-
1
-
-
74849118341
-
Lipid rafts as a membrane-organizing principle
-
D. Lingwood, and K. Simons Lipid rafts as a membrane-organizing principle Science 327 2010 46 50
-
(2010)
Science
, vol.327
, pp. 46-50
-
-
Lingwood, D.1
Simons, K.2
-
2
-
-
7044241302
-
How lipids affect the activities of integral membrane proteins
-
A.G. Lee How lipids affect the activities of integral membrane proteins Biochim. Biophys. Acta 1666 2004 62 87
-
(2004)
Biochim. Biophys. Acta
, vol.1666
, pp. 62-87
-
-
Lee, A.G.1
-
3
-
-
77953101439
-
Membrane proteins diffuse as dynamic complexes with lipids
-
P.S. Niemelä, M.S. Miettinen, L. Monticelli, H. Hammaren, P. Bjelkmar, T. Murtola, E. Lindahl, and I. Vattulainen Membrane proteins diffuse as dynamic complexes with lipids J. Am. Chem. Soc. 132 2010 7574 7575
-
(2010)
J. Am. Chem. Soc.
, vol.132
, pp. 7574-7575
-
-
Niemelä, P.S.1
Miettinen, M.S.2
Monticelli, L.3
Hammaren, H.4
Bjelkmar, P.5
Murtola, T.6
Lindahl, E.7
Vattulainen, I.8
-
4
-
-
66249083118
-
Emerging roles for lipids in shaping membrane-protein function
-
R. Phillips, T. Ursell, P. Wiggins, and P. Sens Emerging roles for lipids in shaping membrane-protein function Nature 459 2009 379 385
-
(2009)
Nature
, vol.459
, pp. 379-385
-
-
Phillips, R.1
Ursell, T.2
Wiggins, P.3
Sens, P.4
-
5
-
-
84856213807
-
Molecular recognition of a single sphingolipid species by a protein's transmembrane domain
-
F.-X. Contreras, A.M. Ernst, P. Haberkant, P. Björkholm, E. Lindahl, B. Gönen, C. Tischer, A. Elofsson, G. von Heijne, C. Thiele, R. Pepperkok, F. Wieland, and B. Brügger Molecular recognition of a single sphingolipid species by a protein's transmembrane domain Nature 481 2012 525 529
-
(2012)
Nature
, vol.481
, pp. 525-529
-
-
Contreras, F.-X.1
Ernst, A.M.2
Haberkant, P.3
Björkholm, P.4
Lindahl, E.5
Gönen, B.6
Tischer, C.7
Elofsson, A.8
Von Heijne, G.9
Thiele, C.10
Pepperkok, R.11
Wieland, F.12
Brügger, B.13
-
6
-
-
49749095639
-
Lipids and membrane protein structures
-
C. Hunte, and S. Richers Lipids and membrane protein structures Curr. Opin. Struct. Biol. 18 2008 406 411
-
(2008)
Curr. Opin. Struct. Biol.
, vol.18
, pp. 406-411
-
-
Hunte, C.1
Richers, S.2
-
7
-
-
0025325825
-
Phospholipid specificity of bovine heart bc1 complex
-
H. Schägger, T. Hagen, B. Roth, U. Brandt, T.A. Link, and G. von Jagow Phospholipid specificity of bovine heart bc1 complex Eur. J. Biochem. 190 1990 123 130
-
(1990)
Eur. J. Biochem.
