Literature DB >> 9213556

SOLPRO: theory and computer program for the prediction of SOLution PROperties of rigid macromolecules and bioparticles.

J García de la Torre1, B Carrasco, S E Harding.   

Abstract

Single-valued hydrodynamic coefficients of a rigid particle can be calculated from existing theories and computer programs for either bead models or ellipsoids. Starting from these coefficients, we review the procedures for the calculation of complex solution properties depending on rotational diffusion, such as the decays of electric birefringence and fluorescence anisotropy. We also describe the calculation of the scattering from factor of bead models. The hydrodynamic coefficients and solution properties can be combined to give universal, shape-dependent functions, which were initially intended for ellipsoidal particles, and are extended here for the most general case. We have implemented all three developments in a new computer program. SOLPRO, for calculation of SOLution PROperties, which can be linked to existing software for bead models or ellipsoids.

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Year:  1997        PMID: 9213556     DOI: 10.1007/s002490050049

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


  16 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.  Calculation of hydrodynamic properties of small nucleic acids from their atomic structure.

Authors:  M X Fernandes; A Ortega; M C López Martínez; J García de la Torre
Journal:  Nucleic Acids Res       Date:  2002-04-15       Impact factor: 16.971

4.  Hydrolysable ATP is a requirement for the correct interaction of molecular chaperonins cpn60 and cpn10.

Authors:  Chris Walters; Neil Errington; Arther J Rowe; Stephen E Harding
Journal:  Biochem J       Date:  2002-06-15       Impact factor: 3.857

5.  Hydrodynamic properties of rigid particles: comparison of different modeling and computational procedures.

Authors:  B Carrasco; J García de la Torre
Journal:  Biophys J       Date:  1999-06       Impact factor: 4.033

6.  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

7.  Brownian dynamics simulation of rigid particles of arbitrary shape in external fields.

Authors:  Miguel X Fernandes; José García de la Torre
Journal:  Biophys J       Date:  2002-12       Impact factor: 4.033

8.  Multi-scale calculation and global-fit analysis of hydrodynamic properties of biological macromolecules: determination of the overall conformation of antibody IgG molecules.

Authors:  D Amorós; A Ortega; S E Harding; J García de la Torre
Journal:  Eur Biophys J       Date:  2008-12-18       Impact factor: 1.733

9.  Determination of sedimentation coefficients for small peptides.

Authors:  P Schuck; C E MacPhee; G J Howlett
Journal:  Biophys J       Date:  1998-01       Impact factor: 4.033

10.  Structure and Dynamics of Ribosomal Protein L12: An Ensemble Model Based on SAXS and NMR Relaxation.

Authors:  Pau Bernadó; Kristofer Modig; Przemysław Grela; Dmitri I Svergun; Marek Tchorzewski; Miquel Pons; Mikael Akke
Journal:  Biophys J       Date:  2010-05-19       Impact factor: 4.033

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