-
1
-
-
0001513363
-
Synthetic peptides as models for ion channel proteins
-
Åkerfeldt, K. S., J. D. Lear, Z. R. Wasserman, L. A. Chung, and W. F. DeGrado. 1993. Synthetic peptides as models for ion channel proteins. Acc. Chem. Res. 26:191-197.
-
(1993)
Acc. Chem. Res.
, vol.26
, pp. 191-197
-
-
Åkerfeldt, K.S.1
Lear, J.D.2
Wasserman, Z.R.3
Chung, L.A.4
DeGrado, W.F.5
-
3
-
-
0030024628
-
Membrane structure of voltage-gated channel-forming peptides by site-directed spin-labeling
-
Barranger-Mathys, M., and D. S. Cafiso. 1996. Membrane structure of voltage-gated channel-forming peptides by site-directed spin-labeling. Biochemistry. 35:498-505.
-
(1996)
Biochemistry
, vol.35
, pp. 498-505
-
-
Barranger-Mathys, M.1
Cafiso, D.S.2
-
4
-
-
0030733344
-
Structure and dynamics of an amphiphilic peptide in a lipid bilayer: A molecular dynamics study
-
Belohorcova, K., J. H. Davis, T. B. Woolf, and B. Roux. 1997. Structure and dynamics of an amphiphilic peptide in a lipid bilayer: a molecular dynamics study. Biophys. J. 73:3039-3055.
-
(1997)
Biophys. J.
, vol.73
, pp. 3039-3055
-
-
Belohorcova, K.1
Davis, J.H.2
Woolf, T.B.3
Roux, B.4
-
5
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen, H. J. C., J. P. M. Postma, W. F. van Gunsteren, A. DiNola, and J. R. Haak. 1984. Molecular dynamics with coupling to an external bath. J. Chem. Phys. 81:3684-3690.
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Van Gunsteren, W.F.3
DiNola, A.4
Haak, J.R.5
-
6
-
-
0029633168
-
GROMACS: A message-passing parallel molecular dynamics implementation
-
Berendsen, H. J. C., D. van der Spoel, and R. van Drunen. 1995. GROMACS: a message-passing parallel molecular dynamics implementation. Comp. Phys. Comm. 95:43-56.
-
(1995)
Comp. Phys. Comm.
, vol.95
, pp. 43-56
-
-
Berendsen, H.J.C.1
Van Der Spoel, D.2
Van Drunen, R.3
-
7
-
-
0030999097
-
Molecular dynamics simulations of a fluid bilayer of dipalmitoylphosphatidycholine at full hydration, constant pressure and constant temperature
-
Berger, O., O. Edholm, and F. Jahnig. 1997. Molecular dynamics simulations of a fluid bilayer of dipalmitoylphosphatidycholine at full hydration, constant pressure and constant temperature. Biophys. J. 72: 2002-2013.
-
(1997)
Biophys. J.
, vol.72
, pp. 2002-2013
-
-
Berger, O.1
Edholm, O.2
Jahnig, F.3
-
8
-
-
0031022167
-
Simulation studies of alamethicin-bilayer interactions
-
Biggin, P., J. Breed, H. S. Son, and M. S. P. Sansom. 1997. Simulation studies of alamethicin-bilayer interactions. Biophys. J. 72:627-636.
-
(1997)
Biophys. J.
, vol.72
, pp. 627-636
-
-
Biggin, P.1
Breed, J.2
Son, H.S.3
Sansom, M.S.P.4
-
9
-
-
0031892162
-
How many membrane proteins are there?
-
Boyd, D., C. Schierle, and J. Beckwith. 1998. How many membrane proteins are there? Protein Sci. 7:201-205.
-
(1998)
Protein Sci.
, vol.7
, pp. 201-205
-
-
Boyd, D.1
Schierle, C.2
Beckwith, J.3
-
10
-
-
0000882208
-
Hypothesis about the function of membrane-buried proline residues in transport proteins
-
Brandl, C. J., and C. M. Deber. 1986. Hypothesis about the function of membrane-buried proline residues in transport proteins. Proc. Natl. Acad. Sci. USA. 83:917-921.
-
(1986)
Proc. Natl. Acad. Sci. USA
, vol.83
, pp. 917-921
-
-
Brandl, C.J.1
Deber, C.M.2
-
11
-
-
0028226051
-
Alamethicin - A peptide model for voltage gating and protein membrane interactions
-
Cafiso, D. S. 1994. Alamethicin - a peptide model for voltage gating and protein membrane interactions. Annu. Rev. Biophys. Biomol. Struct. 23:141-165.
