-
1
-
-
34247548430
-
Channelrhodopsin-2-assisted circuit mapping of long-range callosal projections
-
DOI 10.1038/nn1891, PII NN1891
-
L. Petreanu, D. Huber, A. Sobczyk, and K. Svoboda Channelrhodopsin-2- assisted circuit mapping of long-range callosal projections Nat. Neurosci. 10 2007 663 668 (Pubitemid 46652447)
-
(2007)
Nature Neuroscience
, vol.10
, Issue.5
, pp. 663-668
-
-
Petreanu, L.1
Huber, D.2
Sobczyk, A.3
Svoboda, K.4
-
2
-
-
84455178930
-
The microbial opsin family of optogenetic tools
-
F. Zhang, J. Vierock, O. Yizhar, L.E. Fenno, S. Tsunoda, A. Kianianmomeni, M. Prigge, A. Berndt, J. Cushman, J. Polle, J. Magnuson, P. Hegemann, and K. Deisseroth The microbial opsin family of optogenetic tools Cell 147 2011 1446 1457
-
(2011)
Cell
, vol.147
, pp. 1446-1457
-
-
Zhang, F.1
Vierock, J.2
Yizhar, O.3
Fenno, L.E.4
Tsunoda, S.5
Kianianmomeni, A.6
Prigge, M.7
Berndt, A.8
Cushman, J.9
Polle, J.10
Magnuson, J.11
Hegemann, P.12
Deisseroth, K.13
-
3
-
-
84873298804
-
From channelrhodopsins to optogenetics
-
P. Hegemann, and G. Nagel From channelrhodopsins to optogenetics EMBO Mol. Med. 5 2013 173 176
-
(2013)
EMBO Mol. Med.
, vol.5
, pp. 173-176
-
-
Hegemann, P.1
Nagel, G.2
-
4
-
-
77649184827
-
Ultrafast optogenetic control
-
L.A. Gunaydin, O. Yizhar, A. Berndt, V.S. Sohal, K. Deisseroth, and P. Hegemann Ultrafast optogenetic control Nat. Neurosci. 13 2010 387 392
-
(2010)
Nat. Neurosci.
, vol.13
, pp. 387-392
-
-
Gunaydin, L.A.1
Yizhar, O.2
Berndt, A.3
Sohal, V.S.4
Deisseroth, K.5
Hegemann, P.6
-
5
-
-
0037189362
-
Channelrhodopsin-1: A light-gated proton channel in green algae
-
DOI 10.1126/science.1072068
-
G. Nagel, D. Ollig, M. Fuhrmann, S. Kateriya, A.M. Musti, E. Bamberg, and P. Hegemann Channelrhodopsin-1: a light-gated proton channel in green algae Science 296 2002 2395 2398 (Pubitemid 34734214)
-
(2002)
Science
, vol.296
, Issue.5577
, pp. 2395-2398
-
-
Nagel, G.1
Ollig, D.2
Fuhrmann, M.3
Kateriya, S.4
Musti, A.M.5
Bamberg, E.6
Hegemann, P.7
-
6
-
-
23844440915
-
Channelrhodopsins: Directly light-gated cation channels
-
DOI 10.1042/BST0330863
-
G. Nagel, T. Szellas, S. Kateriya, N. Adeishvili, P. Hegemann, and E. Bamberg Channelrhodopsins: directly light-gated cation channels Biochem. Soc. Trans. 33 2005 863 866 (Pubitemid 41160880)
-
(2005)
Biochemical Society Transactions
, vol.33
, Issue.4
, pp. 863-866
-
-
Nagel, G.1
Szellas, T.2
Kateriya, S.3
Adeishvili, N.4
Hegemann, P.5
Bamberg, E.6
-
7
-
-
29044433616
-
Light activation of Channelrhodopsin-2 in excitable cells of caenorhabditis elegans triggers rapid behavioral responses
-
DOI 10.1016/j.cub.2005.11.032, PII S0960982205014077
-
G. Nagel, M. Brauner, J.F. Liewald, N. Adeishvili, E. Bamberg, and A. Gooschalk Light activation of channelrhodopsin-2 in excitable cells of Caenorhabditis elegans triggers rapid behavioral response Curr. Biol. 15 2005 2279 2284 (Pubitemid 41790623)
-
(2005)
Current Biology
, vol.15
, Issue.24
, pp. 2279-2284
-
-
Nagel, G.1
Brauner, M.2
Liewald, J.F.3
Adeishvili, N.4
Bamberg, E.5
Gottschalk, A.6
-
8
-
-
71749109952
-
The retinal structure of channelrhodopsin-2 assessed by resonance Raman spectroscopy
-
M. Nack, I. Radu, C. Bamann, E. Bamberg, and J. Heberle The retinal structure of channelrhodopsin-2 assessed by resonance Raman spectroscopy FEBS Lett. 583 2009 3676 3680
-
(2009)
FEBS Lett.
, vol.583
, pp. 3676-3680
-
-
Nack, M.1
Radu, I.2
Bamann, C.3
Bamberg, E.4
Heberle, J.5
-
9
-
-
67650566921
-
Conformational changes of channelrhodopsin-2
-
I. Radu, C. Bamann, M. Nack, G. Nagel, E. Bamberg, and J. Heberle Conformational changes of channelrhodopsin-2 J. Am. Chem. Soc. 131 2009 7313 7319
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 7313-7319
-
-
Radu, I.1
Bamann, C.2
Nack, M.3
Nagel, G.4
Bamberg, E.5
Heberle, J.6
-
10
-
-
58049216319
-
Monitoring light-induced structural changes of channelrhodopsin-2 by UV-visible and Fourier transform infrared spectroscopy
-
350033-35041
-
E. Ritter, K. Stehfest, A. Berndt, P. Hegemann, and F. Bartl Monitoring light-induced structural changes of channelrhodopsin-2 by UV-visible and Fourier transform infrared spectroscopy J. Biol. Chem. 283 2008 350033-35041
-
(2008)
J. Biol. Chem.
, vol.283
-
-
Ritter, E.1
Stehfest, K.2
Berndt, A.3
Hegemann, P.4
Bartl, F.5
-
11
-
-
84857478497
-
In channelrhodopsin-2 Glu-90 is crucial for ion selectivity and is deprotonated during the photocycle
-
K. Eisenhauer, J. Kuhne, E. Ritter, A. Berndt, S. Wolf, E. Freier, F. Bartl, P. Hegemann, and K. Gerwert In channelrhodopsin-2 Glu-90 is crucial for ion selectivity and is deprotonated during the photocycle J. Biol. Chem. 287 2012 6904 6911
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 6904-6911
-
-
Eisenhauer, K.1
Kuhne, J.2
Ritter, E.3
Berndt, A.4
Wolf, S.5
Freier, E.6
Bartl, F.7
Hegemann, P.8
Gerwert, K.9
-
12
-
-
84875824310
-
Transient protonation changes in channelrhodopsin-2 and their relevance to channel gating
-
V.A. Lórenz-Fonfria, T. Resler, N. Krause, M. Nack, M. Gossing, G. Fischer von Mollard, C. Bamann, E. Bamberg, R. Schlesinger, and J. Heberle Transient protonation changes in channelrhodopsin-2 and their relevance to channel gating Proc. Natl. Acad. Sci. U. S. A. 110 2013 E1273 E1281
-
(2013)
Proc. Natl. Acad. Sci. U. S. A.
