspartate-85 with a water molecule and the protonated Schiff base in the L intermediate of bacteriorhodopsin: A Fourier transform infrared spectroscopic study. Biochemistry 33, 1713-1717.
-
(1994)
Biochemistry
, vol.33
, pp. 1713-1717
-
-
Maeda, A.1
Sasaki, J.2
Yamazaki, Y.3
Needleman, R.4
Lanyi, J.K.5
-
75
-
-
30144445932
-
Functional waters in intraprotein proton transfer monitored by FTIR difference spectroscopy
-
Garczarek, F. and K. Gerwert (2006) Functional waters in intraprotein proton transfer monitored by FTIR difference spectroscopy. Nature 439, 109-112.
-
(2006)
Nature
, vol.439
, pp. 109-112
-
-
Garczarek, F.1
Gerwert, K.2
-
76
-
-
0030610908
-
Trp86 → Phe replacement in bacteriorhodopsin affects a water molecule near Asp85 and light adaptation
-
Hatanaka, M., R. Kashima, H. Kandori, N. Friedman, M. Sheves, R. Needleman, J. K. Lanyi and A. Maeda (1997) Trp86 → Phe replacement in bacteriorhodopsin affects a water molecule near Asp85 and light adaptation. Biochemistry 36, 5493-5498.
-
(1997)
Biochemistry
, vol.36
, pp. 5493-5498
-
-
Hatanaka, M.1
Kashima, R.2
Kandori, H.3
Friedman, N.4
Sheves, M.5
Needleman, R.6
Lanyi, J.K.7
Maeda, A.8
-
77
-
-
0033536594
-
Structural changes in bacteriorhodopsin during ion transport at 2 angstrom resolution
-
Luecke, H., B. Schobert, H.-T. Richter, J.-P. Cartailler and J. K. Lanyi (1999) Structural changes in bacteriorhodopsin during ion transport at 2 angstrom resolution. Science 286, 255-260.
-
(1999)
Science
, vol.286
, pp. 255-260
-
-
Luecke, H.1
Schobert, B.2
Richter, H.-T.3
Cartailler, J.-P.4
Lanyi, J.K.5
-
78
-
-
0028831116
-
Modeling vibrational spectra of amino acid side chains in proteins: The carbonyl stretch frequency of buried carboxylic residues
-
Dioumaev, A. K. and M. Braiman (1995) Modeling vibrational spectra of amino acid side chains in proteins: The carbonyl stretch frequency of buried carboxylic residues. J. Am. Chem. Soc. 117, 10572-10574.
-
(1995)
J. Am. Chem. Soc
, vol.117
, pp. 10572-10574
-
-
Dioumaev, A.K.1
Braiman, M.2
-
79
-
-
0032562215
-
Existence of a proton transfer chain in bacteriorhodopsin: Participation of Glu-194 in the release of protons to the extracellular surface
-
Dioumaev, A. K., H.-T. Richter, L. S. Brown, M. Tanio, S. Tuzi, H. Saito , Y. Kimura, R. Needleman and J. K. Lany (1998) Existence of a proton transfer chain in bacteriorhodopsin: Participation of Glu-194 in the release of protons to the extracellular surface. Biochemistry 37, 2496-2506.
-
(1998)
Biochemistry
, vol.37
, pp. 2496-2506
-
-
Dioumaev, A.K.1
Richter, H.-T.2
Brown, L.S.3
Tanio, M.4
Tuzi, S.5
Saito, H.6
Kimura, Y.7
Needleman, R.8
Lany, J.K.9
-
80
-
-
0012293235
-
-
DeLano Scientific, San Carlos, CA
-
DeLano, W (2002) PYMOL. DeLano Scientific, San Carlos, CA.
-
(2002)
PYMOL
-
-
DeLano, W.1
-
81
-
-
41449088527
-
Active internal waters in the bacteriorhodopsin photocycle. A comparative study of the L and M intermediates at room and cryogenic temperatures by infrared spectroscopy
-
Ló renz-Fonfria, V. A., Y. Furutani and H. Kandori (2008) Active internal waters in the bacteriorhodopsin photocycle. A comparative study of the L and M intermediates at room and cryogenic temperatures by infrared spectroscopy. Biochemistry 47, 4071-4081.
-
(2008)
Biochemistry
, vol.47
, pp. 4071-4081
-
-
Ló renz-Fonfria, V.A.1
Furutani, Y.2
Kandori, H.3
|