-
(1994)
Annu. Rev. Biophys. Biomol. Struct.
, vol.23
, pp. 141-165
-
-
Cafiso, D.S.1
-
12
-
-
0029100456
-
Hydrogen-bond stabilities in the isolated alamethicin helix - PH-dependent amide exchange measurements in methanol
-
Dempsey, C. E. 1995. Hydrogen-bond stabilities in the isolated alamethicin helix - pH-dependent amide exchange measurements in methanol. J. Am. Chem. Soc. 117:7526-7534.
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 7526-7534
-
-
Dempsey, C.E.1
-
13
-
-
0029862704
-
Hydrogen-bond stabilities in membrane-reconstituted alamethicin from amide-resolved hydrogen-exchange measurements
-
Dempsey, C. E., and L. J. Handcock. 1996. Hydrogen-bond stabilities in membrane-reconstituted alamethicin from amide-resolved hydrogen-exchange measurements. Biophys. J. 70:1777-1788.
-
(1996)
Biophys. J.
, vol.70
, pp. 1777-1788
-
-
Dempsey, C.E.1
Handcock, L.J.2
-
15
-
-
0020360086
-
A voltage-gated ion channel model inferred from the crystal structure of alamethicin at 1.5 Å resolution
-
Fox, R. O., and F. M. Richards. 1982. A voltage-gated ion channel model inferred from the crystal structure of alamethicin at 1.5 Å resolution. Nature. 300:325-330.
-
(1982)
Nature
, vol.300
, pp. 325-330
-
-
Fox, R.O.1
Richards, F.M.2
-
17
-
-
0025614191
-
Restrained and unrestrained molecular dynamics simulations in the NVT ensemble of alamethicin
-
Fraternali, F. 1990. Restrained and unrestrained molecular dynamics simulations in the NVT ensemble of alamethicin. Biopolymers. 30: 1083-1099.
-
(1990)
Biopolymers.
, vol.30
, pp. 1083-1099
-
-
Fraternali, F.1
-
18
-
-
0029873933
-
Structure and orientation of the mammalian antibacterial peptide cecropin Pl within phospholipid membranes
-
Gazit, E., I. R. Miller, P. C. Biggin, M. S. P. Sansom, and Y. Shai. 1996. Structure and orientation of the mammalian antibacterial peptide cecropin Pl within phospholipid membranes. J. Mol. Biol. 258: 860-870.
-
(1996)
J. Mol. Biol.
, vol.258
, pp. 860-870
-
-
Gazit, E.1
Miller, I.R.2
Biggin, P.C.3
Sansom, M.S.P.4
Shai, Y.5
-
19
-
-
0030916534
-
Helix bending in alamethicin: Molecular dynamics simulations and amide hydrogen exchange in methanol
-
Gibbs, N., R. B. Sessions, P. B. Williams, and C. E. Dempsey. 1997. Helix bending in alamethicin: molecular dynamics simulations and amide hydrogen exchange in methanol. Biophys. J. 72:2490-2495.
-
(1997)
Biophys. J.
, vol.72
, pp. 2490-2495
-
-
Gibbs, N.1
Sessions, R.B.2
Williams, P.B.3
Dempsey, C.E.4
-
20
-
-
0021316162
-
Alamethicin: A rich model for channel behaviour
-
Hall, J. E., I. Vodyanoy, T. M. Balasubramanian, and G. R. Marshall. 1984. Alamethicin: a rich model for channel behaviour. Biophys. J. 45: 233-247.
-
(1984)
Biophys. J.
, vol.45
, pp. 233-247
-
-
Hall, J.E.1
Vodyanoy, I.2
Balasubramanian, T.M.3
Marshall, G.R.4
-
21
-
-
0032006209
-
Systematic analysis of domain motions in proteins from conformational change: New results on citrate synthase and T4 lysozyme
-
Hayward, S., and H. J. C. Berendsen. 1998. Systematic analysis of domain motions in proteins from conformational change: new results on citrate synthase and T4 lysozyme. Proteins Struct. Funct. Genet. 30:144-154.
-
(1998)
Proteins Struct. Funct. Genet.