, vol.110
-
-
Lórenz-Fonfria, V.A.1
Resler, T.2
Krause, N.3
Nack, M.4
Gossing, M.5
Fischer Von Mollard, G.6
Bamann, C.7
Bamberg, E.8
Schlesinger, R.9
Heberle, J.10
-
13
-
-
84862777498
-
Crystal structure of the channelrhodopsin light-gated cation channel
-
H.E. Kato, F. Zhang, O. Yizhar, C. Ramakrishnan, T. Nishizawa, K. Hirata, J. Ito, Y. Aita, T. Tsukazaki, S. Hayashi, P. Hegemann, A.D. Maturana, R. Ishitani, K. Deisseroth, and O. Nureki Crystal structure of the channelrhodopsin light-gated cation channel Nature 482 2012 369 374
-
(2012)
Nature
, vol.482
, pp. 369-374
-
-
Kato, H.E.1
Zhang, F.2
Yizhar, O.3
Ramakrishnan, C.4
Nishizawa, T.5
Hirata, K.6
Ito, J.7
Aita, Y.8
Tsukazaki, T.9
Hayashi, S.10
Hegemann, P.11
Maturana, A.D.12
Ishitani, R.13
Deisseroth, K.14
Nureki, O.15
-
14
-
-
67349185408
-
Ion channels versus ion pumps: The principal difference, in principle
-
D.C. Gadsby Ion channels versus ion pumps: the principal difference, in principle Nat. Rev. Mol. Cell Biol. 10 2009 344 352
-
(2009)
Nat. Rev. Mol. Cell Biol.
, vol.10
, pp. 344-352
-
-
Gadsby, D.C.1
-
15
-
-
84874187340
-
The thin line between channels and pumps
-
L.S. Brown The thin line between channels and pumps Biophys. J. 104 2013 739 740
-
(2013)
Biophys. J.
, vol.104
, pp. 739-740
-
-
Brown, L.S.1
-
16
-
-
84874157435
-
Intramolecular proton transfer in channelrhodopsin
-
O.A. Sineschchekov, E.G. Govorunova, J. Wang, H. Li, and J.L. Spudich Intramolecular proton transfer in channelrhodopsin Biophys. J. 104 2013 807 817
-
(2013)
Biophys. J.
, vol.104
, pp. 807-817
-
-
Sineschchekov, O.A.1
Govorunova, E.G.2
Wang, J.3
Li, H.4
Spudich, J.L.5
-
17
-
-
68149145775
-
Channelrhodopsin-2 is a leaky proton pump
-
K. Feldbauer, D. Zimmermann, V. Pintschovius, J. Spitz, C. Bamann, and E. Bamberg Channelrhodopsin-2 is a leaky proton pump PNAS 28 2009 12317 12322
-
(2009)
PNAS
, vol.28
, pp. 12317-12322
-
-
Feldbauer, K.1
Zimmermann, D.2
Pintschovius, V.3
Spitz, J.4
Bamann, C.5
Bamberg, E.6
-
18
-
-
77952304469
-
The branched photocycle of the slow-cycling channelrhodopsin-2 mutant C128T
-
K. Stehfest, E. Ritter, A. Berndt, F. Bartl, and P. Hegemann The branched photocycle of the slow-cycling channelrhodopsin-2 mutant C128T J. Mol. Biol. 398 2010 690 702
-
(2010)
J. Mol. Biol.
, vol.398
, pp. 690-702
-
-
Stehfest, K.1
Ritter, E.2
Berndt, A.3
Bartl, F.4
Hegemann, P.5
-
19
-
-
75349085542
-
Structural guidance of the photocycle of channelrhodopsin-2 by an interhelical hydrogen bond
-
C. Bamann, R. Gueta, S. Kleinlogel, G. Nagel, and E. Bamberg Structural guidance of the photocycle of channelrhodopsin-2 by an interhelical hydrogen bond Biochemistry 49 2010 267 278
-
(2010)
Biochemistry
, vol.49
, pp. 267-278
-
-
Bamann, C.1
Gueta, R.2
Kleinlogel, S.3
Nagel, G.4
Bamberg, E.5
-
20
-
-
79956332172
-
High-efficiency channelrhodopsins for fats neuronal stimulation at low light levels
-
A. Berndt, P. Schoeneberger, J. Mattis, K.M. Tye, K. Deisseroth, P. Hegemann, and T.G. Oerther High-efficiency channelrhodopsins for fats neuronal stimulation at low light levels Proc. Natl. Acad. Sci. U. S. A. 108 2011 7595 7600
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 7595-7600
-
-
Berndt, A.1
Schoeneberger, P.2
Mattis, J.3
Tye, K.M.4
Deisseroth, K.5
Hegemann, P.6
Oerther, T.G.7
-
21
-
-
84855190225
-
New channelrhodopsins with a red-shifted spectrum and rapid kinetics from Mesostigma viride
-
1-9
-
E.G. Govorunova, E.N. Spudich, C.E. Lane, O.A. Sineshchekov, and J.L. Spudich New channelrhodopsins with a red-shifted spectrum and rapid kinetics from Mesostigma viride mBio 2 2011 e00115-11 1-9
-
(2011)
MBio
, vol.2
, pp. 00115-00211
-
-
Govorunova, E.G.1
Spudich, E.N.2
Lane, C.E.3
Sineshchekov, O.A.4
Spudich, J.L.5
-
23
-
-
65549100187
-
Characterization of engineered channelrhodopsin variants with improved properties and kinetics
-
J.Y. Lin, M.Z. Lin, P. Steinbach, and R.Y. Tsien Characterization of engineered channelrhodopsin variants with improved properties and kinetics Biophys. J. 96 2009 1803 1814
-
(2009)
Biophys. J.
