Literature DB >> 20141761

Electrostatic solvation energy for two oppositely charged ions in a solvated protein system: salt bridges can stabilize proteins.

Haipeng Gong1, Karl F Freed.   

Abstract

Born-type electrostatic continuum methods have been an indispensable ingredient in a variety of implicit-solvent methods that reduce computational effort by orders of magnitude compared to explicit-solvent MD simulations and thus enable treatment using larger systems and/or longer times. An analysis of the limitations and failures of the Born approaches serves as a guide for fundamental improvements without diminishing the importance of prior works. One of the major limitations of the Born theory is the lack of a liquidlike description of the response of solvent dipoles to the electrostatic field of the solute and the changes therein, a feature contained in the continuum Langevin-Debye (LD) model applied here to investigate how Coulombic interactions depend on the location of charges relative to the protein/water boundary. This physically more realistic LD model is applied to study the stability of salt bridges. When compared head to head using the same (independently measurable) physical parameters (radii, dielectric constants, etc.), the LD model is in good agreement with observations, whereas the Born model is grossly in error. Our calculations also suggest that a salt bridge on the protein's surface can be stabilizing when the charge separation is < or =4 A. Copyright (c) 2010 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2010        PMID: 20141761      PMCID: PMC2814203          DOI: 10.1016/j.bpj.2009.10.031

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  35 in total

1.  A fast and simple method to calculate protonation states in proteins.

Authors:  L Sandberg; O Edholm
Journal:  Proteins       Date:  1999-09-01

2.  Salt bridge stability in monomeric proteins.

Authors:  S Kumar; R Nussinov
Journal:  J Mol Biol       Date:  1999-11-12       Impact factor: 5.469

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Authors:  Sergio A Hassan; Ernest L Mehler
Journal:  Proteins       Date:  2002-04-01

Review 4.  What are the dielectric "constants" of proteins and how to validate electrostatic models?

Authors:  C N Schutz; A Warshel
Journal:  Proteins       Date:  2001-09-01

5.  Effective Born radii in the generalized Born approximation: the importance of being perfect.

Authors:  Alexey Onufriev; David A Case; Donald Bashford
Journal:  J Comput Chem       Date:  2002-11-15       Impact factor: 3.376

6.  Misfolded free energy surface of a peptide with alphabetabeta motif (1PSV) using the generalized Born solvation model.

Authors:  Youngshang Pak; Eunae Kim; Soonmin Jang
Journal:  J Chem Phys       Date:  2004-11-08       Impact factor: 3.488

7.  Langevin-Debye model for nonlinear electrostatic screening of solvated ions.

Authors:  Haipeng Gong; Karl F Freed
Journal:  Phys Rev Lett       Date:  2009-02-06       Impact factor: 9.161

8.  Variable atomic radii for continuum-solvent electrostatics calculation.

Authors:  Baojing Zhou; Manish Agarwal; Chung F Wong
Journal:  J Chem Phys       Date:  2008-07-07       Impact factor: 3.488

9.  The dielectric constant of a folded protein.

Authors:  M K Gilson; B H Honig
Journal:  Biopolymers       Date:  1986-11       Impact factor: 2.505

10.  Ion-pairs in proteins.

Authors:  D J Barlow; J M Thornton
Journal:  J Mol Biol       Date:  1983-08-25       Impact factor: 5.469

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