, vol.30
, pp. 144-154
-
-
Hayward, S.1
Berendsen, H.J.C.2
-
22
-
-
84990424072
-
A consistent empirical potential for water-protein interactions
-
Hermans, J., H. J. C. Berendsen, W. F. van Gunsteren, and J. P. M. Postma. 1984. A consistent empirical potential for water-protein interactions. Biopolymers. 23:1513-1518.
-
(1984)
Biopolymers
, vol.23
, pp. 1513-1518
-
-
Hermans, J.1
Berendsen, H.J.C.2
Van Gunsteren, W.F.3
Postma, J.P.M.4
-
23
-
-
0025889072
-
Lipid-alamethicin interactions influence alamethicin orientation
-
Huang, H. W., and Y. Wu. 1991. Lipid-alamethicin interactions influence alamethicin orientation. Biophys. J. 60:1079-1087.
-
(1991)
Biophys. J.
, vol.60
, pp. 1079-1087
-
-
Huang, H.W.1
Wu, Y.2
-
24
-
-
0030953326
-
Computer simulation studies of biological membranes: Progress, promise and pitfalls
-
Jakobsson, E. 1997. Computer simulation studies of biological membranes: progress, promise and pitfalls. Trends Biochem. Sci. 22:339-344.
-
(1997)
Trends Biochem. Sci.
, vol.22
, pp. 339-344
-
-
Jakobsson, E.1
-
25
-
-
0031835795
-
Structural features that modulate the transmembrane migration of a hydrophobic peptide in lipid vesicles
-
Jayasinghe, S., M. Barranger-Mathys, J. F. Ellena, C. Franklin, and D. S. Cafiso. 1998. Structural features that modulate the transmembrane migration of a hydrophobic peptide in lipid vesicles. Biophys. J. 74: 3023-3030.
-
(1998)
Biophys. J.
, vol.74
, pp. 3023-3030
-
-
Jayasinghe, S.1
Barranger-Mathys, M.2
Ellena, J.F.3
Franklin, C.4
Cafiso, D.S.5
-
26
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch, W., and C. Sander. 1983. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers. 22:2577-2637.
-
(1983)
Biopolymers.
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
27
-
-
0026244229
-
MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
-
Kraulis, P. J. 1991. MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallogr. 24:946-950.
-
(1991)
J. Appl. Crystallogr.
, vol.24
, pp. 946-950
-
-
Kraulis, P.J.1
-
28
-
-
0023907575
-
Synthetic amphiphilic peptide models for protein ion channels
-
Lear, J. D., Z. R. Wasserman, and W. F. DeGrado. 1988. Synthetic amphiphilic peptide models for protein ion channels. Science. 240: 1177-1181.
-
(1988)
Science
, vol.240
, pp. 1177-1181
-
-
Lear, J.D.1
Wasserman, Z.R.2
DeGrado, W.F.3
-
30
-
-
33751158845
-
Simulation of water transport through a lipid membrane
-
Marrink, S. J., and H. J. C. Berendsen. 1994. Simulation of water transport through a lipid membrane. J. Phys. Chem. 98:4155-4168.
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 4155-4168
-
-
Marrink, S.J.1
Berendsen, H.J.C.2
-
31
-
-
0031880829
-
Adhesion forces of lipids in a phospholipid membrane studied by molecular dynamics simulations
-
Marrink, S. J., O. Berger, D. P. Tieleman, and F. Jahnig. 1998. Adhesion forces of lipids in a phospholipid membrane studied by molecular dynamics simulations. Biophys. J. 74:931-943.
-
(1998)
Biophys. J.
, vol.74
, pp. 931-943
-
-
Marrink, S.J.1
Berger, O.2
Tieleman, D.P.3
Jahnig, F.4
-
32
-
-
0343118775
-
Molecular dynamics simulations of lipid bilayers
-
Merz, K. M. 1997. Molecular dynamics simulations of lipid bilayers. Curr. Opin. Struct. Biol. 7:511-517.
-
(1997)
Curr. Opin. Struct. Biol.
, vol.7
, pp. 511-517
-
-
Merz, K.M.1
-
35
-
-
0026848828
-
Minimum energy conformations of proline-containing helices
-
Polinsky, A., M. Goodman, K. A. Williams, and C. M. Deber. 1992. Minimum energy conformations of proline-containing helices. Biopolymers. 32:399-406.
-
(1992)
Biopolymers.