, vol.96
, pp. 1803-1814
-
-
Lin, J.Y.1
Lin, M.Z.2
Steinbach, P.3
Tsien, R.Y.4
-
24
-
-
84856871975
-
Bioinformatic and mutational analysis of channelrhodopsin-2 cation conductance pathway
-
A.P. Plazzo, N. de Franceschi, F. da Broi, F. Zonta, M.F. Sanasi, F. Filippini, and M. Mongillo Bioinformatic and mutational analysis of channelrhodopsin-2 cation conductance pathway J. Biol. Chem. 287 2012 4818 4825
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 4818-4825
-
-
Plazzo, A.P.1
De Franceschi, N.2
Da Broi, F.3
Zonta, F.4
Sanasi, M.F.5
Filippini, F.6
Mongillo, M.7
-
25
-
-
84869784276
-
Re-introduction of transmembrane serine residues reduce the minimum pore diameter of channelrhodopsin-2
-
R. Richards, and R.E. Dempski Re-introduction of transmembrane serine residues reduce the minimum pore diameter of channelrhodopsin-2 PLoS One 7 2012 e50018
-
(2012)
PLoS One
, vol.7
, pp. 50018
-
-
Richards, R.1
Dempski, R.E.2
-
26
-
-
81055155876
-
Projection structure of channelrhodopsin-2 at 6 Å resolution by electron crystallography
-
M. Müller, C. Bamann, E. Bamberg, and W. Kühlbrandt Projection structure of channelrhodopsin-2 at 6 Å resolution by electron crystallography J. Mol. Biol. 414 2011 86 95
-
(2011)
J. Mol. Biol.
, vol.414
, pp. 86-95
-
-
Müller, M.1
Bamann, C.2
Bamberg, E.3
Kühlbrandt, W.4
-
27
-
-
84863229159
-
Structural model of channelrhodopsin
-
H. Watanabe, K. Welke, F. Schneider, S. Tsunoda, F. Zhang, K. Deisseroth, P. Hegemann, and M. Elstner Structural model of channelrhodopsin J. Biol. Chem. 287 2012 7456 7466
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 7456-7466
-
-
Watanabe, H.1
Welke, K.2
Schneider, F.3
Tsunoda, S.4
Zhang, F.5
Deisseroth, K.6
Hegemann, P.7
Elstner, M.8
-
28
-
-
60749095002
-
Multiple sequence alignment using ClustalW and ClustalX
-
(Chapter 2, Unit 2.3).
-
J.D. Thomson, J.D. Gibson, and D.G. Higgins Multiple sequence alignment using ClustalW and ClustalX Curr. Protoc. Bioinforma. 2002 (Chapter 2, Unit 2.3). http://dx.doi.org/10.1002/0471250953.bi0203s00
-
(2002)
Curr. Protoc. Bioinforma.
-
-
Thomson, J.D.1
Gibson, J.D.2
Higgins, D.G.3
-
29
-
-
45949107473
-
Recent developments in the MAFFT multiple sequence alignment program
-
DOI 10.1093/bib/bbn013, Special Issue: Critical Technologies for Bioinformatics
-
K. Katoh, and H. Toh Recent developments in the MAFFT multiple sequence alignment program Brief Bioinform. 9 2008 286 298 (Pubitemid 351890825)
-
(2008)
Briefings in Bioinformatics
, vol.9
, Issue.4
, pp. 286-298
-
-
Katoh, K.1
Toh, H.2
-
30
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
DOI 10.1093/nar/gkh340
-
R.C. Edgar MUSCLE: multiple sequence alignment with high accuracy and high throughput Nucleic Acids Res. 32 2004 1792 1797 (Pubitemid 38832724)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.5
, pp. 1792-1797
-
-
Edgar, R.C.1
-
31
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
C. Notredame, D.G. Higgins, and J. Heringa T-Coffee: a novel method for fast and accurate multiple sequence alignment J. Mol. Biol. 302 2000 205 217
-
(2000)
J. Mol. Biol.
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, J.3
-
32
-
-
0021160693
-
The alignment of sets of sequences and the construction of phyletic trees: An integrated method
-
P. Hogeweg, and B. Hesper The alignment of sets of sequences and the construction of phyletic trees: An integrated method J. Mol. Evol. 20 1984 175 186 (Pubitemid 14058167)
-
(1984)
Journal of Molecular Evolution
, vol.20
, Issue.2
, pp. 175-186
-
-
Hogeweg, P.1
Hesper, B.2
-
33
-
-
33748940447
-
Analysis and comparison of benchmarks for multiple sequence alignment
-
G. Blackshields, I.M. Wallace, M. Larkin, and D.G. Higgins Analysis and comparison of benchmarks for multiple sequence alignment In Silico Biol. 6 2006 321 339 (Pubitemid 44430621)
-
(2006)
In Silico Biology
, vol.6
, Issue.4
, pp. 321-339
-
-
Blackshields, G.1
Wallace, I.M.2
Larkin, M.3
Higgins, D.G.4
-
34
-
-
34548400364
-
Recent evolutions of multiple sequence alignment algorithms
-
C. Notredame Recent evolutions of multiple sequence alignment algorithms PLoS Comput. Biol. 3 2007 e123
-
(2007)
PLoS Comput. Biol.
, vol.3
, pp. 123
-
-
Notredame, C.1
-
35
-
-
0033567092
-
Protein, lipid and water organization in bacteriorhodopsin crystals: A molecular view of the purple membrane at 1.9 A resolution
-
DOI 10.1016/S0969-2126(99)80118-X
-
H. Belrhali, P. Nollert, A. Royant, C. Menzel, J.P. Rosenbusch, E.M. Landau, and E. Pebay-Peyroula Protein, lipid and water organization in bacteriorhodopsin crystals: a molecular view of the purple membrane at 1.9 Å resolution Structure 7 1999 909 917 (Pubitemid 29372513)
-
(1999)
Structure
, vol.7
, Issue.8
, pp. 909-917
-
-
Belrhali, H.1
Nollert, P.2
Royant, A.3
Menzel, C.4
Rosenbusch, J.P.5
Landau, E.M.6
Pebay-Peyroula, E.7
-
36
-
-
0345059376
-
Announcing the worldwide Protein Data Bank
-
DOI 10.1038/nsb1203-980
-
H.M. Berman, K. Henrick, and H. Nakamura Announcing the worldwide Protein Data Bank Nat. Struct. Biol. 10 2003 980 (Pubitemid 37500485)
-
(2003)
Nature Structural Biology
, vol.10
, Issue.12
, pp. 980
-
-
Berman, H.1
Henrick, K.2
Nakamura, H.3
-
37
-
-
13444262028
-
Recognition of transmembrane helices by the endoplasmic reticulum translocon
-
DOI 10.1038/nature03216
-
T. Hessa, H. Kim, K. Bihlmaier, C. Lundin, J. Boekel, H. Andersson, I. Nilsson, S.H. White, and G. von Heijne Recognition of transmembrane helices by the endoplasmic reticulum translocon Nature 433 2005 377 381 (Pubitemid 40203311)
-
(2005)
Nature
, vol.433
, Issue.7024
, pp. 377-381
-
-
Hessa, T.1
Kim, H.2
Bihlmaier, K.3
Lundin, C.4
Boekel, J.5
Andersson, H.6
Nilsson, I.7
White, S.H.8
Von Heijne, G.9
-
38
-
-
0034201441
-
EMBOSS: The European Molecular Biology Open Software Suite
-
P. Rice, I. Longden, and A. Bleasby EMBOSS: The European Molecular Biology Open Software Suite Trends Genet. 16 2000 276 277
-
(2000)
Trends Genet.
