Ionic current through an open channel: a low-dimensional model of coupling with vibrations of the wall

Ionic motion through an open ion channel is analyzed within the framework of self-consistent Brownian dynamics formalism. A novel conceptual model of coupling of the ion's motion to the vibrations of the pore walls is introduced. The model allows one to include into simulations an important additional mechanism of energy dissipation and the effects of self-induced strong modulation of the channel conductivity.

[1]  Robert S. Eisenberg,et al.  Ion flow through narrow membrane channels: part II , 1992 .

[2]  W. Im,et al.  A Grand Canonical Monte Carlo-Brownian dynamics algorithm for simulating ion channels. , 2000, Biophysical journal.

[3]  J. Klafter,et al.  Molecular motion through correlated fluctuating bottlenecks , 1998 .

[4]  B. Nadler,et al.  Derivation of Poisson and Nernst-Planck equations in a bath and channel from a molecular model. , 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.

[5]  W. Im,et al.  Ion permeation and selectivity of OmpF porin: a theoretical study based on molecular dynamics, Brownian dynamics, and continuum electrodiffusion theory. , 2002, Journal of molecular biology.

[6]  Shin-Ho Chung,et al.  Reservoir boundaries in Brownian dynamics simulations of ion channels. , 2002, Biophysical Journal.

[7]  P. Fromherz.  Electrical interfacing of nerve cells and semiconductor chips. , 2002, Chemphyschem : a European journal of chemical physics and physical chemistry.

[8]  R. Astumian.  Thermodynamics and kinetics of a Brownian motor. , 1997, Science.

[9]  Peter V. E. McClintock,et al.  Resonant rectification of fluctuations in a Brownian ratchet , 2000 .

[10]  B. Roux,et al.  Valence selectivity of the gramicidin channel: a molecular dynamics free energy perturbation study. , 1996, Biophysical journal.

[11]  R. Eisenberg,et al.  Constant fields and constant gradients in open ionic channels. , 1992, Biophysical journal.

[12]  R. Eisenberg,et al.  Charges, currents, and potentials in ionic channels of one conformation. , 1993, Biophysical journal.

[13]  Shin-Ho Chung,et al.  Tests of continuum theories as models of ion channels. II. Poisson-Nernst-Planck theory versus brownian dynamics. , 2000, Biophysical journal.

[14]  J. Lear,et al.  Permeation through an open channel: Poisson-Nernst-Planck theory of a synthetic ionic channel. , 1997, Biophysical journal.

[15]  B. Hille.  Ionic channels of excitable membranes , 2001 .

[16]  S. Chung,et al.  Mechanisms of permeation and selectivity in calcium channels. , 2001, Biophysical journal.

[17]  Abraham Nitzan,et al.  The role of the dielectric barrier in narrow biological channels: a novel composite approach to modeling single-channel currents. , 2003, Biophysical journal.

[18]  P. Reimann.  Brownian motors: noisy transport far from equilibrium , 2000, cond-mat/0010237.

[19]  S. Chung,et al.  Tests of continuum theories as models of ion channels. I. Poisson-Boltzmann theory versus Brownian dynamics. , 2000, Biophysical journal.

[20]  W. Im,et al.  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. , 2002, Journal of molecular biology.

[21]  Robert Zwanzig,et al.  Dynamical disorder: Passage through a fluctuating bottleneck , 1992 .

[22]  Eisenberg,et al.  Bidirectional shot noise in a singly occupied channel. , 1996, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.

[23]  B. Eisenberg,et al.  Binding and selectivity in L-type calcium channels: a mean spherical approximation. , 2000, Biophysical journal.

[24]  R. Eisenberg,et al.  Diffusion as a chemical reaction: Stochastic trajectories between fixed concentrations , 1995 .