, vol.32
, pp. 399-406
-
-
Polinsky, A.1
Goodman, M.2
Williams, K.A.3
Deber, C.M.4
-
36
-
-
0030735981
-
Influence of the membrane potential on the free energy of an intrinsic protein
-
Roux, B. 1997. Influence of the membrane potential on the free energy of an intrinsic protein. Biophys. J. 73:2980-2989.
-
(1997)
Biophys. J.
, vol.73
, pp. 2980-2989
-
-
Roux, B.1
-
37
-
-
0029813087
-
The pore domain of the nicotinic acetylcholine receptor: Molecular modelling and electrostatics
-
Sankararamakrishnan, R., C. Adcock, and M. S. P. Sansom. 1996. The pore domain of the nicotinic acetylcholine receptor: molecular modelling and electrostatics. Biophys. J. 71:1659-1671.
-
(1996)
Biophys. J.
, vol.71
, pp. 1659-1671
-
-
Sankararamakrishnan, R.1
Adcock, C.2
Sansom, M.S.P.3
-
39
-
-
0025935264
-
The biophysics of peptide models of ion channels
-
Sansom, M. S. P. 1991. The biophysics of peptide models of ion channels. Prog. Biophys. Mol. Biol. 55:139-236.
-
(1991)
Prog. Biophys. Mol. Biol.
, vol.55
, pp. 139-236
-
-
Sansom, M.S.P.1
-
40
-
-
0026537558
-
Proline residues in transmembrane helices of channel and transport proteins: A molecular modelling study
-
Sansom, M. S. P. 1992. Proline residues in transmembrane helices of channel and transport proteins: a molecular modelling study. Protein Eng. 5:53-60.
-
(1992)
Protein Eng.
, vol.5
, pp. 53-60
-
-
Sansom, M.S.P.1
-
41
-
-
0027817476
-
Structure and function of channel-forming peptaibols
-
Sansom, M. S. P. 1993. Structure and function of channel-forming peptaibols. Q. Rev. Biophys. 26:365-421.
-
(1993)
Q. Rev. Biophys.
, vol.26
, pp. 365-421
-
-
Sansom, M.S.P.1
-
42
-
-
0031972614
-
Hydogen bonding in helical polypeptides from molecular dynamics simulations and amide exchange analysis: Alamethicin and melittin in methanol
-
Sessions, R. B., N. Gibbs, and C. E. Dempsey. 1998. Hydogen bonding in helical polypeptides from molecular dynamics simulations and amide exchange analysis: alamethicin and melittin in methanol. Biophys. J. 74:138-152.
-
(1998)
Biophys. J.
, vol.74
, pp. 138-152
-
-
Sessions, R.B.1
Gibbs, N.2
Dempsey, C.E.3
-
43
-
-
0030966534
-
Transmembrane helix structure, dynamics, and interactions: Multi-nanosecond molecular dynamics simulations
-
Shen, L., D. Bassolino, and T. Stouch. 1997. Transmembrane helix structure, dynamics, and interactions: multi-nanosecond molecular dynamics simulations. Biophys. J. 73:3-20.
-
(1997)
Biophys. J.
, vol.73
, pp. 3-20
-
-
Shen, L.1
Bassolino, D.2
Stouch, T.3
-
45
-
-
0000112789
-
Molecular dynamics simulations of a fully hydrated dipalmitoylphosphatidycholine bilayer with different macroscopic boundary conditions and parameters
-
Tieleman, D. P., and H. J. C. Berendsen. 1996. Molecular dynamics simulations of a fully hydrated dipalmitoylphosphatidycholine bilayer with different macroscopic boundary conditions and parameters. J. Chem. Phys. 105:4871-4880.
-
(1996)
J. Chem. Phys.
, vol.105
, pp. 4871-4880
-
-
Tieleman, D.P.1
Berendsen, H.J.C.2
-
46
-
-
0031860932
-
A molecular dynamics study of the pores formed by E. Coli OmpF porin in a fully hydrated POPE bilayer
-
Tieleman, D. P., and H. J. C. Berendsen. 1998. A molecular dynamics study of the pores formed by E. coli OmpF porin in a fully hydrated POPE bilayer. Biophys. J. 74:2786-2801.
-
(1998)
Biophys. J.