, vol.190
, pp. 123-130
-
-
Schägger, H.1
Hagen, T.2
Roth, B.3
Brandt, U.4
Link, T.A.5
Von Jagow, G.6
-
8
-
-
0019320448
-
Structural role of phospholipids in ubiquinol-cytochrome c reductase
-
C.A. Yu, and L. Yu Structural role of phospholipids in ubiquinol-cytochrome c reductase Biochemistry 19 1980 5715 5720
-
(1980)
Biochemistry
, vol.19
, pp. 5715-5720
-
-
Yu, C.A.1
Yu, L.2
-
9
-
-
0032537117
-
Electron transfer by domain movement in cytochrome bc1
-
Z. Zhang, L. Huang, V.M. Shulmeister, Y.I. Chi, K.K. Kim, L.W. Hung, A.R. Crofts, E.A. Berry, and S.H. Kim Electron transfer by domain movement in cytochrome bc1 Nature 392 1998 677 684
-
(1998)
Nature
, vol.392
, pp. 677-684
-
-
Zhang, Z.1
Huang, L.2
Shulmeister, V.M.3
Chi, Y.I.4
Kim, K.K.5
Hung, L.W.6
Crofts, A.R.7
Berry, E.A.8
Kim, S.H.9
-
10
-
-
0041401742
-
Structure of the yeast cytochrome bc1 complex with a hydroxyquinone anion Qo site inhibitor bound
-
H. Palsdottir, C.G. Lojero, B.L. Trumpower, and C. Hunte Structure of the yeast cytochrome bc1 complex with a hydroxyquinone anion Qo site inhibitor bound J. Biol. Chem. 278 2003 31303 31311
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 31303-31311
-
-
Palsdottir, H.1
Lojero, C.G.2
Trumpower, B.L.3
Hunte, C.4
-
11
-
-
22544467474
-
Binding of the respiratory chain inhibitor antimycin to the mitochondrial bc1 complex: A new crystal structure reveals an altered intramolecular hydrogen-bonding pattern
-
L.-S. Huang, D. Cobessi, E.Y. Tung, and E.A. Berry Binding of the respiratory chain inhibitor antimycin to the mitochondrial bc1 complex: a new crystal structure reveals an altered intramolecular hydrogen-bonding pattern J. Mol. Biol. 351 2005 573 597
-
(2005)
J. Mol. Biol.
, vol.351
, pp. 573-597
-
-
Huang, L.-S.1
Cobessi, D.2
Tung, E.Y.3
Berry, E.A.4
-
12
-
-
75649124208
-
Ascochlorin is a novel, specific inhibitor of the mitochondrial cytochrome bc1 complex
-
E.A. Berry, L.-S. Huang, D.-W. Lee, F. Daldal, K. Nagai, and N. Minagawa Ascochlorin is a novel, specific inhibitor of the mitochondrial cytochrome bc1 complex Biochim. Biophys. Acta 1797 2010 360 370
-
(2010)
Biochim. Biophys. Acta
, vol.1797
, pp. 360-370
-
-
Berry, E.A.1
Huang, L.-S.2
Lee, D.-W.3
Daldal, F.4
Nagai, K.5
Minagawa, N.6
-
13
-
-
0034663688
-
Crystallographic location of two Zn(2 +)-binding sites in the avian cytochrome bc(1) complex
-
E.A. Berry, Z. Zhang, H.D. Bellamy, and L. Huang Crystallographic location of two Zn(2 +)-binding sites in the avian cytochrome bc(1) complex Biochim. Biophys. Acta 1459 2000 440 448
-
(2000)
Biochim. Biophys. Acta
, vol.1459
, pp. 440-448
-
-
Berry, E.A.1
Zhang, Z.2
Bellamy, H.D.3
Huang, L.4
-
14
-
-
4143084952
-
Crystallographic studies of quinol oxidation site inhibitors: A modified classification of inhibitors for the cytochrome bc(1) complex
-
L. Esser, B. Quinn, Y.-F. Li, M. Zhang, M. Elberry, L. Yu, C.-A. Yu, and Di Xia Crystallographic studies of quinol oxidation site inhibitors: a modified classification of inhibitors for the cytochrome bc(1) complex J. Mol. Biol. 341 2004 281 302
-
(2004)
J. Mol. Biol.
, vol.341
, pp. 281-302
-
-
Esser, L.1
Quinn, B.2
Li, Y.-F.3
Zhang, M.4
Elberry, M.5
Yu, L.6
Yu, C.-A.7
Xia, D.8
-
15
-
-
33947146185
-
Mutational analysis of cytochrome b at the ubiquinol oxidation site of yeast complex III
-
T. Wenz, R. Covian, P. Hellwig, F. Macmillan, B. Meunier, B.L. Trumpower, and C. Hunte Mutational analysis of cytochrome b at the ubiquinol oxidation site of yeast complex III J. Biol. Chem. 282 2007 3977 3988
-
(2007)
