Literature DB >> 7647233

Modeling the electrophoresis of rigid polyions: application to lysozyme.

S A Allison1, V T Tran.   

Abstract

An algorithm is developed to determine the electrophoretic mobility of a rigid polyion modeled as a low dielectric volume element of arbitrary shape containing an arbitrary charge distribution. The solvent is modeled as a high dielectric continuum with salt distributed according to the linearized Poisson Boltzmann equation. Account is also taken of a Stern layer that separates the molecular surface and the surface of hydrodynamic shear, or Stern surface. Relaxation of the ion atmosphere because of the presence of the external field is ignored. The electrostatic and hydrodynamic problems are both solved by boundary element methods. The procedure is first applied to spherical polyions containing monopolar, dipolar, and quadrupolar charge distributions, and calculated mobilities are found to be in excellent agreement with the theory of Yoon and Kim. It is then applied to lysozyme by using models that account for the detailed shape and charge distribution of the enzyme. For reasonable choices of the molecular and Stern surfaces, calculated and experimental mobilities are found to be in fair agreement with each other. However, if a pH independent Stern layer (or, equivalently, translational diffusion constant, Dt) is assumed, the calculated mobilities exhibit a stronger pH dependence than is observed experimentally. A small increase in Dt with increasing pH could correct this discrepancy.

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Year:  1995        PMID: 7647233      PMCID: PMC1282136          DOI: 10.1016/S0006-3495(95)80408-X

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


  16 in total

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Journal:  J Biochem       Date:  1977-08       Impact factor: 3.387

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Journal:  Biopolymers       Date:  1977-07       Impact factor: 2.505

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Authors:  M Levitt; R Sharon
Journal:  Proc Natl Acad Sci U S A       Date:  1988-10       Impact factor: 11.205

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Authors:  R M Venable; R W Pastor
Journal:  Biopolymers       Date:  1988-06       Impact factor: 2.505

6.  Observation of the spectrum of light scattered by solutions of biological macromolecules.

Authors:  S B Dubin; J H Lunacek; G B Benedek
Journal:  Proc Natl Acad Sci U S A       Date:  1967-05       Impact factor: 11.205

7.  Analysis of the acid-base titration curve of hen lysozyme.

Authors:  S Kuramitsu; K Hamaguchi
Journal:  J Biochem       Date:  1980-04       Impact factor: 3.387

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Authors:  J G Garcia de la Torre; V A Bloomfield
Journal:  Q Rev Biophys       Date:  1981-02       Impact factor: 5.318

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Authors:  D C Teller; E Swanson; C de Haën
Journal:  Methods Enzymol       Date:  1979       Impact factor: 1.600

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Authors:  P G Squire; M E Himmel
Journal:  Arch Biochem Biophys       Date:  1979-08       Impact factor: 4.013

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  12 in total

1.  Calculation of hydrodynamic properties of globular proteins from their atomic-level structure.

Authors:  J García De La Torre; M L Huertas; B Carrasco
Journal:  Biophys J       Date:  2000-02       Impact factor: 4.033

2.  The length dependence of translational diffusion, free solution electrophoretic mobility, and electrophoretic tether force of rigid rod-like model duplex DNA.

Authors:  S Allison; C Chen; D Stigter
Journal:  Biophys J       Date:  2001-11       Impact factor: 4.033

3.  Modeling the hydration of proteins: prediction of structural and hydrodynamic parameters from X-ray diffraction and scattering data.

Authors:  Helmut Durchschlag; Peter Zipper
Journal:  Eur Biophys J       Date:  2003-04-25       Impact factor: 1.733

4.  Precise boundary element computation of protein transport properties: Diffusion tensors, specific volume, and hydration.

Authors:  Sergio Aragon; David K Hahn
Journal:  Biophys J       Date:  2006-05-19       Impact factor: 4.033

5.  Computational methods for biomolecular electrostatics.

Authors:  Feng Dong; Brett Olsen; Nathan A Baker
Journal:  Methods Cell Biol       Date:  2008       Impact factor: 1.441

6.  Prediction of hydrodynamic and other solution properties of rigid proteins from atomic- and residue-level models.

Authors:  A Ortega; D Amorós; J García de la Torre
Journal:  Biophys J       Date:  2011-08-17       Impact factor: 4.033

7.  Modeling the electrophoresis of lysozyme. II. Inclusion of ion relaxation.

Authors:  S A Allison; M Potter; J A McCammon
Journal:  Biophys J       Date:  1997-07       Impact factor: 4.033

8.  Calculation of translational friction and intrinsic viscosity. II. Application to globular proteins.

Authors:  X Z Zhou
Journal:  Biophys J       Date:  1995-12       Impact factor: 4.033

9.  Stagnation of flow in protein cavities by boundary element microhydrodynamics.

Authors:  Sergio R Aragon; David K Hahn
Journal:  J Phys Chem B       Date:  2009-03-05       Impact factor: 2.991

10.  Hydrodynamic radius coincides with the slip plane position in the electrokinetic behavior of lysozyme.

Authors:  Daniel R Grisham; Vikas Nanda
Journal:  Proteins       Date:  2018-02-05
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