-
1
-
-
0041353145
-
Structure and mechanism of the lactose permease of Escherichia coli
-
Abramson J., Smirnova I., Kasho V., Verner G., Kaback H.R., and Iwata S. Structure and mechanism of the lactose permease of Escherichia coli. Science 301 (2003) 610-615
-
(2003)
Science
, vol.301
, pp. 610-615
-
-
Abramson, J.1
Smirnova, I.2
Kasho, V.3
Verner, G.4
Kaback, H.R.5
Iwata, S.6
-
2
-
-
0036154304
-
Molecular dynamics simulations of the ligand binding domain of the ionotropic glutamate receptor, GluR2
-
Arinaminpathy Y., Sansom M.S.P., and Biggin P.C. Molecular dynamics simulations of the ligand binding domain of the ionotropic glutamate receptor, GluR2. Biophys. J. 82 (2002) 676-683
-
(2002)
Biophys. J.
, vol.82
, pp. 676-683
-
-
Arinaminpathy, Y.1
Sansom, M.S.P.2
Biggin, P.C.3
-
3
-
-
33644845526
-
Binding site flexibility: molecular simulation of partial and full agonists within a glutamate receptor
-
Arinaminpathy Y., Sansom M.S.P., and Biggin P.C. Binding site flexibility: molecular simulation of partial and full agonists within a glutamate receptor. Mol. Pharmacol. 69 (2006) 5-12
-
(2006)
Mol. Pharmacol.
, vol.69
, pp. 5-12
-
-
Arinaminpathy, Y.1
Sansom, M.S.P.2
Biggin, P.C.3
-
4
-
-
0030623823
-
Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential
-
Bahar I., Atilgan A.R., and Erman B. Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential. Fold. Des. 2 (1997) 173-181
-
(1997)
Fold. Des.
, vol.2
, pp. 173-181
-
-
Bahar, I.1
Atilgan, A.R.2
Erman, B.3
-
5
-
-
33745634422
-
Asymmetric stability among transmembrane helices of lactose permease
-
Bennett M., D'Rozario R., Sansom M.S.P., and Yeagle P.L. Asymmetric stability among transmembrane helices of lactose permease. Biochemistry 45 (2006) 8088-8095
-
(2006)
Biochemistry
, vol.45
, pp. 8088-8095
-
-
Bennett, M.1
D'Rozario, R.2
Sansom, M.S.P.3
Yeagle, P.L.4
-
6
-
-
0021173171
-
The phospholipid requirement for activity of the lactose carrier of Escherichia coli
-
Chen C.C., and Wilson T.H. The phospholipid requirement for activity of the lactose carrier of Escherichia coli. J. Biol. Chem. 259 (1984) 10150-10158
-
(1984)
J. Biol. Chem.
, vol.259
, pp. 10150-10158
-
-
Chen, C.C.1
Wilson, T.H.2
-
7
-
-
0036430199
-
Proline-induced distortions of transmembrane helices
-
Cordes F.S., Bright J.N., and Sansom M.S.P. Proline-induced distortions of transmembrane helices. J. Mol. Biol. 323 (2002) 951-960
-
(2002)
J. Mol. Biol.
, vol.323
, pp. 951-960
-
-
Cordes, F.S.1
Bright, J.N.2
Sansom, M.S.P.3
-
8
-
-
33846823909
-
Particle mesh Ewald: an N.log(N) method for Ewald sums in large systems
-
Darden T., York D., and Pedersen L. Particle mesh Ewald: an N.log(N) method for Ewald sums in large systems. J. Chem. Phys. 98 (1993) 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
9
-
-
0022427790
-
The size of the lactose permease derived from rotational diffusion measurements
-
Dornmair K., Corin A.F., Wright J.K., and Jähnig F. The size of the lactose permease derived from rotational diffusion measurements. EMBO J. 4 (1985) 3633-3638
-
(1985)
EMBO J.
, vol.4
, pp. 3633-3638
-
-
Dornmair, K.1
Corin, A.F.2
Wright, J.K.3
Jähnig, F.4
-
10
-
-
0024497110
-
Fast measurement of galactoside transport by lactose permease
-
Dornmair K., Overath P., and Jähnig F. Fast measurement of galactoside transport by lactose permease. J. Biol. Chem. 264 (1989) 342-346
-
(1989)
