-
1
-
-
0027948175
-
Structure of the transition state for the folding/unfolding of the barley chymotrypsin inhibitor 2 and its implications for mechanisms of protein folding
-
Otzen DE, Itzhaki LS, elMasry NF, Jackson SE, Fersht AR (1994) Structure of the transition state for the folding/unfolding of the barley chymotrypsin inhibitor 2 and its implications for mechanisms of protein folding. Proc Natl Acad Sci USA 91:10422-10425.
-
(1994)
Proc Natl Acad Sci USA
, vol.91
, pp. 10422-10425
-
-
De, O.1
Itzhaki Elmasry Jackson Fersht SE NF LS, A.R.2
-
2
-
-
0028868995
-
The structure of the transition state for folding of chymotrypsin inhibitor 2 analysed by protein engineering methods: Evidence for a nucleation-condensation mechanism for protein folding
-
Itzhaki LS, Otzen DE, Fersht AR (1995) The structure of the transition state for folding of chymotrypsin inhibitor 2 analysed 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
De, O.2
Fersht, A.R.3
-
3
-
-
0026345750
-
Folding of chymotrypsin inhibitor 2.1. Evidence for a two-state transition
-
Jackson SE, Fersht AR (1991) Folding of chymotrypsin inhibitor 2.1. Evidence for a two-state transition. Biochemistry 30:10428-10435.
-
(1991)
Biochemistry
, vol.30
, pp. 10428-10435
-
-
Jackson, S.E.1
Fersht, A.R.2
-
4
-
-
0037456298
-
The complete folding pathway of a protein from nanoseconds to microseconds
-
DOI 10.1038/nature01428
-
Mayor U, et al. (2003) The complete folding pathway of a protein from nanoseconds to microseconds. Nature 421:863-867. (Pubitemid 36254147)
-
(2003)
Nature
, vol.421
, Issue.6925
, pp. 863-867
-
-
Mayor, U.1
Guydosh, N.R.2
Johnson, C.M.3
Gunter Grossmann, J.4
Sato, S.5
Jas, G.S.6
Freund, S.M.V.7
Alonso, D.O.V.8
Daggett, V.9
Fersht, A.R.10
-
5
-
-
0034610360
-
Protein folding and unfolding in microseconds to nanoseconds by experiment and simulation
-
Mayor U, Johnson CM, Daggett V, Fersht AR (2000) Protein folding and unfolding in microseconds to nanoseconds by experiment and simulation. Proc Natl Acad Sci USA 97:13518-13522.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 13518-13522
-
-
Mayor, U.1
Johnson, C.M.2
Daggett, V.3
Fersht, A.R.4
-
6
-
-
27144532135
-
Solution structure of a protein denatured state and folding intermediate
-
DOI 10.1038/nature04054, PII N04054
-
Religa TL, Markson JS, Mayor U, Freund SM, Fersht AR (2005) Solution structure of a protein denatured state and folding intermediate. Nature 437:1053-1056. (Pubitemid 41486989)
-
(2005)
Nature
, vol.437
, Issue.7061
, pp. 1053-1056
-
-
Religa, T.L.1
Markson, J.S.2
Mayor, U.3
Freund, S.M.V.4
Fersht, A.R.5
-
7
-
-
34547151184
-
The helix-turn-helix motif as an ultrafast independently folding domain: The pathway of folding of Engrailed homeodomain
-
DOI 10.1073/pnas.0703434104
-
Religa TL, et al. (2007) The helix-turn-helix motif as an ultrafast independently folding domain: The pathway of folding of engrailed homeodomain. Proc Natl Acad Sci USA 104:9272-9277. (Pubitemid 47185769)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.22
, pp. 9272-9277
-
-
Religa, T.L.1
Johnson, C.M.2
Vu, D.M.3
Brewer, S.H.4
Dyer, R.B.5
Fersht, A.R.6
-
8
-
-
0345255608
-
Unifying features in protein-folding mechanisms
-
DOI 10.1073/pnas.1835776100
-
Gianni S, et al. (2003) Unifying features in protein-folding mechanisms. Proc Natl Acad Sci USA 100:13286-13291. (Pubitemid 37444734)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.23
, pp. 13286-13291
-
-
Gianni, S.1
Guydosh, N.R.2
Khan, F.3
Caldas, T.D.4
Mayor, U.5
White, G.W.N.6
DeMarco, M.L.7
Daggett, V.8
Fersht, A.R.9
-
9
-
-
20544462511
-
