-
1
-
-
0024733407
-
Intermediates and barrier crossing in a random energy model (with applications to protein folding)
-
Bryngelson, J. D. and Wolynes, P. G. (1989) Intermediates and barrier crossing in a random energy model (with applications to protein folding). J. Phys. Chem 93, 6902-6915.
-
(1989)
J. Phys. Chem
, vol.93
, pp. 6902-6915
-
-
Bryngelson, J.D.1
Wolynes, P.G.2
-
2
-
-
0002770218
-
Protein folding: Theoretical studies of thermodynamics and dynamics
-
(Creighton, T., ed.), W. H. Freeman & Sons, New York
-
Karplus, M. and Shakhnovitch, E. I. (1992) Protein folding: theoretical studies of thermodynamics and dynamics, in Protein Folding (Creighton, T., ed.), W. H. Freeman & Sons, New York, pp. 127-195.
-
(1992)
Protein Folding
, pp. 127-195
-
-
Karplus, M.1
Shakhnovitch, E.I.2
-
3
-
-
0028776642
-
Matching speed and stability
-
Baldwin, R. L. (1994) Matching speed and stability. Nature 369, 183-184.
-
(1994)
Nature
, vol.369
, pp. 183-184
-
-
Baldwin, R.L.1
-
4
-
-
0029249945
-
The nature of protein folding pathways: The classical versus the new view
-
Baldwin, R. L. (1995) The nature of protein folding pathways: the classical versus the new view. J. Biomol. NMR 5, 103-109.
-
(1995)
J. Biomol. NMR
, vol.5
, pp. 103-109
-
-
Baldwin, R.L.1
-
5
-
-
0028929556
-
Principles of protein folding: A perspective from simple exact models
-
Dill, K. A., Bromberg, S., Yue, K., Fiebig, K. M., Yee, D. P., Thomas, P. D., and Chan, H. S. (1995) Principles of protein folding: a perspective from simple exact models. Protein Sci. 4, 561-602.
-
(1995)
Protein Sci.
, vol.4
, pp. 561-602
-
-
Dill, K.A.1
Bromberg, S.2
Yue, K.3
Fiebig, K.M.4
Yee, D.P.5
Thomas, P.D.6
Chan, H.S.7
-
6
-
-
0028929204
-
Comment: Kinetics of protein folding
-
Karplus, M., Sali, A., and Shakhnovitch, E. (1995) Comment: kinetics of protein folding. Nature 373, 664-665.
-
(1995)
Nature
, vol.373
, pp. 664-665
-
-
Karplus, M.1
Sali, A.2
Shakhnovitch, E.3
-
7
-
-
0028924552
-
Navigating the folding routes
-
Wolynes, P. G., Onuchic, J. N., and Thirumalai, D. (1995) Navigating the folding routes. Science 267, 1619-1620.
-
(1995)
Science
, vol.267
, pp. 1619-1620
-
-
Wolynes, P.G.1
Onuchic, J.N.2
Thirumalai, D.3
-
8
-
-
0028963362
-
Towards an outline of the topography of a realistic protein folding funnel
-
Onuchic, J. N., Wolynes, P. G., Luthey-Schulten, Z., and Socci, N. D. (1995) Towards an outline of the topography of a realistic protein folding funnel. Proc. Natl. Acad. Sci. USA 92, 3626-3630.
-
(1995)
Proc. Natl. Acad. Sci. USA
, vol.92
, pp. 3626-3630
-
-
Onuchic, J.N.1
Wolynes, P.G.2
Luthey-Schulten, Z.3
Socci, N.D.4
-
9
-
-
0030626588
-
The Levinthal paradox: Yesterday and today
-
Karplus, M. (1997) The Levinthal paradox: yesterday and today. Folding Design 2, S69-S75.
-
(1997)
Folding Design
, vol.2
-
-
Karplus, M.1
-
10
-
-
1842298212
-
From Levinthal to pathways to funnels
-
Dill, K. A. and Chan, H. S. (1997) From Levinthal to pathways to funnels. Nat. Struct. Biol. 4, 10-19.
-
(1997)
Nat. Struct. Biol.
, vol.4
, pp. 10-19
-
-
Dill, K.A.1
Chan, H.S.2
-
11
-
-
0031465967
-
"New view" of protein folding reconciled with the old through multiple unfolding simulations
-
Lazaridis, T. and Karplus, M. (1997) "New view" of protein folding reconciled with the old through multiple unfolding simulations Science 278, 1928-1931.
-
(1997)
Science
, vol.278
, pp. 1928-1931
-
-
Lazaridis, T.1
Karplus, M.2
-
12
-
-
0031708076
-
The energy landscape in non-biological molecules
-
Frauenfelder, H. and Leeson, D. T. (1998) The energy landscape in non-biological molecules. Nat. Struct. Biol. 5, 757-759.
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 757-759
-
-
Frauenfelder, H.1
Leeson, D.T.2
-
13
-
-
0028212643
-
Autonomous subdomains in protein folding
-
Wu, L. C., Grandori, R., and Carey, J. (1994) Autonomous subdomains in protein folding. Protein Sci. 3, 359-371.
-
(1994)
Protein Sci.
, vol.3
, pp. 359-371
-
-
Wu, L.C.1
Grandori, R.2
Carey, J.3
-
14
-
-
0031012563
-
Hydrophobic folding units derived from dissimilar monomer structures and their interactions
-
Tsai, C.-J. and Nussinov, R. (1997) Hydrophobic folding units derived from dissimilar monomer structures and their interactions. Protein Sci. 6, 24-42.