J. Biol. Chem.
, vol.282
, pp. 3977-3988
-
-
Wenz, T.1
Covian, R.2
Hellwig, P.3
MacMillan, F.4
Meunier, B.5
Trumpower, B.L.6
Hunte, C.7
-
16
-
-
66749192576
-
Role of phospholipids in respiratory cytochrome bc(1) complex catalysis and supercomplex formation
-
T. Wenz, R. Hielscher, P. Hellwig, H. Schägger, S. Richers, and C. Hunte Role of phospholipids in respiratory cytochrome bc(1) complex catalysis and supercomplex formation Biochim. Biophys. Acta 1787 2009 609 616
-
(2009)
Biochim. Biophys. Acta
, vol.1787
, pp. 609-616
-
-
Wenz, T.1
Hielscher, R.2
Hellwig, P.3
Schägger, H.4
Richers, S.5
Hunte, C.6
-
17
-
-
0019887784
-
Cardiolipin requirement for electron transfer in complex i and III of the mitochondrial respiratory chain
-
M. Fry, and D.E. Green Cardiolipin requirement for electron transfer in complex I and III of the mitochondrial respiratory chain J. Biol. Chem. 256 1981 1874 1880
-
(1981)
J. Biol. Chem.
, vol.256
, pp. 1874-1880
-
-
Fry, M.1
Green, D.E.2
-
18
-
-
0039843110
-
Phospholipase digestion of bound cardiolipin reversibly inactivates bovine cytochrome bc1
-
B. Gomez, and N.C. Robinson Phospholipase digestion of bound cardiolipin reversibly inactivates bovine cytochrome bc1 Biochemistry 38 1999 9031 9038
-
(1999)
Biochemistry
, vol.38
, pp. 9031-9038
-
-
Gomez, B.1
Robinson, N.C.2
-
19
-
-
0026603840
-
Cardiolipins and biomembrane function
-
F. Hoch Cardiolipins and biomembrane function Biochim. Biophys. Acta 1113 1992 71 133
-
(1992)
Biochim. Biophys. Acta
, vol.1113
, pp. 71-133
-
-
Hoch, F.1
-
20
-
-
0034193996
-
The biosynthesis and functional role of cardiolipin
-
M. Schlame, D. Rua, and M.L. Greenberg The biosynthesis and functional role of cardiolipin Prog. Lipid Res. 39 2000 257 288
-
(2000)
Prog. Lipid Res.
, vol.39
, pp. 257-288
-
-
Schlame, M.1
Rua, D.2
Greenberg, M.L.3
-
21
-
-
0037113864
-
Gluing the respiratory chain together. Cardiolipin is required for supercomplex formation in the inner mitochondrial membrane
-
M. Zhang, E. Mileykovskaya, and W. Dowhan Gluing the respiratory chain together. Cardiolipin is required for supercomplex formation in the inner mitochondrial membrane J. Biol. Chem. 277 2002 43553 43556
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 43553-43556
-
-
Zhang, M.1
Mileykovskaya, E.2
Dowhan, W.3
-
22
-
-
0035803487
-
Specific roles of protein-phospholipid interactions in the yeast cytochrome bc1 complex structure
-
C. Lange, J.H. Nett, B.L. Trumpower, and C. Hunte Specific roles of protein-phospholipid interactions in the yeast cytochrome bc1 complex structure EMBO J. 20 2001 6591 6600
-
(2001)
EMBO J.
, vol.20
, pp. 6591-6600
-
-
Lange, C.1
Nett, J.H.2
Trumpower, B.L.3
Hunte, C.4
-
23
-
-
0037174138
-
Cardiolipin: A proton trap for oxidative phosphorylation
-
T.H. Haines, and N.A. Dencher Cardiolipin: a proton trap for oxidative phosphorylation FEBS Lett. 528 2002 35 39
-
(2002)
FEBS Lett.
