Literature DB >> 23789729

Force-induced unzipping transitions in an athermal crowded environment.

David L Pincus1, D Thirumalai.   

Abstract

Using theoretical arguments and extensive Monte Carlo (MC) simulations of a coarse-grained three-dimensional off-lattice model of a β-hairpin, we demonstrate that the equilibrium critical force, Fc, needed to unfold the biopolymer increases nonlinearly with increasing volume fraction occupied by the spherical macromolecular crowding agent. Both scaling arguments and MC simulations show that the critical force increases as Fc ≈ φc(α). The exponent α is linked to the Flory exponent relating the size of the unfolded state of the biopolymer and the number of amino acids. The predicted power law dependence is confirmed in simulations of the dependence of the isothermal extensibility and the fraction of native contacts on φc. We also show using MC simulations that Fc is linearly dependent on the average osmotic pressure (P) exerted by the crowding agents on the β-hairpin. The highly significant linear correlation coefficient of 0.99657 between Fc and P makes it straightforward to predict the dependence of the critical force on the density of crowders. Our predictions are amenable to experimental verification using laser optical tweezers.

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Year:  2013        PMID: 23789729      PMCID: PMC3808530          DOI: 10.1021/jp402922q

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  54 in total

1.  Effect of dextran on protein stability and conformation attributed to macromolecular crowding.

Authors:  Kenji Sasahara; Peter McPhie; Allen P Minton
Journal:  J Mol Biol       Date:  2003-02-28       Impact factor: 5.469

2.  Statistical mechanics of a nonlinear model for DNA denaturation.

Authors: 
Journal:  Phys Rev Lett       Date:  1989-06-05       Impact factor: 9.161

3.  Dependence of protein folding stability and dynamics on the density and composition of macromolecular crowders.

Authors:  Jeetain Mittal; Robert B Best
Journal:  Biophys J       Date:  2010-01-20       Impact factor: 4.033

4.  Models for excluded volume interaction between an unfolded protein and rigid macromolecular cosolutes: macromolecular crowding and protein stability revisited.

Authors:  Allen P Minton
Journal:  Biophys J       Date:  2004-12-13       Impact factor: 4.033

5.  Effects of crowding and confinement on the structures of the transition state ensemble in proteins.

Authors:  Margaret S Cheung; D Thirumalai
Journal:  J Phys Chem B       Date:  2007-06-22       Impact factor: 2.991

6.  Mechanical control of the directional stepping dynamics of the kinesin motor.

Authors:  Changbong Hyeon; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2007-10-24       Impact factor: 11.205

7.  Internal strain regulates the nucleotide binding site of the kinesin leading head.

Authors:  Changbong Hyeon; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2007-02-07       Impact factor: 11.205

8.  Confinement effects on the kinetics and thermodynamics of protein dimerization.

Authors:  Wei Wang; Wei-Xin Xu; Yaakov Levy; E Trizac; P G Wolynes
Journal:  Proc Natl Acad Sci U S A       Date:  2009-03-18       Impact factor: 11.205

9.  The effects of macromolecular crowding on the mechanical stability of protein molecules.

Authors:  Jian-Min Yuan; Chia-Lin Chyan; Huan-Xiang Zhou; Tse-Yu Chung; Haibo Peng; Guanghui Ping; Guoliang Yang
Journal:  Protein Sci       Date:  2008-09-09       Impact factor: 6.725

10.  Spin glasses and the statistical mechanics of protein folding.

Authors:  J D Bryngelson; P G Wolynes
Journal:  Proc Natl Acad Sci U S A       Date:  1987-11       Impact factor: 11.205

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