(Q34185955)

31 July 2017

title

Ionic permeation free energy in gramicidin: a semimicroscopic perspective (English)

1 reference

31 July 2017

Vladimir L Dorman

1

1 reference

31 July 2017

Peter C Jordan

series ordinal

2

1 reference

31 July 2017

language of work or name

English

0 references

publication date

1 June 2004

1 reference

31 July 2017

1 reference

31 July 2017

volume

86

1 reference

31 July 2017

issue

6

1 reference

31 July 2017

page(s)

3529-3541

1 reference

All-atom empirical potential for molecular modeling and dynamics studies of proteins

31 July 2017

cites work

1 reference

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5 July 2018

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Energetics of ion conduction through the gramicidin channel

5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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5 July 2018

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Modeling Permeation Energetics in the KcsA Potassium Channel

5 July 2018

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Gramicidin A channel as a test ground for molecular dynamics force fields

5 July 2018

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Continuum electrostatics fails to describe ion permeation in the gramicidin channel

5 July 2018

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Modeling diverse range of potassium channels with Brownian dynamics.

5 July 2018

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5 July 2018

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The open pore conformation of potassium channels

5 July 2018

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Permeation energetics in a model potassium channel.

5 July 2018

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Conducting-state properties of the KcsA potassium channel from molecular and Brownian dynamics simulations.

5 July 2018

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X-ray structure of a ClC chloride channel at 3.0 A reveals the molecular basis of anion selectivity

5 July 2018

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Structural basis of water-specific transport through the AQP1 water channel

5 July 2018

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Chemistry of ion coordination and hydration revealed by a K+ channel-Fab complex at 2.0 A resolution

5 July 2018

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Energetic optimization of ion conduction rate by the K+ selectivity filter

5 July 2018

1 reference

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Structures of gramicidins A, B, and C incorporated into sodium dodecyl sulfate micelles

5 July 2018

1 reference

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Noncontact dipole effects on channel permeation. IV. Kinetic model of 5F-Trp(13) gramicidin A currents

5 July 2018

1 reference

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What are the dielectric "constants" of proteins and how to validate electrostatic models?

5 July 2018

1 reference

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Structure of a glycerol-conducting channel and the basis for its selectivity

5 July 2018

1 reference

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Structural determinants of water permeation through aquaporin-1

5 July 2018

1 reference

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Permeation of ions across the potassium channel: Brownian dynamics studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

From structure to function in open ionic channels

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Ionic interactions in multiply occupied channels

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Progress and prospects in permeation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Effect of artificial periodicity in simulations of biomolecules under Ewald boundary conditions: a continuum electrostatics study

5 July 2018

1 reference

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The Structure of the Potassium Channel: Molecular Basis of K+ Conduction and Selectivity

5 July 2018

1 reference

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High-resolution polypeptide structure in a lamellar phase lipid environment from solid state NMR derived orientational constraints

5 July 2018

1 reference

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The binding site of sodium in the gramicidin A channel: comparison of molecular dynamics with solid-state NMR data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Nonequilibrium gating and voltage dependence of the ClC-0 Cl- channel

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Boundary conditions for- single-ion diffusion

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

A semi-microscopic Monte Carlo study of permeation energetics in a gramicidin-like channel: the origin of cation selectivity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Prediction of pH-dependent properties of proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

The nature of ion and water barrier crossings in a simulated ion channel

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Extended dipolar chain model for ion channels: electrostriction effects and the translocational energy barrier

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Influence of a channel-forming peptide on energy barriers to ion permeation, viewed from a continuum dielectric perspective

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Structure and dynamics of ion transport through gramicidin A.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Electrostatic modeling of ion pores. II. Effects attributable to the membrane dipole potential

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Ion movement through gramicidin A channels. Single-channel measurements at very high potentials

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Molecular dynamics simulation of cation motion in water-filled gramicidinlike pores

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Water and polypeptide conformations in the gramicidin channel. A molecular dynamics study

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Stochastic theory of singly occupied ion channels. II. Effects of access resistance and potential gradients extending into the bath

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Stochastic theory of ion movement in channels with single-ion occupancy. Application to sodium permeation of gramicidin channels

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Interpretation of biological ion channel flux data--reaction-rate versus continuum theory

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Steady-state coupling of ion-channel conformations to a transmembrane ion gradient

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Time-correlation analysis of simulated water motion in flexible and rigid gramicidin channels

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Gramicidins A, B, and C form structurally equivalent ion channels.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Ion-water and ion-polypeptide correlations in a gramicidin-like channel. A molecular dynamics study

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Theoretical perspectives on ion-channel electrostatics: continuum and microscopic approaches

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Secondary active transport mediated by a prokaryotic homologue of ClC Cl- channels

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Energetics of ion conduction through the K+ channel

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Ion-water and water-water interactions in a gramicidinlike channel: effects due to group polarizability and backbone flexibility

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

Gating of the voltage-dependent chloride channel CIC-0 by the permeant anion.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304257

The theory of ion transport through membrane channels

28 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15189852

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Open channel structure and ion binding sites of the nicotinic acetylcholine receptor channel

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15189852

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Effective diffusion coefficients of K+ and Cl- ions in ion channel models

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15189852

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1529/BIOPHYSJ.103.039214

1 reference

31 July 2017

1 reference

31 July 2017

1 reference