-
(1997)
Protein Sci.
, vol.6
, pp. 24-42
-
-
Tsai, C.-J.1
Nussinov, R.2
-
15
-
-
0030756203
-
Hydrophobic folding units at protein-protein interfaces: Implications to protein folding and protein-protein association
-
Tsai, C. J. and Nussinov, R. (1997) Hydrophobic folding units at protein-protein interfaces: implications to protein folding and protein-protein association. Protein Sci. 6, 1426-1437.
-
(1997)
Protein Sci.
, vol.6
, pp. 1426-1437
-
-
Tsai, C.J.1
Nussinov, R.2
-
16
-
-
0031868211
-
Protein folding via binding, and vice versa
-
Tsai, C.-J., Xu, D., and Nussinov, R. (1998) Protein folding via binding, and vice versa. Folding Design 3, R71-R80.
-
(1998)
Folding Design
, vol.3
-
-
Tsai, C.-J.1
Xu, D.2
Nussinov, R.3
-
17
-
-
0025370815
-
Dominant forces in protein folding
-
Dill, K. A. (1990) Dominant forces in protein folding. Biochemistry 31, 7134-7155.
-
(1990)
Biochemistry
, vol.31
, pp. 7134-7155
-
-
Dill, K.A.1
-
18
-
-
0031450506
-
Hydrogen bonds and salt bridges across protein-protein interfaces
-
Xu, D., Tsai, C. J., and Nussinov, R. (1997) Hydrogen bonds and salt bridges across protein-protein interfaces. Protein Eng. 10, 999-1012.
-
(1997)
Protein Eng.
, vol.10
, pp. 999-1012
-
-
Xu, D.1
Tsai, C.J.2
Nussinov, R.3
-
19
-
-
0032972986
-
Is protein folding hierarchic? I. Local structure and peptide folding
-
Baldwin, R. L. and Rose, G. D. (1999) Is protein folding hierarchic? I. Local structure and peptide folding. Trends Biochem. Sci. 24, 26-33.
-
(1999)
Trends Biochem. Sci.
, vol.24
, pp. 26-33
-
-
Baldwin, R.L.1
Rose, G.D.2
-
20
-
-
0033080081
-
Is protein folding hierarchic? II. Folding intermediates and transition states
-
Baldwin, R. L. and Rose, G. D. (1999) Is protein folding hierarchic? II. Folding intermediates and transition states. Trends Biochem Sci. 24, 77-84.
-
(1999)
Trends Biochem Sci.
, vol.24
, pp. 77-84
-
-
Baldwin, R.L.1
Rose, G.D.2
-
21
-
-
0033056708
-
Folding funnels, binding funnels and protein function
-
Tsai, C. J., Kumar, S., Ma, B., and Nussinov, R. (1999) Folding funnels, binding funnels and protein function. Protein Sci. 8, 1181-1190.
-
(1999)
Protein Sci.
, vol.8
, pp. 1181-1190
-
-
Tsai, C.J.1
Kumar, S.2
Ma, B.3
Nussinov, R.4
-
22
-
-
0032502839
-
Contact order, transition state placement and the refolding rates of single domain proteins
-
Plaxco, K. W., Simons, K. T., and Baker, D. (1998) Contact order, transition state placement and the refolding rates of single domain proteins. J. Mol. Biol. 277, 985-994.
-
(1998)
J. Mol. Biol.
, vol.277
, pp. 985-994
-
-
Plaxco, K.W.1
Simons, K.T.2
Baker, D.3
-
23
-
-
0029151245
-
First principles calculation of the folding free energy for a three helix bundle protein
-
Bozko, E. M. and Brooks, C. L., III (1995) First principles calculation of the folding free energy for a three helix bundle protein. Science 269, 393-396.
-
(1995)
Science
, vol.269
, pp. 393-396
-
-
Bozko, E.M.1
Brooks C.L. III2
-
24
-
-
0025345415
-
Intermediates in the folding reactions of small proteins
-
Kim, P. S. and Baldwin, R. L. (1990) Intermediates in the folding reactions of small proteins. Annu. Rev. Biochem. 59, 631-660.
-
(1990)
Annu. Rev. Biochem.
, vol.59
, pp. 631-660
-
-
Kim, P.S.1
Baldwin, R.L.2
-
25
-
-
0029643523
-
Protein folding intermediates: Native-state hydrogen exchange
-
Bai, Y., Sosnick, T. R., Mayne, L., and Englander, S. W. (1995) Protein folding intermediates: native-state hydrogen exchange. Science 269, 145-151.
-
(1995)
Science
, vol.269
, pp. 145-151
-
-
Bai, Y.1
Sosnick, T.R.2
Mayne, L.3
Englander, S.W.4
-
26
-
-
0003376063
-
Distinguishing between sequential and non-sequentially folded proteins: Implications for folding and misfolding
-
Tsai, C. J., Maizel, J. V., and Nussinov, R. (1999) Distinguishing between sequential and non-sequentially folded proteins: implications for folding and misfolding. Protein Sci. 7, 73-87.
-
(1999)
Protein Sci.