, vol.528
, pp. 35-39
-
-
Haines, T.H.1
Dencher, N.A.2
-
24
-
-
0038730358
-
Protonmotive pathways and mechanisms in the cytochrome bc1 complex
-
C. Hunte, H. Palsdottir, and B.L. Trumpower Protonmotive pathways and mechanisms in the cytochrome bc1 complex FEBS Lett. 545 2003 39 46
-
(2003)
FEBS Lett.
, vol.545
, pp. 39-46
-
-
Hunte, C.1
Palsdottir, H.2
Trumpower, B.L.3
-
25
-
-
47749126543
-
Structure of complex III with bound cytochrome c in reduced state and definition of a minimal core interface for electron transfer
-
S.R.N. Solmaz, and C. Hunte Structure of complex III with bound cytochrome c in reduced state and definition of a minimal core interface for electron transfer J. Biol. Chem. 283 2008 17542 17549
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 17542-17549
-
-
Solmaz, S.R.N.1
Hunte, C.2
-
26
-
-
14544292020
-
Electrostatic interactions between model mitochondrial membranes
-
S. Nichols-Smith, and T. Kuhl Electrostatic interactions between model mitochondrial membranes Colloids Surf. B Biointerfaces 41 2005 121 127
-
(2005)
Colloids Surf. B Biointerfaces
, vol.41
, pp. 121-127
-
-
Nichols-Smith, S.1
Kuhl, T.2
-
28
-
-
71549166641
-
Mitochondrial membranes with mono- and divalent salt: Changes induced by salt ions on structure and dynamics
-
S. Pöyry, T. Róg, M. Karttunen, and I. Vattulainen Mitochondrial membranes with mono- and divalent salt: changes induced by salt ions on structure and dynamics J. Phys. Chem. B 113 2009 15513 15521
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 15513-15521
-
-
Pöyry, S.1
Róg, T.2
Karttunen, M.3
Vattulainen, I.4
-
29
-
-
53049083198
-
Molecular dynamics simulations of cardiolipin bilayers
-
M. Dahlberg, and A. Maliniak Molecular dynamics simulations of cardiolipin bilayers J. Phys. Chem. B 112 2008 11655 11663
-
(2008)
J. Phys. Chem. B
, vol.112
, pp. 11655-11663
-
-
Dahlberg, M.1
Maliniak, A.2
-
30
-
-
84860778070
-
Insight into the properties of cardiolipin containing bilayers from molecular dynamics simulations, using a hybrid all-atom/united-atom force field
-
D. Aguayo, F.D. González-Nilo, and C. Chipot Insight into the properties of cardiolipin containing bilayers from molecular dynamics simulations, using a hybrid all-atom/united-atom force field J. Chem. Theory Comput. 8 2012 1765 1773
-
(2012)
J. Chem. Theory Comput.
, vol.8
, pp. 1765-1773
-
-
Aguayo, D.1
González-Nilo, F.D.2
Chipot, C.3
-
31
-
-
84876898313
-
Parameterization of the prosthetic redox centers of the bacterial cytochrome bc1 complex for atomistic molecular dynamics simulations
-
in press
-
K. Kaszuba, P.A. Postila, O. Cramariuc, M. Sarewicz, A. Osyczka, I. Vattulainen, T. Róg, Parameterization of the prosthetic redox centers of the bacterial cytochrome bc1 complex for atomistic molecular dynamics simulations. Theoretical Chemistry Accounts. in press.
-
Theoretical Chemistry Accounts
-
-
Kaszuba, K.1
-
32
-
-
84875951229
-
Key role of water in proton transfer at the Qo-site of the cytochrome bc1 complex predicted by atomistic molecular dynamics simulations
-
doi:10.1016/j.bbabio.2013.02.005 in press
-
P.A. Postila, K. Kaszuba, M. Sarewicz, A. Osyczka, I. Vattulainen, T. Róg, Key role of water in proton transfer at the Qo-site of the cytochrome bc1 complex predicted by atomistic molecular dynamics simulations. BBA Bioenerg. in press, http://dx.doi.org/10.1016/j.bbabio.2013.02.005.
