Literature DB >> 10233060

COVOL: an interactive program for evaluating second virial coefficients from the triaxial shape or dimensions of rigid macromolecules.

S E Harding1, J C Horton, S Jones, J M Thornton, D J Winzor.   

Abstract

An interactive program is described for calculating the second virial coefficient contribution to the thermodynamic nonideality of solutions of rigid macromolecules based on their triaxial dimensions. The FORTRAN-77 program, available in precompiled form for the PC, is based on theory for the covolume of triaxial ellipsoid particles [Rallison, J. M., and S.E Harding. (1985). J. Colloid Interface Sci. 103:284-289]. This covolume has the potential to provide a magnitude for the second virial coefficient of macromolecules bearing no net charge. Allowance for a charge-charge contribution is made via an expression based on Debye-Hückel theory and uniform distribution of the net charge over the surface of a sphere with dimensions governed by the Stokes radius of the macromolecule. Ovalbumin, ribonuclease A, and hemoglobin are used as model systems to illustrate application of the COVOL routine.

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Year:  1999        PMID: 10233060      PMCID: PMC1300215          DOI: 10.1016/S0006-3495(99)77398-4

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


  12 in total

1.  Calculation of NMR relaxation, covolume, and scattering-related properties of bead models using the SOLPRO computer program.

Authors:  J García de la Torre; S E Harding; B Carrasco
Journal:  Eur Biophys J       Date:  1999       Impact factor: 1.733

2.  Quantitative interpretation of concentration-dependent migration in gel chromatography of reversibly polymerizing solutes.

Authors:  P A Baghurst; L W Nichol; A G Ogston; D J Winzor
Journal:  Biochem J       Date:  1975-06       Impact factor: 3.857

3.  Crystal structure of uncleaved ovalbumin at 1.95 A resolution.

Authors:  P E Stein; A G Leslie; J T Finch; R W Carrell
Journal:  J Mol Biol       Date:  1991-10-05       Impact factor: 5.469

4.  The effect of non-aggregating proteins upon the gelation of sickle cell hemoglobin: model calculations and data analysis.

Authors:  P D Ross; A P Minton
Journal:  Biochem Biophys Res Commun       Date:  1979-06-27       Impact factor: 3.575

5.  Analyses of thermodynamic data for concentrated hemoglobin solutions using scaled particle theory: implications for a simple two-state model of water in thermodynamic analyses of crowding in vitro and in vivo.

Authors:  H J Guttman; C F Anderson; M T Record
Journal:  Biophys J       Date:  1995-03       Impact factor: 4.033

6.  SURFNET: a program for visualizing molecular surfaces, cavities, and intermolecular interactions.

Authors:  R A Laskowski
Journal:  J Mol Graph       Date:  1995-10

7.  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

8.  The crystal structure of human deoxyhaemoglobin at 1.74 A resolution.

Authors:  G Fermi; M F Perutz; B Shaanan; R Fourme
Journal:  J Mol Biol       Date:  1984-05-15       Impact factor: 5.469

9.  The indefinite self-association of lysozyme: consideration of composition-dependent activity coefficients.

Authors:  P R Wills; L W Nichol; R J Siezen
Journal:  Biophys Chem       Date:  1980-02       Impact factor: 2.352

10.  Thermodynamic nonideality in macromolecular solutions. Evaluation of parameters for the prediction of covolume effects.

Authors:  K E Shearwin; D J Winzor
Journal:  Eur J Biochem       Date:  1990-07-05
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  15 in total

1.  Novel size-independent modeling of the dilute solution conformation of the immunoglobulin IgG Fab' domain using SOLPRO and ELLIPS.

Authors:  B Carrasco; J G de la Torre; O Byron; D King; C Walters; S Jones; S E Harding
Journal:  Biophys J       Date:  1999-12       Impact factor: 4.033

2.  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

3.  Non-ideality by sedimentation velocity of halophilic malate dehydrogenase in complex solvents.

Authors:  A Solovyova; P Schuck; L Costenaro; C Ebel
Journal:  Biophys J       Date:  2001-10       Impact factor: 4.033

Review 4.  Foreword to 'Quantitative and analytical relations in biochemistry'-a special issue in honour of Donald J. Winzor's 80th birthday.

Authors:  Damien Hall; Stephen E Harding
Journal:  Biophys Rev       Date:  2016-11-04

5.  Biophysical Reviews' "meet the editors series"-a profile of Steve Harding's career in macromolecular hydrodynamics.

Authors:  Stephen E Harding
Journal:  Biophys Rev       Date:  2022-06-25

6.  Self crowding of globular proteins studied by small-angle x-ray scattering.

Authors:  David P Goldenberg; Brian Argyle
Journal:  Biophys J       Date:  2014-02-18       Impact factor: 4.033

7.  SEDFIT-MSTAR: molecular weight and molecular weight distribution analysis of polymers by sedimentation equilibrium in the ultracentrifuge.

Authors:  Peter Schuck; Richard B Gillis; Tabot M D Besong; Fahad Almutairi; Gary G Adams; Arthur J Rowe; Stephen E Harding
Journal:  Analyst       Date:  2013-11-18       Impact factor: 4.616

8.  A new level of architectural complexity in the human pyruvate dehydrogenase complex.

Authors:  Michaela Smolle; Alison Elizabeth Prior; Audrey Elaine Brown; Alan Cooper; Olwyn Byron; John Gordon Lindsay
Journal:  J Biol Chem       Date:  2006-05-05       Impact factor: 5.157

Review 9.  Recent advances in the analysis of macromolecular interactions using the matrix-free method of sedimentation in the analytical ultracentrifuge.

Authors:  Stephen E Harding; Richard B Gillis; Fahad Almutairi; Tayyibe Erten; M Şamil Kök; Gary G Adams
Journal:  Biology (Basel)       Date:  2015-03-06

Review 10.  Assessing sedimentation equilibrium profiles in analytical ultracentrifugation experiments on macromolecules: from simple average molecular weight analysis to molecular weight distribution and interaction analysis.

Authors:  Stephen E Harding; Richard B Gillis; Gary G Adams
Journal:  Biophys Rev       Date:  2016-11-22
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