Simulation and experiment conspire to reveal cryptic intermediates and a slide from the nucleation-condensation to framework mechanism of folding
-
DOI 10.1016/j.jmb.2005.05.005, PII S0022283605005255
-
White GW, et al. (2005) Simulation and experiment conspire to reveal cryptic intermediates and a slide from the nucleation-condensation to framework mechanism of folding. J Mol Biol 350:757-775. (Pubitemid 40848673)
-
(2005)
Journal of Molecular Biology
, vol.350
, Issue.4
, pp. 757-775
-
-
White, G.W.N.1
Gianni, S.2
Grossmann, J.G.3
Jemth, P.4
Fersht, A.R.5
Daggett, V.6
-
10
-
-
0037154980
-
Protein folding and unfolding at atomic resolution
-
DOI 10.1016/S0092-8674(02)00620-7
-
Fersht AR, Daggett V (2002) Protein folding and unfolding at atomic resolution. Cell 108:573-582. (Pubitemid 34260881)
-
(2002)
Cell
, vol.108
, Issue.4
, pp. 573-582
-
-
Fersht, A.R.1
Daggett, V.2
-
11
-
-
78650639374
-
Kinetics of chain motions within a protein folding intermediate
-
Neuweiler H, Banachewicz W, Fersht AR (2010) Kinetics of chain motions within a protein folding intermediate. Proc Natl Acad Sci USA 107:22106-22110.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 22106-22110
-
-
Neuweiler, H.1
Banachewicz, W.2
Fersht, A.R.3
-
12
-
-
77956567928
-
Refolding the engrailed homeodomain: Structural basis for the accumulation of a folding intermediate
-
McCully ME, Beck DA, Fersht AR, Daggett V (2010) Refolding the engrailed homeodomain: Structural basis for the accumulation of a folding intermediate. Biophys J 99:1628-1636.
-
(2010)
Biophys J
, vol.99
, pp. 1628-1636
-
-
McCully, M.E.1
Beck, D.A.2
Fersht, A.R.3
Daggett, V.4
-
13
-
-
0031057121
-
Structure of Pit-1 POU domain bound to DNA as a dimer: Unexpected arrangement and flexibility
-
Jacobson EM, Li P, Leon-del-Rio A, Rosenfeld MG, Aggarwal AK (1997) Structure of Pit-1 POU domain bound to DNA as a dimer: Unexpected arrangement and flexibility. Genes Dev 11:198-212. (Pubitemid 27081896)
-
(1997)
Genes and Development
, vol.11
, Issue.2
, pp. 198-212
-
-
Jacobson, E.M.1
Li, P.2
Leon-Del-Rio, A.3
Rosenfeld, M.G.4
Aggarwal, A.K.5
-
15
-
-
0015918856
-
Kinetics of unfolding and refolding of proteins. I. Mathematical analysis
-
Ikai A, Tanford C (1973) Kinetics of unfolding and refolding of proteins. I. Mathematical analysis. J Mol Biol 73:145-163.
-
(1973)
J Mol Biol
, vol.73
, pp. 145-163
-
-
Ikai, A.1
Tanford, C.2
-
16
-
-
34249691304
-
Identification and characterization of protein folding intermediates
-
DOI 10.1016/j.bpc.2007.04.008, PII S0301462207000877
-
Gianni S, Ivarsson Y, Jemth P, Brunori M, Travaglini-Allocatelli C (2007) Identification and characterization of protein folding intermediates. Biophys Chem 128:105-113. (Pubitemid 46843445)
-
(2007)
Biophysical Chemistry
, vol.128
, Issue.2-3
, pp. 105-113
-
-
Gianni, S.1
Ivarsson, Y.2
Jemth, P.3
Brunori, M.4
Travaglini-Allocatelli, C.5
-
17
-
-
62049084565
-
The mechanism of folding of Im7 reveals competition between functional and kinetic evolutionary constraints
-
Friel CT, Smith DA, Vendruscolo M, Gsponer J, Radford SE (2009) The mechanism of folding of Im7 reveals competition between functional and kinetic evolutionary constraints. Nat Struct Mol Biol 16:318-324.
-
(2009)
Nat Struct Mol Biol
, vol.16
, pp. 318-324
-
-
Friel, C.T.1
Smith, D.A.2
Vendruscolo, M.3
Gsponer, J.4
Radford, S.E.5
-
18
-
-
78649885501
-
Structural characterization of a misfolded intermediate populated during the folding process of a PDZ domain
-
Gianni S, Ivarsson Y, Travaglini-Allocatelli C, Brunori M, Vendruscolo M (2010) Structural characterization of a misfolded intermediate populated during the folding process of a PDZ domain. Nat Struct Mol Biol 17:1431-1437.