, vol.74
, pp. 2786-2801
-
-
Tieleman, D.P.1
Berendsen, H.J.C.2
-
47
-
-
0031438285
-
A computer perspective of membranes: Molecular dynamics studies of lipid bilayer systems
-
Tieleman, D. P., S. J. Marrink, and H. J. C. Berendsen. 1997. A computer perspective of membranes: molecular dynamics studies of lipid bilayer systems. Biochim. Biophys. Acta. 1331:235-270.
-
(1997)
Biochim. Biophys. Acta
, vol.1331
, pp. 235-270
-
-
Tieleman, D.P.1
Marrink, S.J.2
Berendsen, H.J.C.3
-
49
-
-
0028921479
-
Acetylcholine receptor channel imaged in the open state
-
Unwin, N. 1995. Acetylcholine receptor channel imaged in the open state. Nature. 373:37-43.
-
(1995)
Nature
, vol.373
, pp. 37-43
-
-
Unwin, N.1
-
50
-
-
0003544049
-
-
Biomos & Hochschulverlag AG an der ETH Zurich, Groningen and Zurich
-
van Gunsteren, W. F., P. Kruger, S. R. Billeter, A. E. Mark, A. A. Eising, W. R. P. Scott, P. H. Huneberger, and I. G. Tironi. 1996. Biomolecular Simulation: The GROMOS96 Manual and User Guide. 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
-
51
-
-
0023248806
-
Comparison of the conformation and orientation of alamethicin and melittin in lipid membranes
-
Vogel, H. 1987. Comparison of the conformation and orientation of alamethicin and melittin in lipid membranes. Biochemistry. 26:4562-4572.
-
(1987)
Biochemistry
, vol.26
, pp. 4562-4572
-
-
Vogel, H.1
-
52
-
-
0025782832
-
Proline kinks in transmembrane α-helices
-
von Heijne, G. 1991. Proline kinks in transmembrane α-helices. J. Mol. Biol. 499-503.
-
(1991)
J. Mol. Biol.
, pp. 499-503
-
-
Von Heijne, G.1
-
53
-
-
0031954925
-
Genome-wide analysis of integral membrane proteins from eubacterial, archean, and eukaryotic organisms
-
Wallin, E., and G. von Heijne. 1998. Genome-wide analysis of integral membrane proteins from eubacterial, archean, and eukaryotic organisms. Protein Sci. 7:1029-1038.
-
(1998)
Protein Sci.
, vol.7
, pp. 1029-1038
-
-
Wallin, E.1
Von Heijne, G.2
-
54
-
-
0030731888
-
Molecular dynamics of individual α-helices of bacteriorhodopsin in dimyristoyl phosphatidylcholine. I. Structure and dynamics
-
Woolf, T. B. 1997. Molecular dynamics of individual α-helices of bacteriorhodopsin in dimyristoyl phosphatidylcholine. I. Structure and dynamics. Biophys. J. 73:2376-2392.
-
(1997)
Biophys. J.
, vol.73
, pp. 2376-2392
-
-
Woolf, T.B.1
-
55
-
-
0025801502
-
Conserved positioning of proline residues in membrane-spanning helices of ion-channel proteins
-
Woolfson, D. N., R. J. Mortishire-Smith, and D. H. Williams. 1991. Conserved positioning of proline residues in membrane-spanning helices of ion-channel proteins. Biochem. Biophys. Res. Commun. 175:733-737.
-
(1991)
Biochem. Biophys. Res. Commun.
, vol.175
, pp. 733-737
-
-
Woolfson, D.N.1
Mortishire-Smith, R.J.2
Williams, D.H.3
-
56
-
-
0026754487
-
Model ion channels: Gramicidin and alamethicin
-
Woolley, G. A., and B. A. Wallace. 1992. Model ion channels: gramicidin and alamethicin. J. Membr. Biol. 129:109-136.
-
(1992)
J. Membr. Biol.
, vol.129
, pp. 109-136
-
-
Woolley, G.A.1
Wallace, B.A.2
-
57
-
-
0025996871
-
Proline in α-helix: Stability and conformation studied by dynamics simulation
-
Yun, R. H., A. Anderson, and J. Hermans. 1992. Proline in α-helix: stability and conformation studied by dynamics simulation. Proteins Struct. Funct. Genet. 10:219-228.
-
(1992)
Proteins Struct. Funct. Genet.
, vol.10
, pp. 219-228
-
-
Yun, R.H.1
Anderson, A.2
Hermans, J.3
|