, vol.7
, pp. 73-87
-
-
Tsai, C.J.1
Maizel, J.V.2
Nussinov, R.3
-
27
-
-
0032842870
-
The fundamentals of protein folding: Bringing together theory and experiment
-
Dobson, C. M. and Karplus, M. (1999) The fundamentals of protein folding: bringing together theory and experiment. Curr. Opin. Struct. Biol. 9, 92-101.
-
(1999)
Curr. Opin. Struct. Biol.
, vol.9
, pp. 92-101
-
-
Dobson, C.M.1
Karplus, M.2
-
28
-
-
0037510016
-
Optimal local propensities for model proteins
-
Govindarajan, S. and Goldstein, R. A. (1995) Optimal local propensities for model proteins. Proteins 95, 415-418.
-
(1995)
Proteins
, vol.95
, pp. 415-418
-
-
Govindarajan, S.1
Goldstein, R.A.2
-
29
-
-
0028856785
-
Optimization of rates of protein folding: The nucleation-condensation mechanism and its implications
-
Fersht, A. R. (1995) Optimization of rates of protein folding: the nucleation-condensation mechanism and its implications. Proc. Natl. Acad. Sci. USA 92, 10,896-10,873.
-
(1995)
Proc. Natl. Acad. Sci. USA
, vol.92
, pp. 10896-10873
-
-
Fersht, A.R.1
-
30
-
-
0029155772
-
Impact of local and non-local interactions on the thermodynamics and kinetics of protein folding
-
Abkevitch, V. I., Gutin, A. M., and Shakhnovitch, E. I. (1995) Impact of local and non-local interactions on the thermodynamics and kinetics of protein folding. J. Mol. Biol. 252, 460-171.
-
(1995)
J. Mol. Biol.
, vol.252
, pp. 460-1171
-
-
Abkevitch, V.I.1
Gutin, A.M.2
Shakhnovitch, E.I.3
-
31
-
-
0032496419
-
Protein folding and protein evolution: Common folding nucleus in different subfamilies of c-type cytochromes?
-
Ptitsyn, O. B. (1998) Protein folding and protein evolution: common folding nucleus in different subfamilies of c-type cytochromes? J. Mol. Biol. 278, 655-666.
-
(1998)
J. Mol. Biol.
, vol.278
, pp. 655-666
-
-
Ptitsyn, O.B.1
-
32
-
-
0029786948
-
A dynamic bundle of four adjacent hydrophobic segments in the denatured state of staphylococcal nuclease
-
Wang, Y. and Shortle, D. (1996) A dynamic bundle of four adjacent hydrophobic segments in the denatured state of staphylococcal nuclease. Protein Sci. 5, 1898-1906.
-
(1996)
Protein Sci.
, vol.5
, pp. 1898-1906
-
-
Wang, Y.1
Shortle, D.2
-
33
-
-
0031214378
-
An exceptionally stable helix from the ribosomal protein l9: Implications for protein folding and stability
-
Kuhlman, B., Yang, H. Y., Boice, J. A., Fairman, R., and Raleigh, D. P. (1997) An exceptionally stable helix from the ribosomal protein L9: implications for protein folding and stability. J. Mol. Biol. 270, 640-647.
-
(1997)
J. Mol. Biol.
, vol.270
, pp. 640-647
-
-
Kuhlman, B.1
Yang, H.Y.2
Boice, J.A.3
Fairman, R.4
Raleigh, D.P.5
-
35
-
-
0038502170
-
Folding dynamics and mechanism of β-turn formation
-
Munioz, V., Thompson, P. A., Hofrichter, J., and Eaton, W. A. (1997) Folding dynamics and mechanism of β-turn formation. Nature 390, 196-199.
-
(1997)
Nature
, vol.390
, pp. 196-199
-
-
Munioz, V.1
Thompson, P.A.2
Hofrichter, J.3
Eaton, W.A.4
-
36
-
-
0030334822
-
Conformational investigation of designed short linear peptides able to fold into β-hairpin structures in aqueous solution
-
Alba, E. D., Jimenez, M. A., Rico, M., and Nieto, J. L. (1995) Conformational investigation of designed short linear peptides able to fold into β-hairpin structures in aqueous solution. Folding Design 1, 133-144.
-
(1995)
Folding Design
, vol.1
, pp. 133-144
-
-
Alba, E.D.1
Jimenez, M.A.2
Rico, M.3
Nieto, J.L.4
-
37
-
-
0026607096
-
Early hydrogen-bonding events in the folding reaction of ubiquitin
-
Briggs, M. S. and Roder, H. (1992) Early hydrogen-bonding events in the folding reaction of ubiquitin. Proc. Natl. Acad. Sci. USA 89, 2017-2021.
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 2017-2021
-
-
Briggs, M.S.1
Roder, H.2
-
38
-
-
0026742164
-
Detection and characterization of an early folding intermediate of T4 lysozyme using pulsed hydrogenexchange and two-dimensional NMR
-
Lu, J. and Dahlquist, F. W. (1992) Detection and characterization of an early folding intermediate of T4 lysozyme using pulsed hydrogenexchange and two-dimensional NMR. Biochemistry 31, 4749-4756.
-
(1992)
Biochemistry
, vol.31
, pp. 4749-4756
-
-
Lu, J.1
Dahlquist, F.W.2
-
39
-
-
0026768829
-
Folding of peptide fragments comprising the complete sequence of proteins. Models for initiation of protein folding I. Myohemerythrin
-
Dyson, H. J., Merutka, G., Waltho, J. P., Lerner, R. A., and Wright, P. E. (1992) Folding of peptide fragments comprising the complete sequence of proteins. Models for initiation of protein folding I. Myohemerythrin. J. Mol. Biol. 226, 795-817.