-
(2010)
Nat Struct Mol Biol
, vol.17
, pp. 1431-1437
-
-
Gianni, S.1
Ivarsson, Y.2
Travaglini-Allocatelli, C.3
Brunori, M.4
Vendruscolo, M.5
-
19
-
-
0037215324
-
Weak alignment offers new NMR opportunities to study protein structure and dynamics
-
DOI 10.1110/ps.0233303
-
Bax A (2003)Weak alignment offers new NMR opportunities to study protein structure and dynamics. Protein Sci 12:1-16. (Pubitemid 36020129)
-
(2003)
Protein Science
, vol.12
, Issue.1
, pp. 1-16
-
-
Bax, A.1
-
20
-
-
0029041315
-
Exploring the energy surface of protein folding by structure-reactivity relationships and engineered proteins: Observation of Hammond behavior for the gross structure of the transition state and anti-Hammond behavior for structural elements for unfolding/folding of barnase
-
Matthews JM, Fersht AR (1995) Exploring the energy surface of protein folding by structure-reactivity relationships and engineered proteins: Observation of Hammond behavior for the gross structure of the transition state and anti-Hammond behavior for structural elements for unfolding/folding of barnase. Biochemistry 34:6805-6814.
-
(1995)
Biochemistry
, vol.34
, pp. 6805-6814
-
-
Matthews, J.M.1
Fersht, A.R.2
-
21
-
-
33847309208
-
Conformational entropy of alanine versus glycine in protein denatured states
-
DOI 10.1073/pnas.0611182104
-
Scott KA, Alonso DO, Sato S, Fersht AR, Daggett V (2007) Conformational entropy of alanine versus glycine in protein denatured states. Proc Natl Acad Sci USA 104:2661-2666. (Pubitemid 46327936)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.8
, pp. 2661-2666
-
-
Scott, K.A.1
Alonso, D.O.V.2
Sato, S.3
Fersht, A.R.4
Daggett, V.5
-
23
-
-
77951685093
-
A comprehensive multidimensionalembedded, one-dimensional reaction coordinate for protein unfolding/folding
-
Toofanny RD, Jonsson AL, Daggett V (2010) A comprehensive multidimensionalembedded, one-dimensional reaction coordinate for protein unfolding/folding. Biophys J 98:2671-2681.
-
(2010)
Biophys J
, vol.98
, pp. 2671-2681
-
-
Toofanny, R.D.1
Jonsson, A.L.2
Daggett, V.3
-
24
-
-
0029981188
-
Structure of the transition state for folding of a protein derived from experiment and simulation
-
DOI 10.1006/jmbi.1996.0173
-
Daggett V, Li A, Itzhaki LS, Otzen DE, Fersht AR (1996) Structure of the transition state for folding of a protein derived from experiment and simulation. J Mol Biol 257:430-440. (Pubitemid 26114044)
-
(1996)
Journal of Molecular Biology
, vol.257
, Issue.2
, pp. 430-440
-
-
Daggett, V.1
Li, A.2
Itzhaki, L.S.3
Otzen, D.E.4
Fersht, A.R.5
-
25
-
-
0031127043
-
Development of the multiple sequence approximation within the AGADIR model of alpha-helix formation: Comparison with Zimm-Bragg and Lifson-Roig formalisms
-
Munoz V, Serrano L (1997) Development of the multiple sequence approximation within the AGADIR model of alpha-helix formation: Comparison with Zimm-Bragg and Lifson-Roig formalisms. Biopolymers 41:495-509.
-
(1997)
Biopolymers
, vol.41
, pp. 495-509
-
-
Munoz, V.1
Serrano, L.2
-
26
-
-
0024999332
-
Improved detection of helix-turn-helix DNA-binding motifs in protein sequences
-
Dodd IB, Egan JB (1990) Improved detection of helix-turn-helix DNA-binding motifs in protein sequences. Nucleic Acids Res 18:5019-5026.
