Literature DB >> 11909114

Surface-induced conformational changes in lattice model proteins by Monte Carlo simulation.

Victoria Castells1, Shaoxiong Yang, Paul R Van Tassel.   

Abstract

We present Monte Carlo simulations of thermal, structural, and dynamic properties of a 27-segment lattice model protein adsorbed to a solid surface. The protein consists of a sequence of A and B segments whose order and topological contact energy values are chosen so that a unique (3x3x3 cubic) folded state occurs in the absence of an adsorbing surface [E. I. Shakhnovich and M. Gutin, Proc. Natl. Acad. Sci. USA 90, 7195 (1993)]. The surface consists of a plane of sites that interact either (i) equally with all contacting protein segments (an equal affinity surface) or (ii) more strongly with type A contacting segments (an A affinity surface). For both surfaces, we find the conformational change of an initially folded protein to begin with a continuous transition to a structure where all segments contact the surface. This is followed by a partial refolding to a low energy state; this step is continuous and results in full surface contact for the equal affinity surface and is activated and results in significant loss of surface contact for the A affinity surface. We also observe a lesser (greater) degree of average surface contact in the equal (A) affinity surface with an increase in temperature.

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Year:  2002        PMID: 11909114     DOI: 10.1103/PhysRevE.65.031912

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  8 in total

1.  Solvent-amino acid interaction energies in three-dimensional-lattice Monte Carlo simulations of a model 27-mer protein: Folding thermodynamics and kinetics.

Authors:  Kai Leonhard; John M Prausnitz; Clayton J Radke
Journal:  Protein Sci       Date:  2004-02       Impact factor: 6.725

2.  Thermal and structural stability of adsorbed proteins.

Authors:  Sumit Sharma; B J Berne; Sanat K Kumar
Journal:  Biophys J       Date:  2010-08-09       Impact factor: 4.033

3.  Anomalous thermal denaturing of proteins adsorbed to nanoparticles.

Authors:  J H Teichroeb; J A Forrest; V Ngai; L W Jones
Journal:  Eur Phys J E Soft Matter       Date:  2006-10-16       Impact factor: 1.890

4.  Solution- and adsorbed-state structural ensembles predicted for the statherin-hydroxyapatite system.

Authors:  David L Masica; Jeffrey J Gray
Journal:  Biophys J       Date:  2009-04-22       Impact factor: 4.033

5.  Size-dependent denaturing kinetics of bovine serum albumin adsorbed onto gold nanospheres.

Authors:  J H Teichroeb; J A Forrest; L W Jones
Journal:  Eur Phys J E Soft Matter       Date:  2008-08       Impact factor: 1.890

6.  Assisted peptide folding by surface pattern recognition.

Authors:  Zhuoyun Zhuang; Andrew I Jewett; Silvan Kuttimalai; Giovanni Bellesia; S Gnanakaran; Joan-Emma Shea
Journal:  Biophys J       Date:  2011-03-02       Impact factor: 4.033

7.  Simulation of the effect of reorientation of hydrogen bonds in proteins on long-range electron transfer.

Authors:  Vladimir P Zhdanov
Journal:  J Biol Phys       Date:  2004-01       Impact factor: 1.365

8.  Protein structural perturbation and aggregation on homogeneous surfaces.

Authors:  Ananthakrishnan Sethuraman; Georges Belfort
Journal:  Biophys J       Date:  2004-11-12       Impact factor: 4.033

  8 in total

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