-
(1992)
J. Mol. Biol.
, vol.226
, pp. 795-817
-
-
Dyson, H.J.1
Merutka, G.2
Waltho, J.P.3
Lerner, R.A.4
Wright, P.E.5
-
40
-
-
0027165688
-
Peptide models of protein folding initiation sites. 1. Secondary structure formation by peptides corresponding to the G- and H-helices of myoglobin
-
Waltho, J. P., Feher, V. A., Merutka, G., Dyson, H. J., and Wright, P. E. (1993) Peptide models of protein folding initiation sites. 1. Secondary structure formation by peptides corresponding to the G- and H-helices of myoglobin. Biochemistry 32, 6337-6347.
-
(1993)
Biochemistry
, vol.32
, pp. 6337-6347
-
-
Waltho, J.P.1
Feher, V.A.2
Merutka, G.3
Dyson, H.J.4
Wright, P.E.5
-
41
-
-
0027248899
-
Peptide models of protein folding initiation sites. 3. The G-H helical hairpin of myoglobin
-
Shin, J. C., Merutka, G., Waltho, J. P., Tennant, L. L., Dyson, H. J., and Wright, P. E. (1993) Peptide models of protein folding initiation sites. 3. The G-H helical hairpin of myoglobin. Biochemistry 32, 6356-6364.
-
(1993)
Biochemistry
, vol.32
, pp. 6356-6364
-
-
Shin, J.C.1
Merutka, G.2
Waltho, J.P.3
Tennant, L.L.4
Dyson, H.J.5
Wright, P.E.6
-
42
-
-
0023927904
-
Identification of structural motifs from protein coordinate data: Secondary structure and first-level supersecondary structure
-
Richards, F. M. and Kundrot, C. E. (1988) Identification of structural motifs from protein coordinate data: secondary structure and first-level supersecondary structure. Proteins 3, 71-84.
-
(1988)
Proteins
, vol.3
, pp. 71-84
-
-
Richards, F.M.1
Kundrot, C.E.2
-
43
-
-
0030461645
-
Patterns and conformations of commonly occurring supersecondary structures (basic motifs) in protein data bank
-
Sun, Z. and Jiang, B. (1996) Patterns and conformations of commonly occurring supersecondary structures (basic motifs) in protein data bank. J. Protein. Chem. 15, 675-690.
-
(1996)
J. Protein. Chem.
, vol.15
, pp. 675-690
-
-
Sun, Z.1
Jiang, B.2
-
44
-
-
0031991297
-
Structural classification of αββ and ββα supersecondary structure units in proteins
-
Boutonnet, N. S., Kajava, A. V., and Rooman, M. J. (1998) Structural classification of αββ and ββα supersecondary structure units in proteins. Proteins 30, 193-212.
-
(1998)
Proteins
, vol.30
, pp. 193-212
-
-
Boutonnet, N.S.1
Kajava, A.V.2
Rooman, M.J.3
-
45
-
-
0028327236
-
Protein folding dynamics: The diffusion-collision model and experimental data
-
Karplus, M. and Weaver, D. L. (1994) Protein folding dynamics: the diffusion-collision model and experimental data. Protein Sci. 3, 650-668.
-
(1994)
Protein Sci.
, vol.3
, pp. 650-668
-
-
Karplus, M.1
Weaver, D.L.2
-
46
-
-
0029922493
-
Foldons, protein structural modules, and exons
-
Panchenko, A. R., Luthey-Schulten, Z., and Wolynes, P. G. (1996) Foldons, protein structural modules, and exons. Proc. Natl. Acad. Sci. USA 93, 2008-2013.
-
(1996)
Proc. Natl. Acad. Sci. USA
, vol.93
, pp. 2008-2013
-
-
Panchenko, A.R.1
Luthey-Schulten, Z.2
Wolynes, P.G.3
-
47
-
-
0031565728
-
The foldon universe: A survey of structural similarity and self-recognition of independently folding units
-
Panchenko, A. R., Luthey-Schulten, Z., Cole, R., and Wolynes, P. G. (1997) The foldon universe: a survey of structural similarity and self-recognition of independently folding units. J. Mol. Biol. 272, 95-105.
-
(1997)
J. Mol. Biol.
, vol.272
, pp. 95-105
-
-
Panchenko, A.R.1
Luthey-Schulten, Z.2
Cole, R.3
Wolynes, P.G.4
-
48
-
-
0023055758
-
Compact units in proteins
-
Zehfus, M. H. and Rose, G. D. (1986) Compact units in proteins. Biochemistry 25, 5759-5765.
-
(1986)
Biochemistry
, vol.25
, pp. 5759-5765
-
-
Zehfus, M.H.1
Rose, G.D.2
-
49
-
-
0027297660
-
Improved calculations of compactness and a reevaluation of continuous compact units
-
Zehfus, M. H. (1993) Improved calculations of compactness and a reevaluation of continuous compact units. Proteins 16, 293-300.