-
(1990)
Nucleic Acids Res
, vol.18
, pp. 5019-5026
-
-
Dodd, I.B.1
Egan, J.B.2
-
27
-
-
33846577660
-
NMR Analysis of the Conformational Properties of the Trapped on-pathway Folding Intermediate of the Bacterial Immunity Protein Im7
-
DOI 10.1016/j.jmb.2006.11.012, PII S0022283606015415
-
Whittaker SB, Spence GR, Gunter Grossmann J, Radford SE, Moore GR (2007) NMR analysis of the conformational properties of the trapped on-pathway folding intermediate of the bacterial immunity protein Im7. J Mol Biol 366:1001-1015. (Pubitemid 46175862)
-
(2007)
Journal of Molecular Biology
, vol.366
, Issue.3
, pp. 1001-1015
-
-
Whittaker, S.B.-M.1
Spence, G.R.2
Gunter Grossmann, J.3
Radford, S.E.4
Moore, G.R.5
-
28
-
-
30444450687
-
Determination of an ensemble of structures representing the intermediate state of the bacterial immunity protein Im7
-
DOI 10.1073/pnas.0508667102
-
Gsponer J, et al. (2006) Determination of an ensemble of structures representing the intermediate state of the bacterial immunity protein Im7. Proc Natl Acad Sci USA 103:99-104. (Pubitemid 43076111)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.1
, pp. 99-104
-
-
Gsponer, J.1
Hopearuoho, H.2
Whittaker, S.B.-M.3
Spence, G.R.4
Moore, G.R.5
Paci, E.6
Radford, S.E.7
Vendruscolo, M.8
-
29
-
-
77956501272
-
A transient and lowpopulated protein-folding intermediate at atomic resolution
-
Korzhnev DM, Religa TL, BanachewiczW, Fersht AR, Kay LE (2010) A transient and lowpopulated protein-folding intermediate at atomic resolution. Science 329:1312-1316.
-
(2010)
Science
, vol.329
, pp. 1312-1316
-
-
Korzhnev, D.M.1
Religa, T.L.2
Banachewiczw Fersht, A.R.3
Kay, L.E.4
-
30
-
-
2342655032
-
Demonstration of a low-energy on-pathway intermediate in a fast-folding protein by kinetics, protein engineering, and simulation
-
DOI 10.1073/pnas.0401732101
-
Jemth P, et al. (2004) Demonstration of a low energy on-pathway intermediate in a fast-folding protein by kinetics, protein engineering, and simulation. Proc Natl Acad Sci USA 101:6450-6455. (Pubitemid 38585994)
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.17
, pp. 6450-6455
-
-
Jemth, P.1
Gianni, S.2
Day, R.3
Li, B.4
Johnson, C.M.5
Daggett, V.6
Fersht, A.R.7
-
31
-
-
33846916730
-
Malleability of protein folding pathways: a simple reason for complex behaviour
-
DOI 10.1016/j.sbi.2007.01.008, PII S0959440X07000097, Foldinf and Binding / Protein-Nucleic Interactions
-
Lindberg MO, Oliveberg M (2007) Malleability of protein folding pathways: A simple reason for complex behaviour. Curr Opin Struct Biol 17:21-29. (Pubitemid 46240818)
-
(2007)
Current Opinion in Structural Biology
, vol.17
, Issue.1
, pp. 21-29
-
-
Lindberg, M.O.1
Oliveberg, M.2
-
32
-
-
0028892177
-
Movement of the position of the transition state in protein folding
-
Matouschek A, Otzen DE, Itzhaki LS, Jackson SE, Fersht AR (1995) Movement of the position of the transition state in protein folding. Biochemistry 34:13656-13662.
-
(1995)
Biochemistry
, vol.34
, pp. 13656-13662
-
-
Matouschek, A.1
De, O.2
Itzhaki, L.S.3
Jackson, S.E.4
Fersht, A.R.5
-
33
-
-
17844377028
-
Scanning malleable transition state ensembles: Comparing theory and experiment for folding protein U1A
-
DOI 10.1021/bi0500170
-
Shen T, Hofmann CP, Oliveberg M, Wolynes PG (2005) Scanning malleable transition state ensembles: Comparing theory and experiment for folding protein U1A. Biochemistry 44:6433-6439. (Pubitemid 40593794)
-
(2005)
Biochemistry
, vol.44
, Issue.17
, pp. 6433-6439
-
-
Shen, T.1
Hofmann, C.P.2
Oliveberg, M.3
Wolynes, P.G.4
-
34
-
-
0032539209
-
Combined molecular dynamics and Φ-value analysis of structure- reactivity relationships in the transition state and unfolding pathway of barnase: Structural basis of Hammond and anti-Hammond effects
-
DOI 10.1021/ja981558y
-
Daggett V, Li A, Fersht AR (1998) A combined molecular dynamics and Φ-value analysis of structure-reactivity relationships in the transition state and unfolding pathway of barnase: The structural basis of Hammond and anti-Hammond effects. J Am Chem Soc 120:12740-12754. (Pubitemid 29013826)
-
(1998)
Journal of the American Chemical Society
, vol.120
, Issue.49
, pp. 12740-12754
-
-
Daggett, V.1
Li, A.2
Fersht, A.R.3
-
35
-
-
0034652206
-
Transition-state structure as a unifying basis in protein-folding mechanisms: Contact order, chain topology, stability, and the extended nucleus mechanism
-
DOI 10.1073/pnas.97.4.1525
-
Fersht AR (2000) Transition-state structure as a unifying basis in protein-folding mechanisms: Contact order, chain topology, stability, and the extended nucleus mechanism. Proc Natl Acad Sci USA 97:1525-1529. (Pubitemid 30118475)
-
(2000)
Proceedings of the National Academy of Sciences of the United States of America
, vol.97
, Issue.4
, pp. 1525-1529
-
-
Fersht, A.R.1
-
36
-
-
0026951903
-
Gradient-tailored excitation for single-quantum NMR spectroscopy of aqueous solutions
-
Piotto M, Saudek V, Sklenar V (1992) Gradient-tailored excitation for single-quantum NMR spectroscopy of aqueous solutions. J Biomol NMR 2:661-665.