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby, A.3
-
39
-
-
13444280419
-
PDB-TM: Selection and membrane localization of transmembrane proteins in the protein data bank
-
G.E. Tusnady, Z.S. Dosztanyi, and I. Simon PDB-TM: selection and membrane localization of transmembrane proteins in the protein data bank Nucleic Acids Res. 33 2005 D275 D278
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Tusnady, G.E.1
Dosztanyi, Z.S.2
Simon, I.3
-
40
-
-
77949601825
-
CD-HIT Suite: A web server for clustering and comparing biological sequences
-
Y. Huang, B. Niu, Y. Gao, L. Fu, and W. Li CD-HIT Suite: a web server for clustering and comparing biological sequences Bioinformatics 26 2010 680 682
-
(2010)
Bioinformatics
, vol.26
, pp. 680-682
-
-
Huang, Y.1
Niu, B.2
Gao, Y.3
Fu, L.4
Li, W.5
-
42
-
-
2142738304
-
WebLogo: A sequence logo generator
-
DOI 10.1101/gr.849004
-
G.E. Crooks, G. Hon, J.-M. Chandonia, and S.E. Brenner WebLogo: a sequence logo generator Genome Res. 14 2004 1188 1190 (Pubitemid 38811555)
-
(2004)
Genome Research
, vol.14
, Issue.6
, pp. 1188-1190
-
-
Crooks, G.E.1
Hon, G.2
Chandonia, J.-M.3
Brenner, S.E.4
-
43
-
-
0033873929
-
Comparative protein structure modeling of genes and genomes
-
DOI 10.1146/annurev.biophys.29.1.291
-
M.A. Martí-Renom, A.C. Stuart, A. Fiser, R. Sánchez, F. Melo, and A. Sali Comparative protein structure modeling of genes and genomes Annu. Rev. Biophys. Biomol. Struct. 29 2000 291 325 (Pubitemid 30599596)
-
(2000)
Annual Review of Biophysics and Biomolecular Structure
, vol.29
, pp. 291-325
-
-
Marti-Renom, M.A.1
Stuart, A.C.2
Fiser, A.3
Sanchez, R.4
Melo, F.5
Sali, A.6
-
44
-
-
13744252339
-
Accuracy of structure-derived properties in simple comparative models of protein structures
-
DOI 10.1093/nar/gki162
-
S. Chakravarty, L. Wang, and R. Sanchez Accuracy of structure-derived properties in simple comparative models of protein structures Nucleic Acids Res. 33 2005 244 259 (Pubitemid 40276946)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.1
, pp. 244-259
-
-
Chakravarty, S.1
Wang, L.2
Sanchez, R.3
-
45
-
-
43749107283
-
Comparative protein structure modeling with Modeller
-
(5.6.1.-5.6.30)
-
N. Eswar, M.-A. Martí-Renom, B. Webb, M.S. Madhusudhan, D. Eramian, M. Shen, U. Pieper, and A. Sali Comparative protein structure modeling with Modeller Curr. Protoc. Bioinforma. 15 2006 (5.6.1.-5.6.30)
-
(2006)
Curr. Protoc. Bioinforma.
, vol.15
-
-
Eswar, N.1
Martí-Renom, M.-A.2
Webb, B.3
Madhusudhan, M.S.4
Eramian, D.5
Shen, M.6
Pieper, U.7
Sali, A.8
-
46
-
-
78149236789
-
Medeller: Homology-based coordinate generation for membrane proteins
-
S. Kelm, J. Shi, and C.M. Deane Medeller: homology-based coordinate generation for membrane proteins Bioinformatics 26 2010 2833 2840
-
(2010)
Bioinformatics
, vol.26
, pp. 2833-2840
-
-
Kelm, S.1
Shi, J.2
Deane, C.M.3
-
47
-
-
63849246525
-
Protein structure prediction on the web: A case study using the Phyre server
-
L.A. Kelley, and M.J.E. Sternberg Protein structure prediction on the web: a case study using the Phyre server Nat. Protoc. 4 2009 363 371
-
(2009)
Nat. Protoc.
, vol.4
, pp. 363-371
-
-
Kelley, L.A.1
Sternberg, M.J.E.2
-
49
-
-
37349063087
-
Features of transmembrane segments that promote the lateral release from the translocase into the lipid phase
-
DOI 10.1021/bi701398y
-
K. Xie, T. Hessa, S. Seppälä, M. Rapp, G. von Heijne, and R.E. Dalbey RE Features of transmembrane segments that promote the lateral release from the translocase into the lipid phase Biochemistry 46 2007 15153 15161 (Pubitemid 350308906)
-
(2007)
Biochemistry
, vol.46
, Issue.51
, pp. 15153-15161
-
-
Xie, K.1
Hessa, T.2
Seppala, S.3
Rapp, M.4
Von Heijne, G.5
Dalbey, R.E.6
-
51
-
-
0007949690
-
Interhelical hydrogen bonding drives strong interactions in membrane proteins
-
DOI 10.1038/72430
-
F.X. Zhou, M.J. Cocco, W.P. Russ, A.T. Brunger, and D.M. Engelman Interhelical hydrogen bonding drives strong interactions in membrane proteins Nat. Struct. Biol. 7 2000 154 160 (Pubitemid 30082514)
-
(2000)
Nature Structural Biology
, vol.7
, Issue.2
, pp. 154-160
-
-
Zhou, F.X.1
Cocco, M.J.2
Russ, W.P.3
Brunger, A.T.4
Engelman, D.M.5
-
52
-
-
0035956884
-
Polar residues drive association of polyleucine transmembrane helices
-
DOI 10.1073/pnas.041593698
-
F.X. Zhou, H.J. Merianos, A.T. Brunger, and D.M. Engelman Polar residues drive association of polyleucine transmembrane helices Proc. Natl. Acad. Sci. U. S. A. 98 2001 2250 2255 (Pubitemid 32209468)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.5
, pp. 2250-2255
-
-
Zhou, F.X.1
Merianos, H.J.2
Brunger, A.T.3
Engelman, D.M.4
-
54
-
-
0242551561
-
Inter-helical hydrogen bond formation during membrane protein integration into the ER membrane
-
DOI 10.1016/j.jmb.2003.10.019
-
M. Hermansson, and G. von Heijne Inter-helical hydrogen bond formation during membrane protein integration into the ER membrane J. Mol. Biol. 334 2003 803 809 (Pubitemid 37433893)
-
(2003)
Journal of Molecular Biology
, vol.334
, Issue.4
, pp. 803-809
-
-
Hermansson, M.1
Von Heijne, G.2
-
55
-
-
0036301006
-
Motifs of serine and threonine can drive association of transmembrane helices
-
DOI 10.1006/jmbi.2001.5353
-
J.P. Dawson, J.S. Weineger, and D.M. Engelman Motifs of serine and threonine can drive association of membrane helices J. Mol. Biol. 316 2002 799 805 (Pubitemid 34729255)
-
(2002)
Journal of Molecular Biology
, vol.316
, Issue.3
, pp. 799-805
-
-
Dawson, J.P.1
Weinger, J.S.2
Engelman, D.M.3
-
56
-
-
33644772377
-
Kinetics of an individual transmembrane helix during bacteriorhodopsin folding
-
DOI 10.1016/j.jmb.2005.12.042, PII S0022283605016141
-
E.L.R. Compton, N.A. Farmer, M. Lorch, J.M. Mason, K.M. Moreton, and P.J. Booth Kinetics of an individual transmembrane helix during bacteriorhodopsin folding J. Mol. Biol. 357 2006 325 338 (Pubitemid 43339334)
-
(2006)
Journal of Molecular Biology
, vol.357
, Issue.1
, pp. 325-338
-
-
Compton, E.L.R.1
Farmer, N.A.2
Lorch, M.3
Mason, J.M.4
Moreton, K.M.5
Booth, P.J.6
-
57
-
-
80054741747
-
Roles of carboxyl groups in the transmembrane insertion of peptides
-
F.N. Barrera, D. Weerakkody, M. Anderson, O.A. Andreev, Y. Reshetnyak, and D.E. Engelman Roles of carboxyl groups in the transmembrane insertion of peptides J. Mol. Biol. 413 2011 359 371
-
(2011)
