Folding λ-repressor at its speed limit

被引:96
作者
Yang, WY
Gruebele, M
机构
[1] Univ Illinois, Ctr Biophys & Computat Biol, Urbana, IL 61801 USA
[2] Univ Illinois, Dept Chem, Urbana, IL 61801 USA
[3] Univ Illinois, Dept Phys, Urbana, IL 61801 USA
基金
美国国家卫生研究院; 美国国家科学基金会;
关键词
D O I
10.1529/biophysj.103.039040
中图分类号
Q6 [生物物理学];
学科分类号
071011 ;
摘要
We show that the five-helix bundle lambda(6-85) can be engineered and solvent-tuned to make the transition from activated two-state folding to downhill folding. The transition manifests itself as the appearance of additional dynamics faster than the activated kinetics, followed by the disappearance of the activated kinetics when the bias toward the native state is increased. Our fastest value of 1 mus for the "speed" limit of lambda(6-85) is measured at low concentrations of a denaturant that smoothes the free-energy surface. Complete disappearance of the activated phase is obtained in stabilizing glucose buffer. Langevin dynamics on a rough free-energy surface with variable bias toward the native state provides a robust and quantitative description of the transition from activated to downhill folding. Based on our simulation, we estimate the residual energetic frustration of lambda(6-85) to be delta(2) G approximate to 0.64 k(2)T(2). We show that lambda(6-86), as well as very fast folding proteins or folding intermediates estimated to lie near the speed limit, provide a better rate-topology correlation than proteins with larger energetic frustration. A limit of beta greater than or equal to 0.7 on any stretching of lambda(6)-(85) barrier-free dynamics suggests that a low-dimensional free-energy surface is sufficient to describe folding.
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页码:596 / 608
页数:13
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