蛋白质折叠的拉伸晶格模型
Stretching lattice models of protein folding.
作者信息
Socci N D, Onuchic J N, Wolynes P G
机构信息
Bell Laboratories, Lucent Technologies, 700 Mountain Avenue, Murray Hill, NJ 07974, USA.
出版信息
Proc Natl Acad Sci U S A. 1999 Mar 2;96(5):2031-5. doi: 10.1073/pnas.96.5.2031.
Abstract
A new class of experiments that probe folding of individual protein domains uses mechanical stretching to cause the transition. We show how stretching forces can be incorporated in lattice models of folding. For fast folding proteins, the analysis suggests a complex relation between the force dependence and the reaction coordinate for folding.
摘要
一类新的探究单个蛋白质结构域折叠的实验利用机械拉伸来引发转变。我们展示了拉伸力如何能纳入折叠的晶格模型中。对于快速折叠的蛋白质，分析表明力依赖性与折叠反应坐标之间存在复杂的关系。
相似文献
1
Stretching lattice models of protein folding.蛋白质折叠的拉伸晶格模型
Proc Natl Acad Sci U S A. 1999 Mar 2;96(5):2031-5. doi: 10.1073/pnas.96.5.2031.
2
Stretching single-domain proteins: phase diagram and kinetics of force-induced unfolding.拉伸单结构域蛋白：相图与力诱导解折叠动力学
Proc Natl Acad Sci U S A. 1999 May 25;96(11):6166-70. doi: 10.1073/pnas.96.11.6166.
3
Topography of the free-energy landscape probed via mechanical unfolding of proteins.通过蛋白质的机械展开探测自由能景观的拓扑结构。
J Chem Phys. 2005 Jun 15;122(23):234915. doi: 10.1063/1.1931659.
4
The folding mechanism of a beta-sheet: the WW domain.β-折叠的折叠机制：WW结构域。
J Mol Biol. 2001 Aug 10;311(2):373-93. doi: 10.1006/jmbi.2001.4873.
5
Effect of finite size on cooperativity and rates of protein folding.有限尺寸对蛋白质折叠协同性和速率的影响。
J Phys Chem A. 2006 Jan 19;110(2):671-6. doi: 10.1021/jp053770b.
6
Quantifying kinetic paths of protein folding.量化蛋白质折叠的动力学路径。
Biophys J. 2005 Sep;89(3):1612-20. doi: 10.1529/biophysj.104.055186. Epub 2005 Jul 1.
7
Lattice models for proteins reveal multiple folding nuclei for nucleation-collapse mechanism.蛋白质的晶格模型揭示了成核-塌缩机制中的多个折叠核。
J Mol Biol. 1998 Sep 18;282(2):471-92. doi: 10.1006/jmbi.1998.1997.
8
The folding kinetics and thermodynamics of the Fyn-SH3 domain.Fyn-SH3结构域的折叠动力学与热力学
Biochemistry. 1998 Feb 24;37(8):2529-37. doi: 10.1021/bi972075u.
9
Universality and diversity of the protein folding scenarios: a comprehensive analysis with the aid of a lattice model.蛋白质折叠模式的普遍性与多样性：借助晶格模型的综合分析
Fold Des. 1996;1(2):103-16. doi: 10.1016/S1359-0278(96)00019-3.
10
Statistical mechanics of protein folding, unfolding and fluctuation.蛋白质折叠、解折叠及波动的统计力学
Adv Biophys. 1976:65-113.
引用本文的文献
1
Emergent spatiotemporal population dynamics with cell-length control of synthetic microbial consortia.具有合成微生物群落细胞长度控制的紧急时空种群动态。
PLoS Comput Biol. 2021 Sep 22;17(9):e1009381. doi: 10.1371/journal.pcbi.1009381. eCollection 2021 Sep.
2
Estimating transition path times and shapes from single-molecule photon trajectories: A simulation analysis.从单分子光子轨迹估计跃迁路径时间和形状：模拟分析。
J Chem Phys. 2021 Mar 21;154(11):115101. doi: 10.1063/5.0040949.
3
Molecular Simulations Suggest a Force-Dependent Mechanism of Vinculin Activation.分子模拟揭示了纽蛋白激活的力依赖性机制。
Biophys J. 2017 Oct 17;113(8):1697-1710. doi: 10.1016/j.bpj.2017.08.037.
4
Reduction of All-Atom Protein Folding Dynamics to One-Dimensional Diffusion.将全原子蛋白质折叠动力学简化为一维扩散
J Phys Chem B. 2015 Dec 10;119(49):15247-55. doi: 10.1021/acs.jpcb.5b09741. Epub 2015 Nov 25.