-
(1993)
Proteins
, vol.16
, pp. 293-300
-
-
Zehfus, M.H.1
-
50
-
-
0028868995
-
The structure of the transition state for folding of chymotrypsin inhibitor 2 analyzed by protein engineering methods: Evidence for a nucleation condensation mechanism for protein folding
-
Itzhaki, L. S., Otzen, D. E., and Fersht, A. R. (1995) The structure of the transition state for folding of chymotrypsin inhibitor 2 analyzed by protein engineering methods: evidence for a nucleation condensation mechanism for protein folding. J. Mol. Biol. 254, 260-288.
-
(1995)
J. Mol. Biol.
, vol.254
, pp. 260-288
-
-
Itzhaki, L.S.1
Otzen, D.E.2
Fersht, A.R.3
-
51
-
-
0029055313
-
LINUS: A hierarchic procedure to predict the fold of a protein
-
Srinivasan, R. and Rose, G. D. (1995) LINUS: a hierarchic procedure to predict the fold of a protein. Proteins 22, 81-99.
-
(1995)
Proteins
, vol.22
, pp. 81-99
-
-
Srinivasan, R.1
Rose, G.D.2
-
52
-
-
0029740071
-
Non-native α-helical intermediate in the refolding of β-lactoglobulin, a predominantly β-sheet protein
-
Harnada, D., Segawa, S.-I., and Goto, Y. (1996) Non-native α-helical intermediate in the refolding of β-lactoglobulin, a predominantly β-sheet protein. Nat. Struct. Biol. 3, 869-873.
-
(1996)
Nat. Struct. Biol.
, vol.3
, pp. 869-873
-
-
Harnada, D.1
Segawa, S.-I.2
Goto, Y.3
-
53
-
-
0030334822
-
Conformational investigation of designed short linear peptides able to fold into β-hairpin structures in aqueous solution
-
de Alba, E., Jimenez, M. A., Rico, M., and Nieto, J. L. (1996) Conformational investigation of designed short linear peptides able to fold into β-hairpin structures in aqueous solution. Folding Design 1, 133-144.
-
(1996)
Folding Design
, vol.1
, pp. 133-144
-
-
De Alba, E.1
Jimenez, M.A.2
Rico, M.3
Nieto, J.L.4
-
54
-
-
0031454065
-
Cross-strand side-chain interactions versus turn conformation in β-hairpins
-
de Alba, E., Rico, M., and Jimenez, M. A. (1997) Cross-strand side-chain interactions versus turn conformation in β-hairpins. Protein Sci. 6, 2548-2560.
-
(1997)
Protein Sci.
, vol.6
, pp. 2548-2560
-
-
De Alba, E.1
Rico, M.2
Jimenez, M.A.3
-
55
-
-
0029891313
-
De novo design and structural analysis of a model β-hairpin peptide system
-
Ramirez-Alvarado, M., Blanco, F. J., and Serrano, L. (1996) De novo design and structural analysis of a model β-hairpin peptide system. Nature Struct. Biol. 3, 604-612.
-
(1996)
Nature Struct. Biol.
, vol.3
, pp. 604-612
-
-
Ramirez-Alvarado, M.1
Blanco, F.J.2
Serrano, L.3
-
56
-
-
0035037143
-
A proposed structural mode 1 for amyloid fibril elongation: Domain swapping forms an interdigitating β-structure polymer
-
Sinha, N., Tsai, C.J., and Nussinov, R. (2001) A proposed structural mode 1 for amyloid fibril elongation: domain swapping forms an interdigitating β-structure polymer. Protein Eng. 14 93-103.
-
(2001)
Protein Eng.
, vol.14
, pp. 93-103
-
-
Sinha, N.1
Tsai, C.J.2
Nussinov, R.3
-
57
-
-
0027405357
-
Cooperativity in protein-folding kinetics
-
Dill, K. A., Fiebig, K. M., and Chan, H. S. (1993) Cooperativity in protein-folding kinetics. Proc. Natl. Acad. Sci. USA 90, 1942-1946.
-
(1993)
Proc. Natl. Acad. Sci. USA
, vol.90
, pp. 1942-1946
-
-
Dill, K.A.1
Fiebig, K.M.2
Chan, H.S.3
-
58
-
-
4243416989
-
Chain length scaling of protein folding time
-
Gutin, A. M., Abkevitch, V. I., and Shakhnovitch, E. I. (1996) Chain length scaling of protein folding time. Phys. Rev. Lett. 77, 5433-5436.
-
(1996)
Phys. Rev. Lett.
, vol.77
, pp. 5433-5436
-
-
Gutin, A.M.1
Abkevitch, V.I.2
Shakhnovitch, E.I.3
-
59
-
-
0030155292
-
Fast-folding experiments and the topography of protein folding energy landscapes
-
Wolynes, P. G., Luthey-Schulten, Z. A., and Onuchic, J. N. (1996) Fast-folding experiments and the topography of protein folding energy landscapes. Chem. Biol. 3, 425-432.
-
(1996)
Chem. Biol.
, vol.3
, pp. 425-432
-
-
Wolynes, P.G.1
Luthey-Schulten, Z.A.2
Onuchic, J.N.3
-
60
-
-
0343632363
-
Submillisecond kinetics of protein folding
-
Eaton, W. A., Munoz, V., Thompson, P. A., Chan, C. K., and Hofrichter, J. (1997) Submillisecond kinetics of protein folding. Curr. Opin. Struct. Biol. 7, 10-14.
-
(1997)
Curr. Opin. Struct. Biol.