J. Biol. Chem.
, vol.264
, pp. 342-346
-
-
Dornmair, K.1
Overath, P.2
Jähnig, F.3
-
11
-
-
10344261477
-
Conformational sampling and dynamics of membrane proteins from 10-nanosecond computer simulations
-
Faraldo-Gómez J.D., Forrest L.R., Baaden M., Bond P.J., Domene C., Patargias G., Cuthbertson J., and Sansom M.S.P. Conformational sampling and dynamics of membrane proteins from 10-nanosecond computer simulations. Proteins 57 (2004) 783-791
-
(2004)
Proteins
, vol.57
, pp. 783-791
-
-
Faraldo-Gómez, J.D.1
Forrest, L.R.2
Baaden, M.3
Bond, P.J.4
Domene, C.5
Patargias, G.6
Cuthbertson, J.7
Sansom, M.S.P.8
-
12
-
-
0030685033
-
Cysteine-scanning mutagenesis of helix IV and the adjoining loops in the lactose permease of Escherichia coli: Glu126 and Arg144 are essential
-
Frillingos S., Gonzalez A., and Kaback H.R. Cysteine-scanning mutagenesis of helix IV and the adjoining loops in the lactose permease of Escherichia coli: Glu126 and Arg144 are essential. Biochemistry 36 (1997) 14284-14290
-
(1997)
Biochemistry
, vol.36
, pp. 14284-14290
-
-
Frillingos, S.1
Gonzalez, A.2
Kaback, H.R.3
-
13
-
-
33847361456
-
Convergence of molecular dynamics simulations of membrane proteins
-
Grossfield A., Feller S.E., and Pitman M.C. Convergence of molecular dynamics simulations of membrane proteins. Proteins 67 (2007) 31-40
-
(2007)
Proteins
, vol.67
, pp. 31-40
-
-
Grossfield, A.1
Feller, S.E.2
Pitman, M.C.3
-
14
-
-
24944551911
-
Conformational dynamics of M2 helices in KirBac channels: helix flexibility in relation to gating via molecular dynamics simulations
-
Grottesi A., Domene C., and Sansom M.S.P. Conformational dynamics of M2 helices in KirBac channels: helix flexibility in relation to gating via molecular dynamics simulations. Biochemistry 44 (2005) 14586-14594
-
(2005)
Biochemistry
, vol.44
, pp. 14586-14594
-
-
Grottesi, A.1
Domene, C.2
Sansom, M.S.P.3
-
16
-
-
33646271115
-
Molecular dynamics studies of the archael translocon
-
Gumbart J., and Schulten K. Molecular dynamics studies of the archael translocon. Biophys. J. 90 (2006) 2356-2367
-
(2006)
Biophys. J.
, vol.90
, pp. 2356-2367
-
-
Gumbart, J.1
Schulten, K.2
-
17
-
-
33751074442
-
Simulations of a protein translocation pore: SecY
-
Haider S., Hall B.A., and Sansom M.S.P. Simulations of a protein translocation pore: SecY. Biochemistry 45 (2006) 13018-13024
-
(2006)
Biochemistry
, vol.45
, pp. 13018-13024
-
-
Haider, S.1
Hall, B.A.2
Sansom, M.S.P.3
-
18
-
-
1842687872
-
Biomolecular cryocrystallography: structural changes during flash-cooling
-
Halle B. Biomolecular cryocrystallography: structural changes during flash-cooling. Proc. Natl. Acad. Sci. USA 101 (2004) 4793-4798
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 4793-4798
-
-
Halle, B.1
-
19
-
-
0030771680
-
Interaction between residues Glu269 (helix VIII) and His322 (helix X) of the lactose permease of Escherichia coli is essential for substrate binding
-
He M.M., and Kaback H.R. Interaction between residues Glu269 (helix VIII) and His322 (helix X) of the lactose permease of Escherichia coli is essential for substrate binding. Biochemistry 36 (1997) 13688-13692
-
(1997)
Biochemistry
, vol.36
, pp. 13688-13692
-
-
He, M.M.1
Kaback, H.R.2
-
21
-
-
0001538909
-
Canonical dynamics: equilibrium phase-space distributions
-
Hoover W.G. Canonical dynamics: equilibrium phase-space distributions. Phys. Rev. A 31 (1985) 1695-1697
-
(1985)
Phys. Rev. A
, vol.31
, pp. 1695-1697
-
-
Hoover, W.G.1
-
23
-
-
33947284958
-
Dynamics and function in a bacterial ABC transporter: simulation studies of the BtuCDF system and its components
-
Ivetac A., Campbell J.D., and Sansom M.S.P. Dynamics and function in a bacterial ABC transporter: simulation studies of the BtuCDF system and its components. Biochemistry 46 (2007) 2767-2778
-
(2007)
Biochemistry
, vol.46
, pp. 2767-2778
-
-
Ivetac, A.1
Campbell, J.D.2
Sansom, M.S.P.3
-
24
-
-
2642541140
-
+/lactose coupling by ionic interactions in the lactose permease of Escherichia coli
-
+/lactose coupling by ionic interactions in the lactose permease of Escherichia coli. J. Membr. Biol. 198 (2004) 135-146
-
(2004)
