Literature DB >> 19198827

Intrinsic viscosity of bead models for macromolecules and nanoparticles.

José García de la Torre1, D Amorós, A Ortega.   

Abstract

The calculation of the intrinsic viscosity by means of classical treatments of bead models, typically composed of a number of identical beads, presents some problems when applied to models where the beads are unequal and their number is not very large. A correction to this problem was proposed 10 years ago (García de la Torre and Carrasco in Eur Biophys J 27:549-557, 1998). This so-called volume correction, which consisted of adding a term proportional to the volume of the model, was proved to be rigorous in physico-mathematical terms, and produced improved results in some circumstances, but not always. Recently, the volume correction is being reconsidered so that with some deduced or empirical modifications, it can allow for safer predictions of the intrinsic viscosity. This paper contributes a discussion and further improvements of that correction for the intrinsic viscosity.

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Year:  2009        PMID: 19198827     DOI: 10.1007/s00249-009-0405-5

Source DB:  PubMed          Journal:  Eur Biophys J        ISSN: 0175-7571            Impact factor:   1.733


  14 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.  HYDROMIC: prediction of hydrodynamic properties of rigid macromolecular structures obtained from electron microscopy images.

Authors:  J García de la Torre; O Llorca; J L Carrascosa; J M Valpuesta
Journal:  Eur Biophys J       Date:  2001-10       Impact factor: 1.733

3.  Building hydrodynamic bead-shell models for rigid bioparticles of arbitrary shape.

Authors:  J Garcia de la Torre
Journal:  Biophys Chem       Date:  2001-12-25       Impact factor: 2.352

4.  Improved calculation of rotational diffusion and intrinsic viscosity of bead models for macromolecules and nanoparticles.

Authors:  J García de la Torre; G del Rio Echenique; A Ortega
Journal:  J Phys Chem B       Date:  2007-02-08       Impact factor: 2.991

5.  Modeling complex biological macromolecules: reduction of multibead models.

Authors:  Peter Zipper; Helmut Durchschlag
Journal:  J Biol Phys       Date:  2008-05-09       Impact factor: 1.365

Review 6.  The intrinsic viscosity of biological macromolecules. Progress in measurement, interpretation and application to structure in dilute solution.

Authors:  S E Harding
Journal:  Prog Biophys Mol Biol       Date:  1997       Impact factor: 3.667

7.  Construction of hydrodynamic bead models from high-resolution X-ray crystallographic or nuclear magnetic resonance data.

Authors:  O Byron
Journal:  Biophys J       Date:  1997-01       Impact factor: 4.033

8.  HYDRO: a computer program for the prediction of hydrodynamic properties of macromolecules.

Authors:  J Garcia de la Torre; S Navarro; M C Lopez Martinez; F G Diaz; J J Lopez Cascales
Journal:  Biophys J       Date:  1994-08       Impact factor: 4.033

Review 9.  Hydrodynamic properties of complex, rigid, biological macromolecules: theory and applications.

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

10.  Intrinsic viscosity of polymers and biopolymers measured by microchip.

Authors:  Jinkee Lee; Anubhav Tripathi
Journal:  Anal Chem       Date:  2005-11-15       Impact factor: 6.986

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  4 in total

1.  Hydrodynamic multibead modeling: problems, pitfalls and solutions. 3. Comparison of new approaches for improved predictions of translational properties.

Authors:  Peter Zipper; Helmut Durchschlag
Journal:  Eur Biophys J       Date:  2013-05-23       Impact factor: 1.733

2.  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

3.  Many-particle Brownian and Langevin Dynamics Simulations with the Brownmove package.

Authors:  Tihamér Geyer
Journal:  BMC Biophys       Date:  2011-04-13       Impact factor: 4.778

4.  From bead to rod: Comparison of theories by measuring translational drag coefficients of micron-sized magnetic bead-chains in Stokes flow.

Authors:  Kaiyuan Yang; Chen Lu; Xiaodan Zhao; Ryo Kawamura
Journal:  PLoS One       Date:  2017-11-16       Impact factor: 3.240

  4 in total

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