Literature DB >> 26877555

STABILITY OF A CYLINDRICAL SOLUTE-SOLVENT INTERFACE: EFFECT OF GEOMETRY, ELECTROSTATICS, AND HYDRODYNAMICS.

B O Li1, Hui Sun1, Shenggao Zhou1.   

Abstract

The solute-solvent interface that separates biological molecules from their surrounding aqueous solvent characterizes the conformation and dynamics of such molecules. In this work, we construct a solvent fluid dielectric boundary model for the solvation of charged molecules and apply it to study the stability of a model cylindrical solute-solvent interface. The motion of the solute-solvent interface is defined to be the same as that of solvent fluid at the interface. The solvent fluid is assumed to be incompressible and is described by the Stokes equation. The solute is modeled simply by the ideal-gas law. All the viscous force, hydrostatic pressure, solute-solvent van der Waals interaction, surface tension, and electrostatic force are balanced at the solute-solvent interface. We model the electrostatics by Poisson's equation in which the solute-solvent interface is treated as a dielectric boundary that separates the low-dielectric solute from the high-dielectric solvent. For a cylindrical geometry, we find multiple cylindrically shaped equilibrium interfaces that describe polymodal (e.g., dry and wet) states of hydration of an underlying molecular system. These steady-state solutions exhibit bifurcation behavior with respect to the charge density. For their linearized systems, we use the projection method to solve the fluid equation and find the dispersion relation. Our asymptotic analysis shows that, for large wavenumbers, the decay rate is proportional to wavenumber with the proportionality half of the ratio of surface tension to solvent viscosity, indicating that the solvent viscosity does affect the stability of a solute-solvent interface. Consequences of our analysis in the context of biomolecular interactions are discussed.

Entities:  

Keywords:  Solute-solvent interfaces; dielectric boundary force; electrostatic interactions; linear stability; projection method; solvent hydrodynamics; surface energy

Year:  2015        PMID: 26877555      PMCID: PMC4752181          DOI: 10.1137/140972093

Source DB:  PubMed          Journal:  SIAM J Appl Math        ISSN: 0036-1399            Impact factor:   2.080


  37 in total

1.  Electrostatics of nanosystems: application to microtubules and the ribosome.

Authors:  N A Baker; D Sept; S Joseph; M J Holst; J A McCammon
Journal:  Proc Natl Acad Sci U S A       Date:  2001-08-21       Impact factor: 11.205

2.  Differential geometry based solvation model II: Lagrangian formulation.

Authors:  Zhan Chen; Nathan A Baker; G W Wei
Journal:  J Math Biol       Date:  2011-01-30       Impact factor: 2.259

3.  Application of the level-set method to the implicit solvation of nonpolar molecules.

Authors:  Li-Tien Cheng; Joachim Dzubiella; J Andrew McCammon; Bo Li
Journal:  J Chem Phys       Date:  2007-08-28       Impact factor: 3.488

4.  Shear-dependent changes in the three-dimensional structure of human von Willebrand factor.

Authors:  C A Siedlecki; B J Lestini; K K Kottke-Marchant; S J Eppell; D L Wilson; R E Marchant
Journal:  Blood       Date:  1996-10-15       Impact factor: 22.113

5.  Motion of a Cylindrical Dielectric Boundary.

Authors:  Li-Tien Cheng; Bo Li; Michael White; Shenggao Zhou
Journal:  SIAM J Appl Math       Date:  2013       Impact factor: 2.080

6.  Dielectric Boundary Forces in Numerical Poisson-Boltzmann Methods: Theory and Numerical Strategies.

Authors:  Qin Cai; Xiang Ye; Jun Wang; Ray Luo
Journal:  Chem Phys Lett       Date:  2011-10       Impact factor: 2.328

7.  Shear-induced unfolding triggers adhesion of von Willebrand factor fibers.

Authors:  S W Schneider; S Nuschele; A Wixforth; C Gorzelanny; A Alexander-Katz; R R Netz; M F Schneider
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-30       Impact factor: 11.205

8.  Fluid shear induces conformation change in human blood protein von Willebrand factor in solution.

Authors:  Indrajeet Singh; Efrosyni Themistou; Lionel Porcar; Sriram Neelamegham
Journal:  Biophys J       Date:  2009-03-18       Impact factor: 4.033

9.  Level-Set Variational Implicit-Solvent Modeling of Biomolecules with the Coulomb-Field Approximation.

Authors:  Zhongming Wang; Jianwei Che; Li-Tien Cheng; Joachim Dzubiella; Bo Li; J Andrew McCammon
Journal:  J Chem Theory Comput       Date:  2011-12-19       Impact factor: 6.006

10.  Heterogeneous Hydration of p53/MDM2 Complex.

Authors:  Zuojun Guo; Bo Li; Joachim Dzubiella; Li-Tien Cheng; J Andrew McCammon; Jianwei Che
Journal:  J Chem Theory Comput       Date:  2014-01-31       Impact factor: 6.006

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  2 in total

1.  Stochastic level-set variational implicit-solvent approach to solute-solvent interfacial fluctuations.

Authors:  Shenggao Zhou; Hui Sun; Li-Tien Cheng; Joachim Dzubiella; Bo Li; J Andrew McCammon
Journal:  J Chem Phys       Date:  2016-08-07       Impact factor: 3.488

2.  Numerical Treatment of Stokes Solvent Flow and Solute-Solvent Interfacial Dynamics for Nonpolar Molecules.

Authors:  Hui Sun; Shenggao Zhou; David K Moore; Li-Tien Cheng; Bo Li
Journal:  J Sci Comput       Date:  2015-09-12       Impact factor: 2.592

  2 in total

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