J. Membr. Biol.
, vol.198
, pp. 135-146
-
-
Johnson, J.L.1
Brooker, R.J.2
-
25
-
-
0026637655
-
The lactose permease of Escherichia coli: a paradigm for membrane transport proteins
-
Kaback H.R. The lactose permease of Escherichia coli: a paradigm for membrane transport proteins. Biochim. Biophys. Acta 1101 (1992) 210-213
-
(1992)
Biochim. Biophys. Acta
, vol.1101
, pp. 210-213
-
-
Kaback, H.R.1
-
26
-
-
33846277908
-
Site-directed alkylation and the alternating access model for LacY
-
Kaback H.R., Dunten R., Frillingos S., Venkatesan P., Kwaw I., Zhang W., and Ermolova N. Site-directed alkylation and the alternating access model for LacY. Proc. Natl. Acad. Sci. USA 104 (2006) 491-494
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 491-494
-
-
Kaback, H.R.1
Dunten, R.2
Frillingos, S.3
Venkatesan, P.4
Kwaw, I.5
Zhang, W.6
Ermolova, N.7
-
27
-
-
0034029144
-
Proteins with similar architecture exhibit similar large-scale dynamic behavior
-
Keskin O., Jernigan R.L., and Bahar I. Proteins with similar architecture exhibit similar large-scale dynamic behavior. Biophys. J. 78 (2000) 2093-2106
-
(2000)
Biophys. J.
, vol.78
, pp. 2093-2106
-
-
Keskin, O.1
Jernigan, R.L.2
Bahar, I.3
-
28
-
-
33947132573
-
Sugar binding in lactose permease: anomeric state of a disaccharide influences binding structure
-
Klauda J.B., and Brooks B.R. Sugar binding in lactose permease: anomeric state of a disaccharide influences binding structure. J. Mol. Biol. 367 (2007) 1523-1534
-
(2007)
J. Mol. Biol.
, vol.367
, pp. 1523-1534
-
-
Klauda, J.B.1
Brooks, B.R.2
-
30
-
-
0035789518
-
GROMACS 3.0: a package for molecular simulation and trajectory analysis
-
Lindahl E., Hess B., and van der Spoel D. GROMACS 3.0: a package for molecular simulation and trajectory analysis. J. Mol. Model. (Online) 7 (2001) 306-317
-
(2001)
J. Mol. Model. (Online)
, vol.7
, pp. 306-317
-
-
Lindahl, E.1
Hess, B.2
van der Spoel, D.3
-
31
-
-
7044224839
-
The protein-lipid interface: perspectives from magnetic resonance and crystal structures
-
Marsh D., and Pali T. The protein-lipid interface: perspectives from magnetic resonance and crystal structures. Biochim. Biophys. Acta 1666 (2004) 118-141
-
(2004)
Biochim. Biophys. Acta
, vol.1666
, pp. 118-141
-
-
Marsh, D.1
Pali, T.2
-
32
-
-
0035370422
-
Optimizing the hydrogen-bond network in Poisson-Boltzmann equation-based pK(a) calculations
-
Nielsen J.E., and Vriend G. Optimizing the hydrogen-bond network in Poisson-Boltzmann equation-based pK(a) calculations. Proteins 43 (2001) 403-412
-
(2001)
Proteins
, vol.43
, pp. 403-412
-
-
Nielsen, J.E.1
Vriend, G.2
-
33
-
-
84943502952
-
A molecular dynamics method for simulations in the canonical ensemble
-
Nose S. A molecular dynamics method for simulations in the canonical ensemble. Mol. Physiol. 52 (1984) 255-268
-
(1984)
Mol. Physiol.
, vol.52
, pp. 255-268
-
-
Nose, S.1
-
34
-
-
7244240754
-
Conformational transitions induced by the binding of MgATP to the vitamin B12 ATP-binding cassette (ABC) transporter BtuCD
-
Oloo E.O., and Tieleman D.P. Conformational transitions induced by the binding of MgATP to the vitamin B12 ATP-binding cassette (ABC) transporter BtuCD. J. Biol. Chem. 279 (2004) 45013-45019
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 45013-45019
-
-
Oloo, E.O.1
Tieleman, D.P.2
-
35
-
-
33646125196
-
Stoichiometry of lipid interactions with transmembrane proteins-deduced from the 3D structures
-
Páli T., Bashtovyy D., and Marsh D. Stoichiometry of lipid interactions with transmembrane proteins-deduced from the 3D structures. Protein Sci. 15 (2006) 1153-1161
-
(2006)
Protein Sci.