, vol.7
, pp. 10-14
-
-
Eaton, W.A.1
Munoz, V.2
Thompson, P.A.3
Chan, C.K.4
Hofrichter, J.5
-
61
-
-
0029940033
-
Molecular collapse: The rate-limiting step in two-state cytochrome c folding proteins
-
Mayne, L., Englander, S. W., et al. (1996) Molecular collapse: the rate-limiting step in two-state cytochrome c folding proteins. Proteins 24, 413-426.
-
(1996)
Proteins
, vol.24
, pp. 413-426
-
-
Mayne, L.1
Englander, S.W.2
-
62
-
-
0031825181
-
Obligatory steps in protein folding and the conforrnational diversity of the transition state
-
Martinez, J. C., Pisabarro, M. T., and Serrano, L. (1998) Obligatory steps in protein folding and the conforrnational diversity of the transition state. Nat. Struct. Biol. 5, 721-729.
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 721-729
-
-
Martinez, J.C.1
Pisabarro, M.T.2
Serrano, L.3
-
63
-
-
0031853167
-
Important role of hydrogen bonds in the structurally polarized transition state for folding of the scr SH3 domain
-
Grantcharova, V. P., Riddle, D. S., Santiago, J. V., and Baker, D. (1998) Important role of hydrogen bonds in the structurally polarized transition state for folding of the scr SH3 domain. Nat. Struct. Biol. 5, 714-720.
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 714-720
-
-
Grantcharova, V.P.1
Riddle, D.S.2
Santiago, J.V.3
Baker, D.4
-
64
-
-
0030322669
-
Protein folding funnels: The nature of the transition state ensemble
-
Onuchic, J. N., Socci, N. D., Luthey-Schulten, Z., and Wolynes, P. G. (1996) Protein folding funnels: the nature of the transition state ensemble. Folding Design 1, 441-450.
-
(1996)
Folding Design
, vol.1
, pp. 441-450
-
-
Onuchic, J.N.1
Socci, N.D.2
Luthey-Schulten, Z.3
Wolynes, P.G.4
-
65
-
-
0031856887
-
Satisfying turns in folding transitions
-
Gruebele, M. and Wolynes, P. (1998) Satisfying turns in folding transitions. Nat. Struct. Biol. 5, 662-665.
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 662-665
-
-
Gruebele, M.1
Wolynes, P.2
-
66
-
-
0033548458
-
The greek key protein apo-pseudoazurin folds through an obligate on-pathway intermediate
-
Capaldi, A. P., Ferguson, S. J., and Radford, S. E. (1999) The Greek key protein apo-pseudoazurin folds through an obligate on-pathway intermediate. J. Mol. Biol. 286, 1621-1632.
-
(1999)
J. Mol. Biol.
, vol.286
, pp. 1621-1632
-
-
Capaldi, A.P.1
Ferguson, S.J.2
Radford, S.E.3
-
67
-
-
0031556019
-
Protein folding simulations with genetic algorithms and a detailed molecular description
-
Pedersen, J. T. and Moult, J. (1997) Protein folding simulations with genetic algorithms and a detailed molecular description. J. Mol. Biol. 269, 240-259.
-
(1997)
J. Mol. Biol.
, vol.269
, pp. 240-259
-
-
Pedersen, J.T.1
Moult, J.2
-
68
-
-
0032555696
-
Prediction of local structure in proteins using a library of sequence-structure motifs
-
Bystroff, C. and Baker, D. (1998) Prediction of local structure in proteins using a library of sequence-structure motifs. J. Mol. Biol. 281, 565-577.
-
(1998)
J. Mol. Biol.
, vol.281
, pp. 565-577
-
-
Bystroff, C.1
Baker, D.2
-
69
-
-
0030844281
-
Recombination of protein domains facilitated by co-translational folding in eukarotes
-
Netzer, W. J. and Hartl, F. U. (1997) Recombination of protein domains facilitated by co-translational folding in eukarotes. Nature 388, 343-349.
-
(1997)
Nature
, vol.388
, pp. 343-349
-
-
Netzer, W.J.1
Hartl, F.U.2
-
70
-
-
0032005026
-
Protein folding in the cytosol: Chaperonin-dependent and -independent mechanisms
-
Netzer, W. J. and Hartl, F. U. (1998) Protein folding in the cytosol: chaperonin-dependent and -independent mechanisms. Trends Biochem. Sci. 23, 68-73.
-
(1998)
Trends Biochem. Sci.
, vol.23
, pp. 68-73
-
-
Netzer, W.J.1
Hartl, F.U.2
-
71
-
-
0032825283
-
Co-translational folding
-
Hardesty, B., Tsalkova, T., and Kramer, G. (1999) Co-translational folding. Curr. Opin. Struct. Biol. 9, 111-114.
-
(1999)
Curr. Opin. Struct. Biol.
, vol.9
, pp. 111-114
-
-
Hardesty, B.1
Tsalkova, T.2
Kramer, G.3
-
72
-
-
0017411710
-
The protein databank: A computer-based archival file for macromolecular structures
-
Bernstein, F. C., Koetzle, T. F., Williams, G. J. B., Meyer, E. F., Jr., Brice, M. D., Rodgers, J. R., Kennard, O., Shimanouchi, T., and Tasumi, M. (1977) The protein databank: a computer-based archival file for macromolecular structures. J. Mol. Biol. 112, 535-542.