5
Connecting thermal and mechanical protein (un)folding landscapes.连接热与机械作用下蛋白质的（去）折叠态势图
Biophys J. 2014 Dec 16;107(12):2950-2961. doi: 10.1016/j.bpj.2014.10.021.
6
Probing static disorder in Arrhenius kinetics by single-molecule force spectroscopy.通过单分子力谱研究 Arrhenius 动力学中的静态无序。
Proc Natl Acad Sci U S A. 2010 Jun 22;107(25):11336-40. doi: 10.1073/pnas.1006517107. Epub 2010 Jun 8.
7
Temperature and chemical denaturant dependence of forced unfolding of titin I27.肌联蛋白I27强制展开的温度和化学变性剂依赖性
J Phys Chem B. 2009 Aug 6;113(31):10845-8. doi: 10.1021/jp9002356.
8
Stabilizing effect of knots on proteins.结对蛋白质的稳定作用。
Proc Natl Acad Sci U S A. 2008 Dec 16;105(50):19714-9. doi: 10.1073/pnas.0805468105. Epub 2008 Dec 8.
9
Multiple-basin energy landscapes for large-amplitude conformational motions of proteins: Structure-based molecular dynamics simulations.蛋白质大振幅构象运动的多盆地能量景观：基于结构的分子动力学模拟
Proc Natl Acad Sci U S A. 2006 Aug 8;103(32):11844-9. doi: 10.1073/pnas.0604375103. Epub 2006 Jul 28.
10
Numerical simulation of gel electrophoresis of DNA knots in weak and strong electric fields.弱电场和强电场中DNA纽结凝胶电泳的数值模拟
Biophys J. 2006 May 1;90(9):3100-5. doi: 10.1529/biophysj.105.070128. Epub 2006 Feb 10.
本文引用的文献
1
Intermittency of single molecule reaction dynamics in fluctuating environments.波动环境下单分子反应动力学的间歇性
Phys Rev Lett. 1995 May 22;74(21):4317-4320. doi: 10.1103/PhysRevLett.74.4317.
2
Unfolding of titin immunoglobulin domains by steered molecular dynamics simulation.通过定向分子动力学模拟研究肌联蛋白免疫球蛋白结构域的解折叠
Biophys J. 1998 Aug;75(2):662-71. doi: 10.1016/S0006-3495(98)77556-3.
3
Folding funnels and energy landscapes of larger proteins within the capillarity approximation.在毛细近似下较大蛋白质的折叠漏斗与能量景观
Proc Natl Acad Sci U S A. 1997 Jun 10;94(12):6170-5. doi: 10.1073/pnas.94.12.6170.
4
Elasticity and unfolding of single molecules of the giant muscle protein titin.巨大肌肉蛋白肌联蛋白单分子的弹性与解折叠
Nature. 1997 May 15;387(6630):308-12. doi: 10.1038/387308a0.
5
Folding-unfolding transitions in single titin molecules characterized with laser tweezers.用激光镊子表征单个肌联蛋白分子中的折叠-去折叠转变。
Science. 1997 May 16;276(5315):1112-6. doi: 10.1126/science.276.5315.1112.
6
Reversible unfolding of individual titin immunoglobulin domains by AFM.通过原子力显微镜对肌联蛋白单个免疫球蛋白结构域进行可逆解折叠
Science. 1997 May 16;276(5315):1109-12. doi: 10.1126/science.276.5315.1109.
7
Rate of protein folding near the point of thermodynamic equilibrium between the coil and the most stable chain fold.在无规卷曲与最稳定链折叠之间的热力学平衡点附近的蛋白质折叠速率。
Fold Des. 1997;2(2):115-21. doi: 10.1016/s1359-0278(97)00016-3.
8
Protein folding funnels: the nature of the transition state ensemble.蛋白质折叠漏斗：过渡态系综的本质
Fold Des. 1996;1(6):441-50. doi: 10.1016/S1359-0278(96)00060-0.
9
Diffusion-limited contact formation in unfolded cytochrome c: estimating the maximum rate of protein folding.未折叠细胞色素c中扩散限制的接触形成：估算蛋白质折叠的最大速率
Proc Natl Acad Sci U S A. 1996 Oct 15;93(21):11615-7. doi: 10.1073/pnas.93.21.11615.
10
Rapid refolding of a proline-rich all-beta-sheet fibronectin type III module.富含脯氨酸的全β折叠纤连蛋白III型结构域的快速重折叠。
Proc Natl Acad Sci U S A. 1996 Oct 1;93(20):10703-6. doi: 10.1073/pnas.93.20.10703.
Zotero 插件