, vol.15
, pp. 1153-1161
-
-
Páli, T.1
Bashtovyy, D.2
Marsh, D.3
-
36
-
-
0037671391
-
Interdomain dynamics and ligand binding: molecular dynamics simulations of glutamine binding protein
-
Pang A., Arinaminpathy Y., Sansom M.S.P., and Biggin P.C. Interdomain dynamics and ligand binding: molecular dynamics simulations of glutamine binding protein. FEBS Lett. 550 (2003) 168-174
-
(2003)
FEBS Lett.
, vol.550
, pp. 168-174
-
-
Pang, A.1
Arinaminpathy, Y.2
Sansom, M.S.P.3
Biggin, P.C.4
-
38
-
-
0019707626
-
Polymorphic transitions in single-crystals: a new molecular-dynamics method
-
Parrinello M., and Rahman A. Polymorphic transitions in single-crystals: a new molecular-dynamics method. J. Appl. Phys. 52 (1981) 7182-7190
-
(1981)
J. Appl. Phys.
, vol.52
, pp. 7182-7190
-
-
Parrinello, M.1
Rahman, A.2
-
39
-
-
4143116650
-
Computational studies of membrane channels
-
Roux B., and Schulten K. Computational studies of membrane channels. Structure 12 (2004) 1343-1351
-
(2004)
Structure
, vol.12
, pp. 1343-1351
-
-
Roux, B.1
Schulten, K.2
-
40
-
-
0035932954
-
Arg-302 facilitates deprotonation of Glu-325 in the transport mechanism of the lactose permease from Escherichia coli
-
Sahin-Toth M., and Kaback H.R. Arg-302 facilitates deprotonation of Glu-325 in the transport mechanism of the lactose permease from Escherichia coli. Proc. Natl. Acad. Sci. USA 98 (2001) 6068-6073
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 6068-6073
-
-
Sahin-Toth, M.1
Kaback, H.R.2
-
41
-
-
0028291250
-
Properties of permease dimer, a fusion protein containing 2 lactose permease molecules from Escherichia coli
-
Sahin-Toth M., Lawrence M.C., and Kaback H.R. Properties of permease dimer, a fusion protein containing 2 lactose permease molecules from Escherichia coli. Proc. Natl. Acad. Sci. USA 91 (1994) 5421-5425
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 5421-5425
-
-
Sahin-Toth, M.1
Lawrence, M.C.2
Kaback, H.R.3
-
42
-
-
0038257492
-
Characterization of Glu126 and Arg144, two residues that are indispensable for substrate binding in the lactose permease of Escherichia coli
-
Sahin-Toth M., le Coutre J., Kharabi D., le Maire G., Lee J.C., and Kaback H.R. Characterization of Glu126 and Arg144, two residues that are indispensable for substrate binding in the lactose permease of Escherichia coli. Biochemistry 38 (1999) 813-819
-
(1999)
Biochemistry
, vol.38
, pp. 813-819
-
-
Sahin-Toth, M.1
le Coutre, J.2
Kharabi, D.3
le Maire, G.4
Lee, J.C.5
Kaback, H.R.6
-
43
-
-
0034718616
-
Unraveling the mechanism of the lactose permease of Escherichia coli
-
Sahin-Toth M., Karlin A., and Kaback H.R. Unraveling the mechanism of the lactose permease of Escherichia coli. Proc. Natl. Acad. Sci. USA 97 (2000) 10729-10732
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 10729-10732
-
-
Sahin-Toth, M.1
Karlin, A.2
Kaback, H.R.3
-
44
-
-
0033222857
-
The major facilitator superfamily
-
Saier Jr. M.H., Beatty J.T., Goffeau A., Harley K.T., Heijne W.H., Huang S.C., Jack D.L., Jahn P.S., Lew K., Liu J., et al. The major facilitator superfamily. J. Mol. Microbiol. Biotechnol. 1 (1999) 257-279
-
(1999)
J. Mol. Microbiol. Biotechnol.
, vol.1
, pp. 257-279
-
-
Saier Jr., M.H.1
Beatty, J.T.2
Goffeau, A.3
Harley, K.T.4
Heijne, W.H.5
Huang, S.C.6
Jack, D.L.7
Jahn, P.S.8
Lew, K.9
Liu, J.10
-
45
-
-
33744926664
-
Common mechanism of pore opening shared by five different potassium channels
-
Shrivastava I.H., and Bahar I. Common mechanism of pore opening shared by five different potassium channels. Biophys. J. 90 (2006) 3929-3940
-
(2006)
Biophys. J.