-
(1977)
J. Mol. Biol.
, vol.112
, pp. 535-542
-
-
Bernstein, F.C.1
Koetzle, T.F.2
Williams, G.J.B.3
Meyer E.F., Jr.4
Brice, M.D.5
Rodgers, J.R.6
Kennard, O.7
Shimanouchi, T.8
Tasumi, M.9
-
73
-
-
0033547324
-
Identification of in vivo substrates of the chaperonin GroEl
-
Houry, W. A., Frishman, D., Eckerson, C., Lottspeich, F., and Hartl, F. U. (1999) Identification of in vivo substrates of the chaperonin GroEl. Nature 402, 147-154.
-
(1999)
Nature
, vol.402
, pp. 147-154
-
-
Houry, W.A.1
Frishman, D.2
Eckerson, C.3
Lottspeich, F.4
Hartl, F.U.5
-
74
-
-
0027465261
-
Structure of glycosomal glyceraldehyde-3-phosphate dehydrogenase from Trypanosoma brucei determined from laue data
-
Vellieux, F. M. D., Hajdu, J., Verlinde, L. M. J., Groendijk, H., Read, R. J., Greenhough, T. J., Campbell, J. W., Kalk, K. H., Littlechild, J. A., Watson, H. C., and Hol, W. G. J. (1993) Structure of glycosomal glyceraldehyde-3-phosphate dehydrogenase from Trypanosoma brucei determined from Laue data. Proc. Natl. Acad. Sci. USA 90, 2355-2359.
-
(1993)
Proc. Natl. Acad. Sci. USA
, vol.90
, pp. 2355-2359
-
-
Vellieux, F.M.D.1
Hajdu, J.2
Verlinde, L.M.J.3
Groendijk, H.4
Read, R.J.5
Greenhough, T.J.6
Campbell, J.W.7
Kalk, K.H.8
Littlechild, J.A.9
Watson, H.C.10
Hol, W.G.J.11
-
75
-
-
0031883764
-
Steric chaperones
-
Ellis, R. J. (1998) Steric chaperones. Trends Biochem. Sci. 23, 43-45.
-
(1998)
Trends Biochem. Sci.
, vol.23
, pp. 43-45
-
-
Ellis, R.J.1
-
76
-
-
0028204771
-
Domain swapping: Entangling alliances between proteins
-
Bennett, M. J., Choe, S., and Eisenberg, D. (1994) Domain swapping: entangling alliances between proteins. Proc. Nat. Acad. Sci. USA 91, 3127-3131.
-
(1994)
Proc. Nat. Acad. Sci. USA
, vol.91
, pp. 3127-3131
-
-
Bennett, M.J.1
Choe, S.2
Eisenberg, D.3
-
77
-
-
0028865843
-
3D domain swapping: A mechanism for oligomer assembly
-
Bennett, M. J., Schlunegger, M. P., and Eisenberg, D. (1995) 3D domain swapping: a mechanism for oligomer assembly. Protein Sci. 4, 2455-2468.
-
(1995)
Protein Sci.
, vol.4
, pp. 2455-2468
-
-
Bennett, M.J.1
Schlunegger, M.P.2
Eisenberg, D.3
-
78
-
-
0033514409
-
Trimeric domain-swapped barnase
-
Zegers, I., Deswarte, J., and Wyns, L. (1999) Trimeric domain-swapped barnase. Proc. Natl. Acad. Sci. USA 96, 818-822.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 818-822
-
-
Zegers, I.1
Deswarte, J.2
Wyns, L.3
-
79
-
-
0026569679
-
The dual-mode quarternari structure of seminal rnase
-
Piccoli, R., Tamburrini, M., Piccialli, G., Di Donato, A., Parente, A., and D'Alessio, G. (1992) The dual-mode quarternari structure of seminal rnase. Proc. Natl. Acad. Sci. USA 89, 1870-1874.
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 1870-1874
-
-
Piccoli, R.1
Tamburrini, M.2
Piccialli, G.3
Di Donato, A.4
Parente, A.5
D'Alessio, G.6
-
80
-
-
0029190841
-
Oligomer evolution in action
-
D'Alessio, G. (1995) Oligomer evolution in action. Nat. Struct. Biol. 2, 11-13.
-
(1995)
Nat. Struct. Biol.
, vol.2
, pp. 11-13
-
-
D'Alessio, G.1
-
81
-
-
0000370391
-
The topology of multidimensional potential energy surfaces: Theory and application to peptide structure and kinetics
-
Becker, O. M. and Karplus, M. (1997) The topology of multidimensional potential energy surfaces: theory and application to peptide structure and kinetics. J. Chem. Phys. 106, 1495-1517.
-
(1997)
J. Chem. Phys.
, vol.106
, pp. 1495-1517
-
-
Becker, O.M.1
Karplus, M.2
-
82
-
-
0033104745
-
The folding funnel landscape for the peptide met-enkephalin
-
Hansmann, U. H. E., Okamoto, Y., and Onuchic, J. N. (1999) The folding funnel landscape for the peptide met-enkephalin. Proteins 34, 472-483.
-
(1999)
Proteins
, vol.34
, pp. 472-483
-
-
Hansmann, U.H.E.1
Okamoto, Y.2
Onuchic, J.N.3
-
83
-
-
0029904097
-
Role of non-native aromatic and hydrophobic interactions in the folding of hen egg white lysozyme
-
Rothwarf, D. M. and Scheraga, H. A. (1996) Role of non-native aromatic and hydrophobic interactions in the folding of hen egg white lysozyme. Biochemistry 35, 13,797-13,807.