-
BBA Bioenerg
-
-
Postila, P.A.1
-
33
-
-
4043152888
-
X-ray structure of Rhodobacter capsulatus cytochrome bc (1): Comparison with its mitochondrial and chloroplast counterparts
-
E.A. Berry, L.-S. Huang, L.K. Saechao, N.G. Pon, M. Valkova-Valchanova, and F. Daldal X-ray structure of Rhodobacter capsulatus cytochrome bc (1): comparison with its mitochondrial and chloroplast counterparts Photosynth. Res. 81 2004 251 275
-
(2004)
Photosynth. Res.
, vol.81
, pp. 251-275
-
-
Berry, E.A.1
Huang, L.-S.2
Saechao, L.K.3
Pon, N.G.4
Valkova-Valchanova, M.5
Daldal, F.6
-
35
-
-
65249133096
-
Role of cardiolipins in the inner mitochondrial membrane: Insight gained through atom-scale simulations
-
T. Róg, H. Martinez-Seara, N. Munck, M. Oresic, M. Karttunen, and I. Vattulainen Role of cardiolipins in the inner mitochondrial membrane: insight gained through atom-scale simulations J. Phys. Chem. B 113 2009 3413 3422
-
(2009)
J. Phys. Chem. B
, vol.113
, pp. 3413-3422
-
-
Róg, T.1
Martinez-Seara, H.2
Munck, N.3
Oresic, M.4
Karttunen, M.5
Vattulainen, I.6
-
36
-
-
27344436659
-
Scalable molecular dynamics with NAMD
-
J.C. Phillips, R. Braun, W. Wang, J. Gumbart, E. Tajkhorshid, E. Villa, C. Chipot, R.D. Skeel, L. Kalé, and K. Schulten Scalable molecular dynamics with NAMD J. Comput. Chem. 26 2005 1781 1802
-
(2005)
J. Comput. Chem.
, vol.26
, pp. 1781-1802
-
-
Phillips, J.C.1
Braun, R.2
Wang, W.3
Gumbart, J.4
Tajkhorshid, E.5
Villa, E.6
Chipot, C.7
Skeel, R.D.8
Kalé, L.9
Schulten, K.10
-
37
-
-
3142714765
-
Extending the treatment of backbone energetics in protein force fields: Limitations of gas-phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulations
-
A.D. Mackerell, M. Feig, and C.L. Brooks Extending the treatment of backbone energetics in protein force fields: limitations of gas-phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulations J. Comput. Chem. 25 2004 1400 1415
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1400-1415
-
-
MacKerell, A.D.1
Feig, M.2
Brooks, C.L.3
-
38
-
-
60649103257
-
Validation of all-atom phosphatidylcholine lipid force fields in the tensionless NPT ensemble
-
J. Taylor, N.E. Whiteford, G. Bradley, and G.W. Watson Validation of all-atom phosphatidylcholine lipid force fields in the tensionless NPT ensemble Biochim. Biophys. Acta 1788 2009 638 649
-
(2009)
Biochim. Biophys. Acta
, vol.1788
, pp. 638-649
-
-
Taylor, J.1
Whiteford, N.E.2
Bradley, G.3
Watson, G.W.4
-
39
-
-
77953967138
-
Molecular dynamics simulations reveal fundamental role of water as factor determining affinity of binding of beta-blocker nebivolol to beta(2)-adrenergic receptor
-
K. Kaszuba, T. Róg, K. Bryl, I. Vattulainen, and M. Karttunen Molecular dynamics simulations reveal fundamental role of water as factor determining affinity of binding of beta-blocker nebivolol to beta(2)-adrenergic receptor J. Phys. Chem. B 114 2010 8374 8386
-
(2010)
J. Phys. Chem. B
, vol.114
, pp. 8374-8386
-
-
Kaszuba, K.1
Róg, T.2
Bryl, K.3
Vattulainen, I.4
Karttunen, M.5
-
40
-
-
33645961739
-
A smooth particle mesh Ewald method
-
U. Essmann, L. Perera, M.L. Berkowitz, T. Darden, H. Lee, and L.G. Pedersen A smooth particle mesh Ewald method J. Chem. Phys. 103 1995 8577
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
41
-
-
19944426826
-
BODIL: A molecular modeling environment for structure-function analysis and drug design
-
J.V. Lehtonen, D.-J. Still, V.-V. Rantanen, J. Ekholm, D. Björklund, Z. Iftikhar, M. Huhtala, S. Repo, A. Jussila, J. Jaakkola, O. Pentikäinen, T. Nyrönen, T. Salminen, M. Gyllenberg, and M.S. Johnson BODIL: a molecular modeling environment for structure-function analysis and drug design J. Comput. Aided Mol. Des. 18 2004 401 419
-
(2004)
