Literature DB >> 15298901

Salting out the ionic selectivity of a wide channel: the asymmetry of OmpF.

Antonio Alcaraz1, Ekaterina M Nestorovich, Marcel Aguilella-Arzo, Vicente M Aguilella, Sergey M Bezrukov.   

Abstract

Although the crystallographic structure of the bacterial porin OmpF has been known for a decade, the physical mechanisms of its ionic selectivity are still under investigation. We address this issue in a series of experiments with varied pH, salt concentrations, inverted salt gradient, and charged and uncharged lipids. Measuring reversal potential, we show that OmpF selectivity (traditionally regarded as slightly cationic) depends strongly on pH and salt concentration and is conditionally asymmetric, that is, the calculated selectivity is sensitive to the direction of salt concentration gradient. At neutral pH and subdecimolar salt concentrations the channel exhibits nearly ideal cation selectivity (t(G)(+)=0.98+/-0.01). Substituting neutral DPhPC with DPhPS, we demonstrate that the fixed charge of the host lipid has a small but measurable effect on the channel reversal potential. The available structural information allows for a qualitative explanation of our experimental findings. These findings now lead us to re-examine the ionization state of 102 titratable sites of the OmpF channel. Using standard methods of continuum electrostatics tailored to our particular purpose, we find the charge distribution in the channel as a function of solution acidity and relate the pH-dependent asymmetry in channel selectivity to the pH-dependent asymmetry in charge distribution. In an attempt to find a simple phenomenological description of our results, we also discuss different macroscopic models of electrodiffusion through large channels.

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Year:  2004        PMID: 15298901      PMCID: PMC1304502          DOI: 10.1529/biophysj.104/043414

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


  49 in total

1.  Tests of continuum theories as models of ion channels. II. Poisson-Nernst-Planck theory versus brownian dynamics.

Authors:  B Corry; S Kuyucak; S H Chung
Journal:  Biophys J       Date:  2000-05       Impact factor: 4.033

2.  Role of charged residues at the OmpF porin channel constriction probed by mutagenesis and simulation.

Authors:  P S Phale; A Philippsen; C Widmer; V P Phale; J P Rosenbusch; T Schirmer
Journal:  Biochemistry       Date:  2001-05-29       Impact factor: 3.162

Review 3.  Molecular basis of bacterial outer membrane permeability revisited.

Authors:  Hiroshi Nikaido
Journal:  Microbiol Mol Biol Rev       Date:  2003-12       Impact factor: 11.056

4.  Orientation and interactions of dipolar molecules during transport through OmpF porin.

Authors:  Kindal M Robertson; D Peter Tieleman
Journal:  FEBS Lett       Date:  2002-09-25       Impact factor: 4.124

Review 5.  Proteins, channels and crowded ions.

Authors:  Bob Eisenberg
Journal:  Biophys Chem       Date:  2003       Impact factor: 2.352

6.  Zero-current potentials in a large membrane channel: a simple theory accounts for complex behavior.

Authors:  E B Zambrowicz; M Colombini
Journal:  Biophys J       Date:  1993-09       Impact factor: 4.033

7.  Ionic selectivity of pores formed by the matrix protein (porin) of Escherichia coli.

Authors:  R Benz; K Janko; P Läuger
Journal:  Biochim Biophys Acta       Date:  1979-03-08

8.  Ions and counterions in a biological channel: a molecular dynamics simulation of OmpF porin from Escherichia coli in an explicit membrane with 1 M KCl aqueous salt solution.

Authors:  Wonpil Im; Benoît Roux
Journal:  J Mol Biol       Date:  2002-06-21       Impact factor: 5.469

9.  Probing alamethicin channels with water-soluble polymers. Effect on conductance of channel states.

Authors:  S M Bezrukov; I Vodyanoy
Journal:  Biophys J       Date:  1993-01       Impact factor: 4.033

Review 10.  Ionic hopping defended.

Authors:  C Miller
Journal:  J Gen Physiol       Date:  1999-06       Impact factor: 4.086

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  43 in total

1.  Colicin occlusion of OmpF and TolC channels: outer membrane translocons for colicin import.

Authors:  Stanislav D Zakharov; Veronika Y Eroukova; Tatyana I Rokitskaya; Mariya V Zhalnina; Onkar Sharma; Patrick J Loll; Helen I Zgurskaya; Yuri N Antonenko; William A Cramer
Journal:  Biophys J       Date:  2004-10-01       Impact factor: 4.033

2.  Continuum electrostatic calculations of the pKa of ionizable residues in an ion channel: dynamic vs. static input structure.

Authors:  M Aguilella-Arzo; V M Aguilella
Journal:  Eur Phys J E Soft Matter       Date:  2010-04-25       Impact factor: 1.890

3.  Electroporation-induced inward current in voltage-clamped guinea pig ventricular myocytes.

Authors:  Oksana Dyachok; Pavel Zhabyeyev; Terence F McDonald
Journal:  J Membr Biol       Date:  2010-11-21       Impact factor: 1.843

4.  Ionic partition and transport in multi-ionic channels: a molecular dynamics simulation study of the OmpF bacterial porin.

Authors:  Jordi Faraudo; Carles Calero; Marcel Aguilella-Arzo
Journal:  Biophys J       Date:  2010-10-06       Impact factor: 4.033

5.  Persister-promoting bacterial toxin TisB produces anion-selective pores in planar lipid bilayers.

Authors:  Philip A Gurnev; Ron Ortenberg; Tobias Dörr; Kim Lewis; Sergey M Bezrukov
Journal:  FEBS Lett       Date:  2012-06-21       Impact factor: 4.124

6.  Imaging alpha-hemolysin with molecular dynamics: ionic conductance, osmotic permeability, and the electrostatic potential map.

Authors:  Aleksij Aksimentiev; Klaus Schulten
Journal:  Biophys J       Date:  2005-03-11       Impact factor: 4.033

7.  Chemical modification of the bacterial porin OmpF: gain of selectivity by volume reduction.

Authors:  Maarten Vrouenraets; Jenny Wierenga; Wim Meijberg; Henk Miedema
Journal:  Biophys J       Date:  2005-11-18       Impact factor: 4.033

8.  The influence of amino acid protonation states on molecular dynamics simulations of the bacterial porin OmpF.

Authors:  Sameer Varma; See-Wing Chiu; Eric Jakobsson
Journal:  Biophys J       Date:  2005-09-23       Impact factor: 4.033

9.  Protein electrostriction: a possibility of elastic deformation of the alpha-hemolysin channel by the applied field.

Authors:  Oleg V Krasilnikov; Petr G Merzlyak; Liliya N Yuldasheva; Maria F Capistrano
Journal:  Eur Biophys J       Date:  2005-07-15       Impact factor: 1.733

10.  Ampicillin permeation across OmpF, the major outer-membrane channel in Escherichia coli.

Authors:  Ishan Ghai; Harsha Bajaj; Jayesh Arun Bafna; Hussein Ali El Damrany Hussein; Mathias Winterhalter; Richard Wagner
Journal:  J Biol Chem       Date:  2018-03-14       Impact factor: 5.157

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