J. Mol. Biol.
, vol.413
, pp. 359-371
-
-
Barrera, F.N.1
Weerakkody, D.2
Anderson, M.3
Andreev, O.A.4
Reshetnyak, Y.5
Engelman, D.E.6
-
58
-
-
20044389842
-
Membrane insertion of a potassium-channel voltage sensor
-
DOI 10.1126/science.1109176
-
T. Hessa, S.H. White, and G. von Heijne Membrane insertion of a potassium-channel voltage sensor Science 307 2005 1427 (Pubitemid 40321932)
-
(2005)
Science
, vol.307
, Issue.5714
, pp. 1427
-
-
Hessa, T.1
White, S.H.2
Von Heijne, G.3
-
59
-
-
27244444569
-
Interface connections of a transmembrane voltage sensor
-
DOI 10.1073/pnas.0507618102
-
J.A. Freites, D.J. Tobias, G. von Heijne, and S.H. White Interface connections of a transmembrane voltage sensor Proc. Natl. Acad. Sci. U. S. A. 102 2005 15059 15064 (Pubitemid 41513334)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.42
, pp. 15059-15064
-
-
Freites, J.A.1
Tobias, D.J.2
Von Heijne, G.3
White, S.H.4
-
60
-
-
0344335730
-
Aspartic acids 96 and 85 play a central role in the function of bacteriorhodopsin as a proton pump
-
H.J. Butt, K. Fendler, E. Bamberg, J. Tittor, and D. Oesterhelt Aspartic acids 96 and 85 play a central role in the function of bacteriorhodopsin as a proton pump EMBO J. 8 1989 1657 1663
-
(1989)
EMBO J.
, vol.8
, pp. 1657-1663
-
-
Butt, H.J.1
Fendler, K.2
Bamberg, E.3
Tittor, J.4
Oesterhelt, D.5
-
61
-
-
0025016817
-
Substitution of amino acids Asp-85, Asp-212, and Arg-82 in bacteriorhodopsin affects the proton release phase of the pump and the pK of the Schiff base
-
H. Otto, T. Marti, M. Holtz, T. Mogi, L.J. Stern, F. Engel, H.G. Khorana, and M.P. Heyn Substitution of amino acids Asp-85, Asp-212, and Arg-82 in bacteriorhodopsin affects the proton release phase of the pump and the pK of the Schiff base Proc. Natl. Acad. Sci. U. S. A. 87 1990 1018 1022
-
(1990)
Proc. Natl. Acad. Sci. U. S. A.
, vol.87
, pp. 1018-1022
-
-
Otto, H.1
Marti, T.2
Holtz, M.3
Mogi, T.4
Stern, L.J.5
Engel, F.6
Khorana, H.G.7
Heyn, M.P.8
-
62
-
-
0026557012
-
Influence of the size and protonation state of acidic residue 85 on the absorption spectrum and photoreaction of the bacteriorhodopsin chromophore
-
J.K. Lanyi, J. Tittor, G. Váró, G. Krippahl, and D. Oesterhelt Influence of the size and protonation state of acidic residue 85 on the absorption spectrum and photoreaction of the bacteriorhodopsin chromophore Biochim. Biophys. Acta 1099 1992 102 110
-
(1992)
Biochim. Biophys. Acta
, vol.1099
, pp. 102-110
-
-
Lanyi, J.K.1
Tittor, J.2
Váró, G.3
Krippahl, G.4
Oesterhelt, D.5
-
63
-
-
0027051284
-
Effect of introducing different carboxylate-containing side chains at position 85 on chromophore formation and proton transport in bacteriorhodopsin
-
D.A. Greenhalgh, S. Subramaniam, U. Alexiev, H. Otto, M.P. Heyn, and H.G. Khorana Effect of introducing different carboxylate-containing side chains at position 85 on chromophore formation and proton transport in bacteriorhodopsin J. Biol. Chem. 267 1992 25734 25738 (Pubitemid 23013969)
-
(1992)
Journal of Biological Chemistry
, vol.267
, Issue.36
, pp. 25734-25738
-
-
Greenhalgh, D.A.1
Subramaniam, S.2
Alexiev, U.3
Otto, H.4
Heyn, M.P.5
Khorana, H.G.6
-
64
-
-
0027249907
-
Decoupling of photo- and proton cycle in the Asp85 → Glu mutant of bacteriorhodopsin
-
J. Heberle, D. Oesterhelt, and N.A. Dencher Decoupling of photo- and proton cycle in the Asp85 → Glu mutant of bacteriorhodopsin EMBO J. 12 1993 3721 3727 (Pubitemid 23282747)
-
(1993)
EMBO Journal
, vol.12
, Issue.10
, pp. 3721-3727
-
-
Heberle, J.1
Oesterhelt, D.2
Dencher, N.A.3
-
65
-
-
33745099339
-
Structural and energetic determinants of primary proton transfer in bacteriorhodopsin
-
DOI 10.1039/b516451f
-
A.-N. Bondar, J.C. Smith, and S. Fischer Structural and energetic determinants of primary proton transfer in bacteriorhodopsin Photochem. Photobiol. Sci. 5 2006 547 552 (Pubitemid 43885918)
-
(2006)
Photochemical and Photobiological Sciences
, vol.5
, Issue.6
, pp. 547-552
-
-
Bondar, A.-N.1
Smith, J.C.2
Fischer, S.3
-
66
-
-
77954635029
-
Dynamics of SecY translocons with translocation-defective mutations
-
A.-N. Bondar, C. del Val, J.A. Freites, D.J. Tobias, and S.H. White Dynamics of SecY translocons with translocation-defective mutations Structure 18 2010 847 857
-
(2010)
Structure
, vol.18
, pp. 847-857
-
-
Bondar, A.-N.1
Del Val, C.2
Freites, J.A.3
Tobias, D.J.4
White, S.H.5
-
67
-
-
76249100055
-
The DC gate in channelrhodopsin-2: Crucial hydrogen bonding interaction between C128 and D156
-
M. Nack, I. Radu, M. Gossing, C. Bamann, E. Bamberg, G.F. von Mollard, and J. Heberle The DC gate in channelrhodopsin-2: crucial hydrogen bonding interaction between C128 and D156 Photochem. Photobiol. Sci. 9 2010 194 198
-
(2010)
Photochem. Photobiol. Sci.