, vol.90
, pp. 3929-3940
-
-
Shrivastava, I.H.1
Bahar, I.2
-
46
-
-
0037452911
-
Mutation in the lactose permease of Escherichia coli that decreases conformational flexibility and increases protein stability
-
Smirnova I.N., and Kaback H.R. Mutation in the lactose permease of Escherichia coli that decreases conformational flexibility and increases protein stability. Biochemistry 42 (2003) 3025-3031
-
(2003)
Biochemistry
, vol.42
, pp. 3025-3031
-
-
Smirnova, I.N.1
Kaback, H.R.2
-
47
-
-
0037195088
-
An approach to membrane protein structure without crystals
-
Sorgen P.L., Hu Y.L., Guan L., Kaback H.R., and Girvin M.E. An approach to membrane protein structure without crystals. Proc. Natl. Acad. Sci. USA 99 (2002) 14037-14040
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 14037-14040
-
-
Sorgen, P.L.1
Hu, Y.L.2
Guan, L.3
Kaback, H.R.4
Girvin, M.E.5
-
48
-
-
0030158429
-
PRODRG, a program for generating molecular topologies and unique molecular descriptors from coordinates of small molecules
-
van Aalten D.M., Bywater R., Findlay J.B., Hendlich M., Hooft R.W., and Vriend G. PRODRG, a program for generating molecular topologies and unique molecular descriptors from coordinates of small molecules. J. Comput. Aided Mol. Des. 10 (1996) 255-262
-
(1996)
J. Comput. Aided Mol. Des.
, vol.10
, pp. 255-262
-
-
van Aalten, D.M.1
Bywater, R.2
Findlay, J.B.3
Hendlich, M.4
Hooft, R.W.5
Vriend, G.6
-
49
-
-
0003544049
-
-
Biomos & Hochschulverlag AG an der ETH Zurich, Groningen and Zurich
-
van Gunsteren W.F., Kruger P., Billeter S.R., Mark A.E., Eising A.A., Scott W.R.P., Huneberger P.H., and Tironi I.G. Biomolecular Simulation: The GROMOS96 Manual and User Guide (1996), Biomos & Hochschulverlag AG an der ETH Zurich, Groningen and Zurich
-
(1996)
Biomolecular Simulation: The GROMOS96 Manual and User Guide
-
-
van Gunsteren, W.F.1
Kruger, P.2
Billeter, S.R.3
Mark, A.E.4
Eising, A.A.5
Scott, W.R.P.6
Huneberger, P.H.7
Tironi, I.G.8
-
50
-
-
3042665547
-
Structural conservation in the major facilitator superfamily as revealed by comparative modeling
-
Vardy E., Arkin I.T., Gottschalk K.E., Kaback H.R., and Schuldiner S. Structural conservation in the major facilitator superfamily as revealed by comparative modeling. Protein Sci. 13 (2004) 1832-1840
-
(2004)
Protein Sci.
, vol.13
, pp. 1832-1840
-
-
Vardy, E.1
Arkin, I.T.2
Gottschalk, K.E.3
Kaback, H.R.4
Schuldiner, S.5
-
51
-
-
0025398721
-
WHAT IF: a molecular modeling and drug design program
-
Vriend G. WHAT IF: a molecular modeling and drug design program. J. Mol. Graph. 8 (1990) 52-56
-
(1990)
J. Mol. Graph.
, vol.8
, pp. 52-56
-
-
Vriend, G.1
-
52
-
-
33646445156
-
Structure of the multidrug transporter EmrD from Escherichia coli
-
Yin Y., He X., Szewczyk P., Nguyen T., and Chang G. Structure of the multidrug transporter EmrD from Escherichia coli. Science 312 (2006) 741-744
-
(2006)
Science
, vol.312
, pp. 741-744
-
-
Yin, Y.1
He, X.2
Szewczyk, P.3
Nguyen, T.4
Chang, G.5
-
53
-
-
33845380397
-
Sugar binding and protein conformational changes in lactose permease
-
Yin Y., Jensen M., Tajkhorshid E., and Schulten K. Sugar binding and protein conformational changes in lactose permease. Biophys. J. 91 (2006) 3972-3985
-
(2006)
Biophys. J.
, vol.91
, pp. 3972-3985
-
-
Yin, Y.1
Jensen, M.2
Tajkhorshid, E.3
Schulten, K.4
|