Reversible peptide folding in solution by molecular dynamics simulation 1 1Edited by R. Huber
Tài liệu tham khảo
Appella, 1996, β-Peptide foldamers, J. Am. Chem. Soc., 118, 13071, 10.1021/ja963290l
Appella, 1997, Residue-based control of helix shape in β-peptide oligomers, Nature, 387, 381, 10.1038/387381a0
Borman, 1997, β-Peptides, Chem. Eng. News, 75, 32
Constantine, 1996, Extensive molecular dynamics simulations of a β-hairpin-forming peptide, Biopolymers, 39, 591, 10.1002/(SICI)1097-0282(199610)39:4<591::AID-BIP9>3.0.CO;2-S
Daura, 1997, Studying the stability of a helical β-heptapeptide by molecular dynamics simulations, Chem. Eur. J., 3, 1410, 10.1002/chem.19970030907
Dill, 1990, Dominant forces in protein folding, Biochemistry, 29, 7133, 10.1021/bi00483a001
Dill, 1997, Additivity principles in biochemistry, J. Biol. Chem., 272, 701, 10.1074/jbc.272.2.701
Dill, 1997, From Levinthal to pathways to funnels, Nature Struct. Biol., 4, 10, 10.1038/nsb0197-10
Dobson, 1992, Unfolded proteins, compact states and molten globules, Curr. Opin. Struct. Biol., 2, 6, 10.1016/0959-440X(92)90169-8
Dyson, 1993, Peptide conformation and protein folding, Curr. Opin. Struct. Biol., 3, 60, 10.1016/0959-440X(93)90203-W
Eaton, 1996, Fast events in protein folding, Structure, 4, 1133, 10.1016/S0969-2126(96)00121-9
Hermans, 1993, Molecular dynamics simulations of helix and turn propensities in model peptides, Curr. Opin. Struct. Biol., 3, 270, 10.1016/S0959-440X(05)80163-0
Hinterman, 1997, The biological stability of β-peptides, Chimia, 50, 244, 10.2533/chimia.1997.244
Hubbard, 1993
Iverson, 1997, Betas are brought into the fold, Nature, 385, 113, 10.1038/385113a0
Karplus, 1995, Theoretical studies of protein folding and unfolding, Curr. Opin. Struct. Biol., 5, 58, 10.1016/0959-440X(95)80010-X
Karplus, 1992, Protein folding, 127
Koert, 1997, β-Peptides, Agnew. Chem. Int. Ed. Engl., 36, 1836, 10.1002/anie.199718361
Kolinski, 1994, Monte Carlo simulations of protein folding. I. Lattice model and interaction scheme, Proteins: Struct. Funct. Genet., 18, 338, 10.1002/prot.340180405
Kovacs, 1995, The effect of environment on the stability of an integral membrane helix, J. Mol. Biol., 247, 808, 10.1016/S0022-2836(05)80156-1
Krüger, 1991, SIMLYS-a software package for trajectory analysis of molecular dynamics simulations, Comput. Phys. Commun., 62, 371, 10.1016/0010-4655(91)90108-W
Leach, 1991, A survey of methods for searching the conformational space of small and medium-sized molecules, vol 2, 1
Mark, 1994, Decomposition of the free energy of a system in terms of specific interactions, J. Mol. Biol., 240, 167, 10.1006/jmbi.1994.1430
Marshall, 1995, Peptide conformation, 193
Mohanty, 1997, Kinetics of peptide folding, J. Mol. Biol., 272, 423, 10.1006/jmbi.1997.1246
Neri, 1992, NMR determination of residual structure in a urea-denatured protein, the 434-repressor, Science, 257, 1559, 10.1126/science.1523410
Pedersen, 1997, Protein folding simulations with genetic algorithms and a detailed molecular description, J. Mol. Biol., 269, 240, 10.1006/jmbi.1997.1010
Ripoll, 1988, On the multiple-minima problem in the conformational analysis of polypeptides. II. An electrostatically driven Monte Carlo method-tests on poly(l-alanine), Biopolymers, 27, 1283, 10.1002/bip.360270808
Schulz, 1988, A critical evaluation of methods for prediction of protein secondary structures, Annu. Rev. Biophys. Biophys. Chem., 17, 1, 10.1146/annurev.bb.17.060188.000245
Seebach, 1996, β-Peptides, Helv. Chim. Acta, 79, 913, 10.1002/hlca.19960790402
Seebach, 1996, Probing the helical secondary structure of short-chain β-peptides, Helv. Chim. Acta, 79, 2043, 10.1002/hlca.19960790802
Shortle, 1996, Structural analysis of non-native states of proteins by NMR methods, Curr. Opin. Struct. Biol., 6, 24, 10.1016/S0959-440X(96)80091-1
Shortle, 1996, Protein folding for realists, Protein Sci., 5, 991, 10.1002/pro.5560050602
Smith, 1996, The concept of a random coil. Residual structure in peptides and denatured proteins, Folding Des., 1, R95, 10.1016/S1359-0278(96)00046-6
Sung, 1994, Helix folding simulations with various initial conformations, Biophys. J., 66, 1796, 10.1016/S0006-3495(94)80973-7
Sung, 1996, Molecular dynamics simulations of synthetic peptide folding, Proteins: Struct. Funct. Genet., 25, 202, 10.1002/(SICI)1097-0134(199606)25:2<202::AID-PROT6>3.0.CO;2-J
Thomas, 1996, Statistical potentials extracted from protein structures, J. Mol. Biol., 257, 457, 10.1006/jmbi.1996.0175
Thompson, 1997, Laser temperature jump study of the helix-coil kinetics of an alanine peptide interpreted with a ‘Kinetic Zipper’ model, Biochemistry, 36, 9200, 10.1021/bi9704764
Tobias, 1991, Nanosecond time scale folding dynamics of a pentapeptide in water, Biochemistry, 30, 6054, 10.1021/bi00238a032
Troyer, 1991, Simplified models for understanding and predicting protein structure, vol 2, 57
van Gunsteren, 1996, 1
Vieth, 1994, Prediction of the folding pathways and structure of the GCN4 leucine zipper, J. Mol. Biol., 237, 361, 10.1006/jmbi.1994.1239
Williams, 1996, Fast events in protein folding, Biochemistry, 35, 691, 10.1021/bi952217p
Yue, 1996, Folding proteins with a simple energy function and extensive conformational searching, Protein Sci., 5, 254, 10.1002/pro.5560050209