, vol.9
, pp. 194-198
-
-
Nack, M.1
Radu, I.2
Gossing, M.3
Bamann, C.4
Bamberg, E.5
Von Mollard, G.F.6
Heberle, J.7
-
69
-
-
0028946790
-
Effects of substitution of tyrosine 57 with asparagine and phenylalanine on the properties of bacteriorhodopsin
-
R. Govindjee, M. Kono, S.P. Balashov, E. Imasheva, M. Sheves, and T.G. Ebrey Effects of substitution of tyrosine 57 with asparagine and phenylalanine on the properties of bacteriorhodopsin Biochemistry 34 1995 4828 4838
-
(1995)
Biochemistry
, vol.34
, pp. 4828-4838
-
-
Govindjee, R.1
Kono, M.2
Balashov, S.P.3
Imasheva, E.4
Sheves, M.5
Ebrey, T.G.6
-
70
-
-
0027474325
-
Fourier transform Raman spectroscopy of the bacteriorhodopsin mutant Tyr- 185→Phe: Formation of a stable O-like species during light adaptation and detection of its transient N-like photoproduct
-
P. Rath, M.P. Krebs, Y. He, H.G. Khorana, and K.J. Rotschild Fourier Transform Raman Spectroscopy of the bacteriorhodopsin mutant Tyr-185 Phe: formation of a stable O-like species during light adaptation and detection of its transient N-like photoproduct Biochemistry 32 1993 2272 2281 (Pubitemid 23094889)
-
(1993)
Biochemistry
, vol.32
, Issue.9
, pp. 2272-2281
-
-
Rath, P.1
Krebs, M.P.2
He, Y.3
Khorana, H.G.4
Rothschild, K.J.5
-
71
-
-
79959928058
-
Side-chain hydrophobicity scale derived from transmembrane protein folding into lipid bilayers
-
C.P. Moon, and K.G. Fleming Side-chain hydrophobicity scale derived from transmembrane protein folding into lipid bilayers Proc. Natl. Acad. Sci. U. S. A. 108 2011 10174 10177
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 10174-10177
-
-
Moon, C.P.1
Fleming, K.G.2
-
72
-
-
0033104768
-
Hydrogen bonds between short polar side chains and peptide backbone: Prevalence in proteins and effects on helix-forming propensities
-
DOI 10.1002/(SICI)1097-0134(19990301)34:4<497::AID-PROT9>3.0.CO;2-G
-
M. Vijayakumar, H. Qian, and H.-X. Zhou Hydrogen bonds between short polar side chains and peptide backbone: prevalence in proteins and effects on helix-forming propensities Proteins Struct. Funct. Genet. 34 1999 497 507 (Pubitemid 29129700)
-
(1999)
Proteins: Structure, Function and Genetics
, vol.34
, Issue.4
, pp. 497-507
-
-
Vijayakumar, M.1
Qian, H.2
Zhou, H.-X.3
-
73
-
-
0033544689
-
KPROT: A knowledge-based scale for the propensity of residue orientation in transmembrane segments. Application to membrane protein structure prediction
-
DOI 10.1006/jmbi.1999.3257
-
Y. Pilpel, N. Ben-Tal, and D. Lancet KPROT: a knowledge-based scale for the propensity of residue orientation in transmembrane segments, application to membrane protein structure prediction J. Mol. Biol. 294 1999 921 935 (Pubitemid 30000385)
-
(1999)
Journal of Molecular Biology
, vol.294
, Issue.4
, pp. 921-935
-
-
Pilpel, Y.1
Ben-Tal, N.2
Lancet, D.3
-
74
-
-
84871272778
-
Ser/Thr motifs in transmembrane proteins: Conservation patterns and effects on local protein structure and dynamics
-
C. del Val, S.H. White, and A.-N. Bondar Ser/Thr motifs in transmembrane proteins: conservation patterns and effects on local protein structure and dynamics J. Membr. Biol. 245 2012 717 730
-
(2012)
J. Membr. Biol.
, vol.245
, pp. 717-730
-
-
Del Val, C.1
White, S.H.2
Bondar, A.-N.3
-
75
-
-
0036568229
-
Interhelical hydrogen bonds and spatial motifs in membrane proteins: Polar clamps and serine zippers
-
DOI 10.1002/prot.10071
-
L. Adamian, and J. Liang Interhelical hydrogen bonds and spatial motifs in membrane proteins: polar clamps and serine zippers Proteins Struct. Funct. Genet. 47 2002 209 218 (Pubitemid 34266091)
-
(2002)
Proteins: Structure, Function and Genetics
, vol.47
, Issue.2
, pp. 209-218
-
-
Adamian, L.1
Liang, J.2
-
76
-
-
0021755525
-
Intrahelical hydrogen bonds of serine, threonine and cysteine residues within a-helices and its relevance to membrane-bound proteins
-
T.M. Gray, and B.W. Mathews Intrahelical hydrogen bonds of serine, threonine and cysteine residues within a-helices and its relevance to membrane-bound proteins J. Mol. Biol. 175 1984 75 81
-
(1984)
J. Mol. Biol.
, vol.175
, pp. 75-81
-
-
Gray, T.M.1
Mathews, B.W.2
-
77
-
-
0024290488
-
Helix signals in proteins
-
L.G. Presta, and G.D. Rose Helix signals in proteins Science 240 1988 1632 1641
-
(1988)
Science
, vol.240
, pp. 1632-1641
-
-
Presta, L.G.1
Rose, G.D.2
-
78
-
-
0024290472
-
Amino acid preferences for specific location at the ends of helices
-
J.S. Richardson, and D.C. Richardson Amino acid preferences for specific location at the ends of helices Science 240 1988 1648 1652
-
(1988)
Science
, vol.240
, pp. 1648-1652
-
-
Richardson, J.S.1
Richardson, D.C.2
-
79
-
-
0031021758
-
Structures of N-termini of helices in proteins
-
A.J. Doig, W.M. Malcolm, B.J. Stapley, and J.M. Thornton Structures of N-termini of helices in proteins Protein Sci. 6 1997 147 155 (Pubitemid 27045254)
-
(1997)
Protein Science
, vol.6
, Issue.1
, pp. 147-155
-
-
Doig, A.J.1
Macarthur, M.W.2
Stapley, B.J.3
Thornton, J.M.4
-
80
-
-
0032101291
-
Dissecting α-helices: Position-specific analysis of α-helices in globular proteins
-
DOI 10.1002/(SICI)1097-0134(19980601)31:4<460::AID-PROT12>3.0.CO;2- D
-
S. Kumar, and M. Bansal Dissecting a-helices: position-specific analysis of a-helices in globular proteins Proteins Struct. Funct. Genet. 31 1998 460 476 (Pubitemid 28265563)
-
(1998)
Proteins: Structure, Function and Genetics
, vol.31
, Issue.4
, pp. 460-476
-
-
Kumar, S.1
Bansal, M.2
-
81
-
-
0034705142
-
Internal packing of helical membrane proteins
-
DOI 10.1073/pnas.97.11.5796
-
M. Eilers, S.C. Shekar, T. Shieh, S.O. Smith, and P.J. Fleming Internal packing of helical membrane proteins Proc. Natl. Acad. Sci. U. S. A. 97 2000 5796 5801 (Pubitemid 30367478)
-
(2000)
Proceedings of the National Academy of Sciences of the United States of America
, vol.97
, Issue.11
, pp. 5796-5801
-
-
Eilers, M.1
Shekar, S.C.2
Shieh, T.3
Smith, S.O.4
Fleming, P.J.5
-
82
-
-
84876717781
-
QM/MM simulations of vibrational spectra of bacteriorhodopsin and channelrhodopsin-2
-
K. Welke, H.C. Watanabe, T. Wolter, M. Gaus, and M. Elstner QM/MM simulations of vibrational spectra of bacteriorhodopsin and channelrhodopsin-2 Phys. Chem. Chem. Phys. 15 2013 6651 6659
-
(2013)
Phys. Chem. Chem. Phys.