J. Comput. Aided Mol. Des.
, vol.18
, pp. 401-419
-
-
Lehtonen, J.V.1
Still, D.-J.2
Rantanen, V.-V.3
Ekholm, J.4
Björklund, D.5
Iftikhar, Z.6
Huhtala, M.7
Repo, S.8
Jussila, A.9
Jaakkola, J.10
Pentikäinen, O.11
Nyrönen, T.12
Salminen, T.13
Gyllenberg, M.14
Johnson, M.S.15
-
42
-
-
22244445788
-
Imaging alpha-hemolysin with molecular dynamics: Ionic conductance, osmotic permeability, and the electrostatic potential map
-
A. Aksimentiev, and K. Schulten Imaging alpha-hemolysin with molecular dynamics: ionic conductance, osmotic permeability, and the electrostatic potential map Biophys. J. 88 2005 3745 3761
-
(2005)
Biophys. J.
, vol.88
, pp. 3745-3761
-
-
Aksimentiev, A.1
Schulten, K.2
-
43
-
-
0026244229
-
MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
-
P.J. Kraulis MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures J. Appl. Crystallogr. 24 1991 946 950
-
(1991)
J. Appl. Crystallogr.
, vol.24
, pp. 946-950
-
-
Kraulis, P.J.1
-
46
-
-
56649111202
-
The role of molecular modeling in the design of analogues of the fungicidal natural products crocacins A and D
-
P.J. Crowley, E.A. Berry, T. Cromartie, F. Daldal, C.R.A. Godfrey, D.-W. Lee, J.E. Phillips, A. Taylor, and R. Viner The role of molecular modeling in the design of analogues of the fungicidal natural products crocacins A and D Bioorg. Med. Chem. 16 2008 10345 10355
-
(2008)
Bioorg. Med. Chem.
, vol.16
, pp. 10345-10355
-
-
Crowley, P.J.1
Berry, E.A.2
Cromartie, T.3
Daldal, F.4
Godfrey, C.R.A.5
Lee, D.-W.6
Phillips, J.E.7
Taylor, A.8
Viner, R.9
-
47
-
-
27844436560
-
Specific protein-lipid interactions in membrane proteins
-
C. Hunte Specific protein-lipid interactions in membrane proteins Biochem. Soc. Trans. 33 2005 938 942
-
(2005)
Biochem. Soc. Trans.
, vol.33
, pp. 938-942
-
-
Hunte, C.1
-
48
-
-
84874599376
-
Evidence for cardiolipin binding sites on the membrane-exposed surface of the cytochrome bc1
-
10.1021/ja310577u
-
C. Arnarez, J.-P. Mazat, J. Elezgaray, S.-J. Marrink, and X. Periole Evidence for cardiolipin binding sites on the membrane-exposed surface of the cytochrome bc1 J. Am. Chem. Soc. 135 8 2013 3112 3120 10.1021/ja310577u
-
(2013)
J. Am. Chem. Soc.
, vol.135
, Issue.8
, pp. 3112-3120
-
-
Arnarez, C.1
Mazat, J.-P.2
Elezgaray, J.3
Marrink, S.-J.4
Periole, X.5
|