-
(1996)
Biochemistry
, vol.35
, pp. 13797-13807
-
-
Rothwarf, D.M.1
Scheraga, H.A.2
-
84
-
-
0028286471
-
Kinetics versus thermodynamics in protein folding
-
Baker, D. and Agard, D. A. (1994) Kinetics versus thermodynamics in protein folding. Biochemistry 33, 7505-7509.
-
(1994)
Biochemistry
, vol.33
, pp. 7505-7509
-
-
Baker, D.1
Agard, D.A.2
-
85
-
-
0030756534
-
Protein memory through altered folding mediated by intramolecular chaperones
-
Shinde, U. P., Liu, J. J., and Inoye, M. (1997) Protein memory through altered folding mediated by intramolecular chaperones. Nature 389, 520-522.
-
(1997)
Nature
, vol.389
, pp. 520-522
-
-
Shinde, U.P.1
Liu, J.J.2
Inoye, M.3
-
86
-
-
0032993447
-
Polymer principles and protein folding
-
Dill, K. A. (1999) Polymer principles and protein folding. Protein Sci. 8, 1166-1180.
-
(1999)
Protein Sci.
, vol.8
, pp. 1166-1180
-
-
Dill, K.A.1
-
87
-
-
36449000646
-
Transition states and folding dynamics of proteins and heteropolymers
-
Chan, H. S. and Dill, K. A. (1994) Transition states and folding dynamics of proteins and heteropolymers. J. Chem. Phys. 100, 9238-9257.
-
(1994)
J. Chem. Phys.
, vol.100
, pp. 9238-9257
-
-
Chan, H.S.1
Dill, K.A.2
-
88
-
-
0003166498
-
Protein folding in the landscape perspective: Chevron plots and non-Arrhenius kinetics
-
Chan, H. S. and Dill, K. A. (1998) Protein folding in the landscape perspective: Chevron plots and non-Arrhenius kinetics. Proteins 30, 2-33.
-
(1998)
Proteins
, vol.30
, pp. 2-33
-
-
Chan, H.S.1
Dill, K.A.2
-
89
-
-
0030788883
-
Protein structure and energy landscape dependence on sequence using a continuous energy function
-
Dill, K. A., Phillips, A. T., and Rosen, J. B. (1997) Protein structure and energy landscape dependence on sequence using a continuous energy function. J. Comp. Biol. 4, 227-239.
-
(1997)
J. Comp. Biol.
, vol.4
, pp. 227-239
-
-
Dill, K.A.1
Phillips, A.T.2
Rosen, J.B.3
-
90
-
-
0032552138
-
Archetypal energy landscapes
-
Wales, D. J., Miller, M. A., and Walsh, T. R. (1998) Archetypal energy landscapes. Nature 394, 758-760.
-
(1998)
Nature
, vol.394
, pp. 758-760
-
-
Wales, D.J.1
Miller, M.A.2
Walsh, T.R.3
-
91
-
-
0000162848
-
Structural relaxation in morse clusters: Energy landscapes
-
Miller, M. A., Doye, J. P. K., and Wales, D. J. (1999) Structural relaxation in morse clusters: energy landscapes. J. Chem. Phys. 110, 328-334.
-
(1999)
J. Chem. Phys.
, vol.110
, pp. 328-334
-
-
Miller, M.A.1
Doye, J.P.K.2
Wales, D.J.3
-
92
-
-
0001764256
-
Energy landscape of a model protein
-
Miller, M. A. and Wales, D. J. (1999) Energy landscape of a model protein. J. Chem. Phys. 111, 6610-6616.
-
(1999)
J. Chem. Phys.
, vol.111
, pp. 6610-6616
-
-
Miller, M.A.1
Wales, D.J.2
-
94
-
-
0019877668
-
Location of structural domains in proteins
-
Wodak, S. J. and Janin, J. (1981) Location of structural domains in proteins. Biochemistry 20, 6544-6552.
-
(1981)
Biochemistry
, vol.20
, pp. 6544-6552
-
-
Wodak, S.J.1
Janin, J.2
-
95
-
-
4243342462
-
Anatomy of protein structures: Visualizing how a 1-D protein chain folds into a 3-D shape
-
in press
-
Tsai, C. J., Maizel, J. V., and Nussinov, R. (2000) Anatomy of protein structures: visualizing how a 1-D protein chain folds into a 3-D shape. Proc. Natl. Acad. Sci. USA, in press.
-
(2000)
Proc. Natl. Acad. Sci. USA
-
-
Tsai, C.J.1
Maizel, J.V.2
Nussinov, R.3
-
96
-
-
0041463462
-
-
Submitted
-
Sham, Y. Y., Ma, B., Tsai, C. J., and Nussinov, R. (2000) Molecular dynamics simulation of Escherichia coli dihydrofolate reductase and its protein fragments: relative stabilities in experiment and simulations. Submitted.
-
(2000)
Molecular Dynamics Simulation of Escherichia Coli Dihydrofolate Reductase and Its Protein Fragments: Relative Stabilities in Experiment and Simulations
-
-
Sham, Y.Y.1
Ma, B.2
Tsai, C.J.3
Nussinov, R.4
|