Literature DB >> 11718300

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

J García de la Torre1, O Llorca, J L Carrascosa, J M Valpuesta.   

Abstract

We have developed a procedure for the prediction of hydrodynamic coefficients and other solution properties of macromolecules and macromolecular complexes whose volumes have been generated from electron microscopy images. Starting from the structural files generated in the three-dimensional reconstructions of such molecules, it is possible to construct a hydrodynamic model for which the solution properties can be calculated. We have written a computer program, HYDROMIC, that implements all the stages of the calculation. The use of this procedure is illustrated with a calculation of the solution properties of the volume of the cytosolic chaperonin CCT, obtained from cryoelectron microscopy images.

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Year:  2001        PMID: 11718300     DOI: 10.1007/s002490100176

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


  20 in total

1.  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

2.  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

3.  Calculation of the solution properties of flexible macromolecules: methods and applications.

Authors:  J García de la Torre; H E Pérez Sánchez; A Ortega; J G Hernández; M X Fernandes; F G Díaz; M C López Martínez
Journal:  Eur Biophys J       Date:  2003-04-16       Impact factor: 1.733

4.  Multiple molecular architectures of the eye lens chaperone αB-crystallin elucidated by a triple hybrid approach.

Authors:  Nathalie Braun; Martin Zacharias; Jirka Peschek; Andreas Kastenmüller; Juan Zou; Marianne Hanzlik; Martin Haslbeck; Juri Rappsilber; Johannes Buchner; Sevil Weinkauf
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-05       Impact factor: 11.205

5.  Nanoscale structure of the BMP antagonist chordin supports cooperative BMP binding.

Authors:  Helen Troilo; Alexandra V Zuk; Richard B Tunnicliffe; Alexander P Wohl; Richard Berry; Richard F Collins; Thomas A Jowitt; Gerhard Sengle; Clair Baldock
Journal:  Proc Natl Acad Sci U S A       Date:  2014-08-25       Impact factor: 11.205

6.  Self-assembly of receptor/signaling complexes in bacterial chemotaxis.

Authors:  Peter M Wolanin; Melinda D Baker; Noreen R Francis; Dennis R Thomas; David J DeRosier; Jeffry B Stock
Journal:  Proc Natl Acad Sci U S A       Date:  2006-09-14       Impact factor: 11.205

7.  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

8.  Snapshots of the RNA editing machine in trypanosomes captured at different assembly stages in vivo.

Authors:  Monika M Golas; Cordula Böhm; Bjoern Sander; Kerstin Effenberger; Michael Brecht; Holger Stark; H Ulrich Göringer
Journal:  EMBO J       Date:  2009-02-05       Impact factor: 11.598

9.  Intrinsic viscosity of bead models for macromolecules and nanoparticles.

Authors:  José García de la Torre; D Amorós; A Ortega
Journal:  Eur Biophys J       Date:  2009-02-06       Impact factor: 1.733

10.  Fibulin 5 forms a compact dimer in physiological solutions.

Authors:  Richard P O Jones; Ming-Chuan Wang; Thomas A Jowitt; Caroline Ridley; Kieran T Mellody; Marjorie Howard; Tao Wang; Paul N Bishop; Andrew J Lotery; Cay M Kielty; Clair Baldock; Dorothy Trump
Journal:  J Biol Chem       Date:  2009-07-17       Impact factor: 5.157

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