Literature DB >> 11983853

Drying-induced hydrophobic polymer collapse.

Pieter Rein ten Wolde1, David Chandler.   

Abstract

We have used computer simulation to study the collapse of a hydrophobic chain in water. We find that the mechanism of collapse is much like that of a first-order phase transition. The evaporation of water in the vicinity of the polymer provides the driving force for collapse, and the rate limiting step is the nucleation of a sufficiently large vapor bubble. The study is made possible through the application of transition path sampling and a coarse-grained treatment of liquid water. Relevance of our findings to understanding the folding and assembly of proteins is discussed.

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Year:  2002        PMID: 11983853      PMCID: PMC124438          DOI: 10.1073/pnas.052153299

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  8 in total

1.  Model of a fluid at small and large length scales and the hydrophobic effect.

Authors:  Pieter Rein ten Wolde; Sean X Sun; David Chandler
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2001-12-05

2.  Protein folding mediated by solvation: water expulsion and formation of the hydrophobic core occur after the structural collapse.

Authors:  Margaret S Cheung; Angel E García; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2002-01-22       Impact factor: 11.205

3.  An information theory model of hydrophobic interactions.

Authors:  G Hummer; S Garde; A E García; A Pohorille; L R Pratt
Journal:  Proc Natl Acad Sci U S A       Date:  1996-08-20       Impact factor: 11.205

4.  Some factors in the interpretation of protein denaturation.

Authors:  W KAUZMANN
Journal:  Adv Protein Chem       Date:  1959

5.  Gaussian field model of fluids with an application to polymeric fluids.

Authors: 
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  1993-10

6.  Free energy of burying hydrophobic residues in the interface between protein subunits.

Authors:  B Vallone; A E Miele; P Vecchini; E Chiancone; M Brunori
Journal:  Proc Natl Acad Sci U S A       Date:  1998-05-26       Impact factor: 11.205

7.  Solvation energy in protein folding and binding.

Authors:  D Eisenberg; A D McLachlan
Journal:  Nature       Date:  1986 Jan 16-22       Impact factor: 49.962

8.  Dynamical theory of activated processes in globular proteins.

Authors:  S H Northrup; M R Pear; C Y Lee; J A McCammon; M Karplus
Journal:  Proc Natl Acad Sci U S A       Date:  1982-07       Impact factor: 11.205

  8 in total
  57 in total

1.  Assisting the reactivation of guanidine hydrochloride-denatured aminoacylase by hydroxypropyl cyclodextrins.

Authors:  Sung-Hye Kim; Jun Zhang; Yan Jiang; Hai-Meng Zhou; Yong-Bin Yan
Journal:  Biophys J       Date:  2006-04-21       Impact factor: 4.033

2.  Folding a protein in a computer: an atomic description of the folding/unfolding of protein A.

Authors:  Angel E García; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2003-11-17       Impact factor: 11.205

3.  Probing the folding free energy landscape of the Src-SH3 protein domain.

Authors:  Joan-Emma Shea; Jose N Onuchic; Charles L Brooks
Journal:  Proc Natl Acad Sci U S A       Date:  2002-11-22       Impact factor: 11.205

4.  Posttransition state desolvation of the hydrophobic core of the src-SH3 protein domain.

Authors:  Weihua Guo; Sotiria Lampoudi; Joan-Emma Shea
Journal:  Biophys J       Date:  2003-07       Impact factor: 4.033

5.  Dewetting-induced collapse of hydrophobic particles.

Authors:  X Huang; C J Margulis; B J Berne
Journal:  Proc Natl Acad Sci U S A       Date:  2003-09-24       Impact factor: 11.205

6.  Biomolecular free energy profiles by a shooting/umbrella sampling protocol, "BOLAS".

Authors:  Ravi Radhakrishnan; Tamar Schlick
Journal:  J Chem Phys       Date:  2004-08-01       Impact factor: 3.488

7.  Orchestration of cooperative events in DNA synthesis and repair mechanism unraveled by transition path sampling of DNA polymerase beta's closing.

Authors:  Ravi Radhakrishnan; Tamar Schlick
Journal:  Proc Natl Acad Sci U S A       Date:  2004-04-06       Impact factor: 11.205

8.  Simulations of the role of water in the protein-folding mechanism.

Authors:  Young Min Rhee; Eric J Sorin; Guha Jayachandran; Erik Lindahl; Vijay S Pande
Journal:  Proc Natl Acad Sci U S A       Date:  2004-04-16       Impact factor: 11.205

9.  Extended surfaces modulate hydrophobic interactions of neighboring solutes.

Authors:  Amish J Patel; Patrick Varilly; Sumanth N Jamadagni; Hari Acharya; Shekhar Garde; David Chandler
Journal:  Proc Natl Acad Sci U S A       Date:  2011-10-10       Impact factor: 11.205

10.  NMR studies on the monomer-tetramer transition of melittin in an aqueous solution at high and low temperatures.

Authors:  Yoshinori Miura
Journal:  Eur Biophys J       Date:  2012-06-28       Impact factor: 1.733

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