Dynamic properties of Na+ ions in models of ion channels: a molecular dynamics study (Q40133109)

17 September 2017

Dynamic properties of Na+ ions in models of ion channels: a molecular dynamics study (English)

1 reference

17 September 2017

G R Smith

1

1 reference

PMCID

1299950

17 September 2017

M S Sansom

series ordinal

2

1 reference

PMCID

1299950

17 September 2017

language of work or name

English

0 references

publication date

1 December 1998

1 reference

17 September 2017

1 reference

17 September 2017

75

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17 September 2017

6

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17 September 2017

2767-2782

1 reference

Electrostatics and the ion selectivity of ligand-gated channels

17 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Kinked-helices model of the nicotinic acetylcholine receptor ion channel and its complexes with blockers: simulation by the Monte Carlo minimization method

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Brownian dynamics study of ion transport in the vestibule of membrane channels

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Analytical solutions of Poisson's equation for realistic geometrical shapes of membrane ion channels

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Molecular dynamics simulation of a synthetic ion channel

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Permeation through the calcium release channel of cardiac muscle

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Crystal structure of the gramicidin/potassium thiocyanate complex

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Permeation through an open channel: Poisson-Nernst-Planck theory of a synthetic ionic channel

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Structure of staphylococcal alpha-hemolysin, a heptameric transmembrane pore

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Molecular dynamics simulations of water within models of ion channels

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The emerging three-dimensional structure of a receptor. The nicotinic acetylcholine receptor

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Monovalent and divalent cation permeability and block of neuronal nicotinic receptor channels in rat parasympathetic ganglia

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Charge selectivity of the designed uncharged peptide ion channel Ac-(LSSLLSL)3-CONH2.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Ion transport in the gramicidin channel: molecular dynamics study of single and double occupancy

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Parallel helix bundles and ion channels: molecular modeling via simulated annealing and restrained molecular dynamics

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Molecular Dynamics Simulations of the Gramicidin Channel

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Alamethicin: A Peptide Model for Voltage Gating and Protein-Membrane Interactions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Structure and function of channel-forming peptaibols

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

A helical-dipole model describes the single-channel current rectification of an uncharged peptide ion channel

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The pore dimensions of gramicidin A.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

A voltage-gated ion channel model inferred from the crystal structure of alamethicin at 1.5-Å resolution

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Electrostatic modeling of ion pores. Energy barriers and electric field profiles

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The permeability of the endplate channel to organic cations in frog muscle

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The gramicidin A transmembrane channel: a proposed pi(L,D) helix

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Structure of gramicidin A.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Unconventional pharmacology of a neuronal nicotinic receptor mutated in the channel domain

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

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

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Ion transport in a model gramicidin channel. Structure and thermodynamics

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Tris+/Na+ permeability ratios of nicotinic acetylcholine receptors are reduced by mutations near the intracellular end of the M2 region

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Acetylcholine receptor channel structure probed in cysteine-substitution mutants.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Crystal structures explain functional properties of two E. coli porins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The functional architecture of the acetylcholine nicotinic receptor explored by affinity labelling and site-directed mutagenesis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Model ion channels: gramicidin and alamethicin

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Toward a structural basis for the function of nicotinic acetylcholine receptors and their cousins.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Simulation of voltage-driven hydrated cation transport through narrow transmembrane channels

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The dielectric properties of water within model transbilayer pores.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Intrinsic rectification of ion flux in alamethicin channels: studies with an alamethicin dimer

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Alamethicin channels - modelling via restrained molecular dynamics simulations

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

A novel method for structure-based prediction of ion channel conductance properties.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

A mixed helix-beta-sheet model of the transmembrane region of the nicotinic acetylcholine receptor.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

The pore domain of the nicotinic acetylcholine receptor: molecular modeling, pore dimensions, and electrostatics.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Structure of the membrane channel porin from Rhodopseudomonas blastica at 2.0 A resolution

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Solid-state nuclear magnetic resonance derived model for dynamics in the polypeptide backbone of the gramicidin a channel

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Mutations in the channel domain of a neuronal nicotinic receptor convert ion selectivity from cationic to anionic.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Quantitation of physical-chemical properties of the aqueous phase inside the phoE ionic channel.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Molecular dynamics study of water and Na+ ions in models of the pore region of the nicotinic acetylcholine receptor

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Amino acid residues lining the chloride channel of the cystic fibrosis transmembrane conductance regulator.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299950

Decay of the Velocity Autocorrelation Function

20 August 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

CHARMM: A program for macromolecular energy, minimization, and dynamics calculations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

The theory of ion transport through membrane channels

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

The ion channel of the nicotinic acetylcholine receptor is formed by the homologous helices M II of the receptor subunits

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

Synthetic amphiphilic peptide models for protein ion channels

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

A molecular dynamics method for simulations in the canonical ensemble

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

Modelling membrane proteins using structural restraints

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

Nicotinic acetylcholine receptor at 9 A resolution.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

Acetylcholine receptor channel imaged in the open state

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

Location of a threonine residue in the α -subunit M2 transmembrane segment that determines the ion flow through the acetylcholine receptor channel

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

Engineering stabilized ion channels: covalent dimers of alamethicin

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977720-3

10.1016/S0006-3495(98)77720-3

7 January 2021

Identifiers

DOI

1 reference

17 September 2017

1 reference

17 September 2017

1 reference

PMCID

1299950