-
(1992)
J Biomol NMR
, vol.2
, pp. 661-665
-
-
Piotto, M.1
Saudek, V.2
Sklenar, V.3
-
37
-
-
79251565520
-
The dynameomics rotamer library: Amino acid side chain conformations and dynamics from comprehensive molecular dynamics simulations in water
-
Scouras AD, Daggett V (2011) The dynameomics rotamer library: Amino acid side chain conformations and dynamics from comprehensive molecular dynamics simulations in water. Prot Sci 20:341-352.
-
(2011)
Prot Sci
, vol.20
, pp. 341-352
-
-
Scouras, A.D.1
Daggett, V.2
-
38
-
-
12144275299
-
Cutoff size need not strongly influence molecular dynamics results for solvated polypeptides
-
DOI 10.1021/bi0486381
-
Beck DA, Armen RS, Daggett V (2005) Cutoff size need not strongly influence molecular dynamics results for solvated polypeptides. Biochemistry 44:609-616. (Pubitemid 40109517)
-
(2005)
Biochemistry
, vol.44
, Issue.2
, pp. 609-616
-
-
Beck, D.A.C.1
Armen, R.S.2
Daggett, V.3
-
39
-
-
3342918929
-
Methods for molecular dynamics simulations of protein folding/unfolding in solution
-
DOI 10.1016/j.ymeth.2004.03.008, PII S1046202304000568
-
Beck DA, Daggett V (2004) Methods for molecular dynamics simulations of protein folding/unfolding in solution. Methods 34:112-120. (Pubitemid 38993212)
-
(2004)
Methods
, vol.34
, Issue.1
, pp. 112-120
-
-
Beck, D.A.C.1
Daggett, V.2
-
40
-
-
0009979659
-
Precise Representation of volume properties of water at one atmosphere
-
Kell GS (1967) Precise Representation of volume properties of water at one atmosphere. J Chem Eng Data 12:66-69.
-
(1967)
J Chem Eng Data
, vol.12
, pp. 66-69
-
-
Kell, G.S.1
-
41
-
-
0000125216
-
Calibration and testing of a water model for simulation of the molecular dynamics of proteins and nucleic acids in solution
-
Levitt M, Hirshberg M, Sharon R, Daggett V (1997) Calibration and testing of a water model for simulation of the molecular dynamics of proteins and nucleic acids in solution. J Phys Chem B 101:5051-5061. (Pubitemid 127617309)
-
(1997)
Journal of Physical Chemistry B
, vol.101
, Issue.25
, pp. 5051-5061
-
-
Levitt, M.1
Hirshberg, M.2
Sharon, R.3
Laidig, K.E.4
Daggett, V.5
-
42
-
-
0029633167
-
Potential energy function and parameters for simulations of the molecular dynamics of proteins and nucleic acids in solution
-
Levitt M, Hirshberg M, Sharon R, Daggett V (1995) Potential energy function and parameters for simulations of the molecular dynamics of proteins and nucleic acids in solution. Comput Phys Commun 91:215-231.
-
(1995)
Comput Phys Commun
, vol.91
, pp. 215-231
-
-
Levitt, M.1
Hirshberg, M.2
Sharon, R.3
Daggett, V.4
-
44
-
-
26444534036
-
Characterization of a possible amyloidogenic precursor in glutamine-repeat neurodegenerative diseases
-
DOI 10.1073/pnas.0502068102
-
Armen RS, Bernard BM, Day R, Alonso DO, Daggett V (2005) Characterization of a possible amyloidogenic precursor in glutamine-repeat neurodegenerative diseases. Proc Natl Acad Sci USA 102:13433-13438. (Pubitemid 41420865)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.38
, pp. 13433-13438
-
-
Armen, R.S.1
Bernard, B.M.2
Day, R.3
Alonso, D.O.V.4
Daggett, V.5
|