Literature DB >> 18199663

Volume exclusion in calcium selective channels.

Dezso Boda1, Wolfgang Nonner, Douglas Henderson, Bob Eisenberg, Dirk Gillespie.   

Abstract

Another research group has proposed an interesting model for calcium channel selectivity. However, on the basis of their reported results we find it impossible to assess the merits of their model because their results and claims concerning selectivity are based on an extrapolation over four orders of magnitude to low Ca(2+) concentration. Their results and claims have been presented in several articles and reviews in several journals and, thus, need attention. In this article, we first establish that we obtain results on electrostatics and channel occupancies similar to the high-concentration simulations they present. We then perform grand canonical ensemble simulations that enable us to study micromolar Ca(2+) concentrations. We find that their model channel is only weakly Ca(2+) selective. A crucial problem with their model appears to be the placement of the negatively charged glutamate structural elements in fixed positions inside the protein rather than as flexible units inside the filter.

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Year:  2008        PMID: 18199663      PMCID: PMC2292364          DOI: 10.1529/biophysj.107.122796

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


  24 in total

1.  Permeation of ions across the potassium channel: Brownian dynamics studies.

Authors:  S H Chung; T W Allen; M Hoyles; S Kuyucak
Journal:  Biophys J       Date:  1999-11       Impact factor: 4.033

2.  Binding and selectivity in L-type calcium channels: a mean spherical approximation.

Authors:  W Nonner; L Catacuzzeno; B Eisenberg
Journal:  Biophys J       Date:  2000-10       Impact factor: 4.033

3.  Computing induced charges in inhomogeneous dielectric media: application in a Monte Carlo simulation of complex ionic systems.

Authors:  Dezsö Boda; Dirk Gillespie; Wolfgang Nonner; Douglas Henderson; Bob Eisenberg
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2004-04-29

4.  Electrostatic basis of valence selectivity in cationic channels.

Authors:  Ben Corry; Taira Vora; Shin-Ho Chung
Journal:  Biochim Biophys Acta       Date:  2005-03-24

Review 5.  Mechanisms of valence selectivity in biological ion channels.

Authors:  B Corry; S-H Chung
Journal:  Cell Mol Life Sci       Date:  2006-02       Impact factor: 9.261

6.  Combined effect of pore radius and protein dielectric coefficient on the selectivity of a calcium channel.

Authors:  Dezso Boda; Mónika Valiskó; Bob Eisenberg; Wolfgang Nonner; Douglas Henderson; Dirk Gillespie
Journal:  Phys Rev Lett       Date:  2007-04-17       Impact factor: 9.161

7.  Simulating prescribed particle densities in the grand canonical ensemble using iterative algorithms.

Authors:  Attila Malasics; Dirk Gillespie; Dezso Boda
Journal:  J Chem Phys       Date:  2008-03-28       Impact factor: 3.488

8.  Ca2+ channel selectivity at a single locus for high-affinity Ca2+ interactions.

Authors:  P T Ellinor; J Yang; W A Sather; J F Zhang; R W Tsien
Journal:  Neuron       Date:  1995-11       Impact factor: 17.173

9.  Molecular determinants of Ca2+ selectivity and ion permeation in L-type Ca2+ channels.

Authors:  J Yang; P T Ellinor; W A Sather; J F Zhang; R W Tsien
Journal:  Nature       Date:  1993-11-11       Impact factor: 49.962

10.  A non-selective cation conductance in frog muscle membrane blocked by micromolar external calcium ions.

Authors:  W Almers; E W McCleskey; P T Palade
Journal:  J Physiol       Date:  1984-08       Impact factor: 5.182

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  20 in total

1.  Energy variational analysis of ions in water and channels: Field theory for primitive models of complex ionic fluids.

Authors:  Bob Eisenberg; Yunkyong Hyon; Chun Liu
Journal:  J Chem Phys       Date:  2010-09-14       Impact factor: 3.488

2.  Sieving experiments and pore diameter: it's not a simple relationship.

Authors:  Daniel Krauss; Dirk Gillespie
Journal:  Eur Biophys J       Date:  2010-05-11       Impact factor: 1.733

3.  Exploring the ion selectivity properties of a large number of simplified binding site models.

Authors:  Benoît Roux
Journal:  Biophys J       Date:  2010-06-16       Impact factor: 4.033

4.  Ions and inhibitors in the binding site of HIV protease: comparison of Monte Carlo simulations and the linearized Poisson-Boltzmann theory.

Authors:  Dezso Boda; Mónika Valiskó; Douglas Henderson; Dirk Gillespie; Bob Eisenberg; Michael K Gilson
Journal:  Biophys J       Date:  2009-02-18       Impact factor: 4.033

5.  Intracellular calcium release channels mediate their own countercurrent: the ryanodine receptor case study.

Authors:  Dirk Gillespie; Michael Fill
Journal:  Biophys J       Date:  2008-07-11       Impact factor: 4.033

6.  The anomalous mole fraction effect in calcium channels: a measure of preferential selectivity.

Authors:  Dirk Gillespie; Dezso Boda
Journal:  Biophys J       Date:  2008-05-30       Impact factor: 4.033

7.  Analyzing the components of the free-energy landscape in a calcium selective ion channel by Widom's particle insertion method.

Authors:  Dezso Boda; Janhavi Giri; Douglas Henderson; Bob Eisenberg; Dirk Gillespie
Journal:  J Chem Phys       Date:  2011-02-07       Impact factor: 3.488

Review 8.  Interacting ions in biophysics: real is not ideal.

Authors:  Bob Eisenberg
Journal:  Biophys J       Date:  2013-05-07       Impact factor: 4.033

9.  Structural modeling of calcium binding in the selectivity filter of the L-type calcium channel.

Authors:  Ricky C K Cheng; Denis B Tikhonov; Boris S Zhorov
Journal:  Eur Biophys J       Date:  2010-01-07       Impact factor: 1.733

10.  Ionic selectivity in L-type calcium channels by electrostatics and hard-core repulsion.

Authors:  Dezso Boda; Mónika Valiskó; Douglas Henderson; Bob Eisenberg; Dirk Gillespie; Wolfgang Nonner
Journal:  J Gen Physiol       Date:  2009-05       Impact factor: 4.086

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