Cooperativity in two-state protein folding kinetics

被引：61

作者：

Weikl, TR ^{[1
]}

Palassini, M

Dill, KA

机构：

[1] Max Planck Inst Colloids & Interfaces, D-14424 Potsdam, Germany

[2] Univ Calif San Francisco, Dept Pharmaceut Chem, San Francisco, CA 94143 USA

来源：

PROTEIN SCIENCE | 2004年 / 13卷 / 03期

关键词：

protein folding kinetics; two-state folding; folding cooperativity; Phi-value analysis; effective contact order; loop-closure entropy; master equation;

D O I：

10.1110/ps.03403604

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We present a solvable model that predicts the folding kinetics of two-state proteins from their native structures. The model is based on conditional chain entropies. It assumes that folding processes are dominated by small-loop closure events that can be inferred from native structures. For C12, the src SH3 domain, TNfn3, and protein L, the model reproduces two-state kinetics, and it predicts well the average Phi-values for secondary structures. The barrier to folding is the formation of predominantly local structures such as helices and hairpins, which are needed to bring nonlocal pairs of amino acids into contact.

引用

页码：822 / 829

页数：8

共 45 条

[1] Simple physical models connect theory and experiment in protein folding kinetics [J].

Alm, E ;

Morozov, AV ;

Kortemme, T ;

Baker, D .

JOURNAL OF MOLECULAR BIOLOGY, 2002, 322 (02) :463-476

[2] Prediction of protein-folding mechanisms from free-energy landscapes derived from native structures [J].

Alm, E ;

Baker, D .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1999, 96 (20) :11305-11310

[3] Mean-field approach for a statistical mechanical model of proteins [J].

Bruscolini, P ;

Cecconi, F .

JOURNAL OF CHEMICAL PHYSICS, 2003, 119 (02) :1248-1256

[4] Exact solution of the Munoz-Eaton model for protein folding [J].

Bruscolini, P ;

Pelizzola, A .

PHYSICAL REVIEW LETTERS, 2002, 88 (25) :4

[5] Fast events in protein folding: The time evolution of primary processes [J].

Callender, RH ;

Dyer, RB ;

Gilmanshin, R ;

Woodruff, WH .

ANNUAL REVIEW OF PHYSICAL CHEMISTRY, 1998, 49 :173-202

[6] THE EFFECTS OF INTERNAL CONSTRAINTS ON THE CONFIGURATIONS OF CHAIN MOLECULES [J].

CHAN, HS ;

DILL, KA .

JOURNAL OF CHEMICAL PHYSICS, 1990, 92 (05) :3118-3135

[7] ENERGY LANDSCAPES AND THE COLLAPSE DYNAMICS OF HOMOPOLYMERS [J].

CHAN, HS ;

DILL, KA .

JOURNAL OF CHEMICAL PHYSICS, 1993, 99 (03) :2116-2127

[8] Master equation approach to protein folding and kinetic traps [J].

Cieplak, M ;

Henkel, M ;

Karbowski, J ;

Banavar, JR .

PHYSICAL REVIEW LETTERS, 1998, 80 (16) :3654-3657

[9] Topological and energetic factors: What determines the structural details of the transition state ensemble and "en-route" intermediates for protein folding? An investigation for small globular proteins [J].

Clementi, C ;

Nymeyer, H ;

Onuchic, JN .

JOURNAL OF MOLECULAR BIOLOGY, 2000, 298 (05) :937-953

[10] Molecular dynamics simulations of the protein unfolding/folding reaction [J].

Daggett, V .

ACCOUNTS OF CHEMICAL RESEARCH, 2002, 35 (06) :422-429

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