, vol.15
, pp. 6651-6659
-
-
Welke, K.1
Watanabe, H.C.2
Wolter, T.3
Gaus, M.4
Elstner, M.5
-
83
-
-
84877578341
-
Towards an understanding of channelrhodopsin function: Simulations lead to novel insights of the channel mechanism
-
H.C. Watanabe, K. Welke, D.J. Sindhikara, P. Hegemann, and M. Elstner Towards an understanding of channelrhodopsin function: simulations lead to novel insights of the channel mechanism J. Mol. Biol. 425 2013 1795 1814
-
(2013)
J. Mol. Biol.
, vol.425
, pp. 1795-1814
-
-
Watanabe, H.C.1
Welke, K.2
Sindhikara, D.J.3
Hegemann, P.4
Elstner, M.5
-
84
-
-
22144464025
-
A vibrational spectral maker for probing the hydrogen-bonding status of protonated Asp and Glu residues
-
DOI 10.1529/biophysj.104.047639
-
B. Nie, J. Stutzman, and A. Xie A vibrational spectra marker for probing the hydrogen-bonding statis of protonated Asp and Glu residues Biophys. J. 88 2005 2833 2847 (Pubitemid 40976149)
-
(2005)
Biophysical Journal
, vol.88
, Issue.4
, pp. 2833-2847
-
-
Nie, B.1
Stutzman, J.2
Xie, A.3
-
85
-
-
80051671422
-
Crystal structure of the eukaryotic light-driven proton-pumping rhodopsin, Acetabularia rhodopsin II, from marine alga
-
T. Wada, K. Shimono, T. Kikukawa, M. Hato, N. Shinya, S.Y. Kim, T. Kimura-Someya, M. Shirozou, J. Tamogami, S. Miyauchi, K.-H. Jung, N. Kamo, and S. Yokoyama Crystal structure of the eukaryotic light-driven proton-pumping rhodopsin, Acetabularia rhodopsin II, from marine alga J. Mol. Biol. 411 2011 986 998
-
(2011)
J. Mol. Biol.
, vol.411
, pp. 986-998
-
-
Wada, T.1
Shimono, K.2
Kikukawa, T.3
Hato, M.4
Shinya, N.5
Kim, S.Y.6
Kimura-Someya, T.7
Shirozou, M.8
Tamogami, J.9
Miyauchi, S.10
Jung, K.-H.11
Kamo, N.12
Yokoyama, S.13
-
86
-
-
0030840715
-
Localization and orientation of functional water molecules in bacteriorhodopsin as revealed by polarized Fourier transform infrared spectroscopy
-
M. Hatanaka, H. Kandori, and A. Maeda Localization and orientation of functional water molecules in bacteriorhodopsin as revealed by polarized Fourier transform infrared spectroscopy Biophys. J. 72 1997 1001 1006 (Pubitemid 27337635)
-
(1997)
Biophysical Journal
, vol.73
, Issue.2
, pp. 1001-1006
-
-
Hatanaka, M.1
Kandori, H.2
Maeda, A.3
-
87
-
-
0033609904
-
Structure of bacteriorhodopsin at 1.55 Å resolution
-
H. Luecke, B. Schobert, H.-T. Richter, J.-P. Cartailler, and J.K. Lanyi Structure of bacteriorhodopsin at 1.55 Å resolution J. Mol. Biol. 291 1999 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
-
88
-
-
0034734246
-
Atomic resolution structures of bacteriorhodopsin photocycle intermediates: The role of discrete water molecules in the function of this light-driven proton pump
-
H. Luecke Atomic resolution structures of bacteriorhodopsin photocycle intermediates: the role of discrete water molecules in the function of this light-driven proton pump Biochim. Biophys. Acta 1460 2000 133 156
-
(2000)
Biochim. Biophys. Acta
, vol.1460
, pp. 133-156
-
-
Luecke, H.1
-
89
-
-
30144445932
-
Functional waters in intraprotein proton transfer monitored by FTIR difference spectroscopy
-
DOI 10.1038/nature04231
-
F. Garczareck, and K. Gerwert Functional waters in intraprotein proton transfer monitored by FTIR difference spectroscopy Nature 439 2005 109 112 (Pubitemid 43053638)
-
(2006)
Nature
, vol.439
, Issue.7072
, pp. 109-112
-
-
Garczarek, F.1
Gerwert, K.2
-
90
-
-
67249096746
-
Functional and shunt states of bacteriorhodopsin revealed by 250 GHz dynamics nuclear polarization-enhanced solid-state NMR
-
V.S. Bajaj, M.L. Mak-Jurkausas, M. Belenky, J. Herzfeld, and R.G. Griffin Functional and shunt states of bacteriorhodopsin revealed by 250 GHz dynamics nuclear polarization-enhanced solid-state NMR Proc. Natl. Acad. Sci. U. S. A. 9 2009 9244 9249
-
(2009)
Proc. Natl. Acad. Sci. U. S. A.
, vol.9
, pp. 9244-9249
-
-
Bajaj, V.S.1
Mak-Jurkausas, M.L.2
Belenky, M.3
Herzfeld, J.4
Griffin, R.G.5
-
91
-
-
3543020365
-
Hydration switch model for the proton transfer in the Schiff base region of bacteriorhodopsin
-
H. Kandori Hydration switch model for the proton transfer in the Schiff base region of bacteriorhodopsin Biochim. Biophys. Acta 1658 2000 72 79
-
(2000)
Biochim. Biophys. Acta
, vol.1658
, pp. 72-79
-
-
Kandori, H.1
-
92
-
-
0346366810
-
Crystal Structure of the L Intermediate of Bacteriorhodopsin: Evidence for Vertical Translocation of a Water Molecule during the Proton Pumping Cycle
-
DOI 10.1016/j.jmb.2003.10.068
-
T. Kouyama, T. Nischikawa, T. Tokuhisa, and H. Okumura 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 2004 531 546 (Pubitemid 37532654)
-
(2004)
Journal of Molecular Biology
, vol.335
, Issue.2
, pp. 531-546
-
-
Kouyama, T.1
Nishikawa, T.2
Tokuhisa, T.3
Okumura, H.4
-
93
-
-
0034321020
-
Proton transfer in bacteriorhodopsin: Structure, excitation, IR spectra, and potential energy surface analyses by an ab initio QM/MM method
-
DOI 10.1021/jp001508r
-
S. Hayashi, and I. Ohmine 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 2000 10678 10691 (Pubitemid 32021481)
-
(2000)
Journal of Physical Chemistry B
, vol.104
, Issue.45
, pp. 10678-10691
-
-
Hayashi, S.1
Ohmine, I.2
-
94
-
-
0033884808
-
A study on the mechanism of the proton transport in bacteriorhodopsin: The importance of the water molecule
-
K. Murata, Y. Fujii, N. Enomoto, M. Hata, T. Hoshino, and M. Tsuda A study on the mechanism of the proton transport in bacteriorhodopsin: the importance of the water molecule Biophys. J. 79 2000 982 991 (Pubitemid 30626189)
-
(2000)
Biophysical Journal
, vol.79
, Issue.2
, pp. 982-991
-
-
Murata, K.1
Fujii, Y.2
Enomoto, N.3
Hata, M.4
Hoshino, T.5
Tsuda, M.6
-
95
-
-
7744225102
-
Key role of electrostatic interactions in bacteriorhodopsin proton transfer
-
DOI 10.1021/ja047982i
-
A.-N. Bondar, S. Fischer, J.C. Smith, M. Elstner, and S. Suhai Key role of electrostatic interactions in bacteriorhodopsin proton transfer J. Am. Chem. Soc. 126 2004 14668 14677 (Pubitemid 39463647)
-
(2004)
Journal of the American Chemical Society
, vol.126
, Issue.44
, pp. 14668-14677
-
-
Bondar, A.-N.1
Fischer, S.2
Smith, J.C.3
Elstner, M.4
Suhai, S.5
-
96
-
-
3142613053
-
Mechanism of primary proton transfer in bacteriorhodopsin
-
DOI 10.1016/j.str.2004.04.016, PII S0969212604001637
-
A.-N. Bondar, M. Elstner, S. Suhai, J.C. Smith, and S. Fischer Mechanism of primary proton transfer in bacteriorhodopsin Structure 12 2004 1281 1288 (Pubitemid 38900770)
-
(2004)
Structure
, vol.12
, Issue.7
, pp. 1281-1288
-
-
Bondar, A.-N.1
Elstner, M.2
Suhai, S.3
Smith, J.C.4
Fischer, S.5
-
97
-
-
57449095198
-
Key role of active-site water molecules in bacteriorhodopsin proton transfer
-
A.-N. Bondar, J. Baudry, S. Suhai, S. Fischer, and J.C. Smith Key role of active-site water molecules in bacteriorhodopsin proton transfer J. Phys. Chem. B 112 2008 14729 14741
-
(2008)
J. Phys. Chem. B
, vol.112
, pp. 14729-14741
-
-
Bondar, A.-N.1
Baudry, J.2
Suhai, S.3
Fischer, S.4
Smith, J.C.5
-
98
-
-
69249213570
-
Water molecules in short- and long-distance proton transfer steps of bacteriorhodopsin proton pumping
-
A.-N. Bondar, and J.C. Smith Water molecules in short- and long-distance proton transfer steps of bacteriorhodopsin proton pumping Isr. J. Chem. 49 2009 155-161
-
(2009)
Isr. J. Chem.
, vol.49
, pp. 155-161
-
-
Bondar, A.-N.1
Smith, J.C.2
-
99
-
-
79955667818
-
Water pathways in the bacteriorhodopsin proton pump
-
A.-N. Bondar, S. Fischer, and J.C. Smith Water pathways in the bacteriorhodopsin proton pump J. Membr. Biol. 239 2011 73 84
-
(2011)
J. Membr. Biol.
, vol.239
, pp. 73-84
-
-
Bondar, A.-N.1
Fischer, S.2
Smith, J.C.3
-
100
-
-
61549125968
-
Rhomboid protease dynamics and lipid interactions
-
A.-N. Bondar, C. del Val, and S.H. White Rhomboid protease dynamics and lipid interactions Structure 17 2009 395 405
-
(2009)
Structure
, vol.17
, pp. 395-405
-
-
Bondar, A.-N.1
Del Val, C.2
White, S.H.3
-
101
-
-
84857650478
-
Hydrogen bond dynamics in membrane protein function
-
A.-N. Bondar, and S.H. White Hydrogen bond dynamics in membrane protein function Biochim. Biophys. Acta 1818 2012 942 950
-
(2012)
Biochim. Biophys. Acta
, vol.1818
, pp. 942-950
-
-
Bondar, A.-N.1
White, S.H.2
-
102
-
-
84868559590
-
Proton-coupled dynamics in lactose permease
-
M. Andersson, A.-N. Bondar, J.A. Freites, D.J. Tobias, H.R. Kaback, and S.H. White Proton-coupled dynamics in lactose permease Structure 20 2012 1893 1904
-
(2012)
Structure
, vol.20
, pp. 1893-1904
-
-
Andersson, M.1
Bondar, A.-N.2
Freites, J.A.3
Tobias, D.J.4
Kaback, H.R.5
White, S.H.6
-
103
-
-
84883518102
-
Light-induced movement of the transmembrane helix B in channelrhodopsin-2
-
T. Sattig, C. Rickert, E. Bamberg, H.-J. Steinhoff, and C. Bamann Light-induced movement of the transmembrane helix B in channelrhodopsin-2 Angew. Chem. Int. Ed. 52 2013 9705 9708
-
(2013)
Angew. Chem. Int. Ed.
, vol.52
, pp. 9705-9708
-
-
Sattig, T.1
Rickert, C.2
Bamberg, E.3
Steinhoff, H.-J.4
Bamann, C.5
-
104
-
-
84884906995
-
Structural differences between the closed and open states of channelrhodopsin-2 as observed by EPR spectroscopy
-
N. Krause, C. Engelhardt, J. Heberle, R. Schlesinger, and R. Bittl Structural differences between the closed and open states of channelrhodopsin-2 as observed by EPR spectroscopy FEBS Lett. 587 2013 3309 3313
-
(2013)
FEBS Lett.
, vol.587
, pp. 3309-3313
-
-
Krause, N.1
Engelhardt, C.2
Heberle, J.3
Schlesinger, R.4
Bittl, R.5
-
105
-
-
0020475449
-
A simple method for displaying the hydrophatic character of a protein
-
J. Kyte, and R.F. Doolittle A simple method for displaying the hydrophatic character of a protein J. Mol. Biol. 157 1982 105 132
-
(1982)
J. Mol. Biol.
, vol.157
, pp. 105-132
-
-
Kyte, J.1
Doolittle, R.F.2
-
107
-
-
13244281317
-
Coot: Model-building for molecular graphics
-
P. Emsley, and K. Cowtan Coot: model-building for molecular graphics Acta Crystallogr. D60 2004 2126 2132
-
(2004)
Acta Crystallogr.
, vol.60 D
, pp. 2126-2132
-
-
Emsley, P.1
Cowtan, K.2
|