Structure and dynamics of K channel pore-lining helices: a comparative simulation study (Q40155884)

18 September 2017

Structure and dynamics of K channel pore-lining helices: a comparative simulation study (English)

1 reference

18 September 2017

Shrivastava IH

1

1 reference

18 September 2017

Capener CE

series ordinal

2

1 reference

18 September 2017

Forrest LR

series ordinal

3

1 reference

18 September 2017

Sansom MS

series ordinal

4

1 reference

18 September 2017

language of work or name

English

0 references

publication date

1 January 2000

1 reference

18 September 2017

1 reference

18 September 2017

78

1 reference

18 September 2017

1

1 reference

18 September 2017

79-92

1 reference

Structural rearrangements underlying K+-channel activation gating

18 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Defining the transmembrane helix of M2 protein from influenza A by molecular dynamics simulations in a lipid bilayer

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

An alamethicin channel in a lipid bilayer: molecular dynamics simulations

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Alamethicin helices in a bilayer and in solution: molecular dynamics simulations

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

The preference of tryptophan for membrane interfaces.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Human alpha-endosulfine, a possible regulator of sulfonylurea-sensitive KATP channel: molecular cloning, expression and biological properties

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

A molecular dynamics study of the pores formed by Escherichia coli OmpF porin in a fully hydrated palmitoyloleoylphosphatidylcholine bilayer

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Three-dimensional architecture and gating mechanism of a K+ channel studied by EPR spectroscopy

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Adhesion forces of lipids in a phospholipid membrane studied by molecular dynamics simulations

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

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=1300619

Structural conservation in prokaryotic and eukaryotic potassium 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=1300619

Systematic analysis of domain motions in proteins from conformational change: new results on citrate synthase and T4 lysozyme

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Molecular dynamics simulations of individual alpha-helices of bacteriorhodopsin in dimyristoylphosphatidylcholine. II. Interaction energy analysis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Molecular dynamics of individual alpha-helices of bacteriorhodopsin in dimyristol phosphatidylocholine. I. Structure and 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=1300619

Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface 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=1300619

Topology prediction for helical transmembrane proteins at 86% accuracy

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

A model recognition approach to the prediction of all-helical membrane protein structure and topology

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Prediction of transmembrane segments in proteins utilising multiple sequence alignments

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Essential dynamics of proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Transmembrane helices predicted at 95% accuracy

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

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=1300619

Molecular dynamics simulation of the gramicidin channel in a phospholipid bilayer

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

A prokaryotic potassium ion channel with two predicted transmembrane segments from Streptomyces lividans

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Mattress model of lipid-protein interactions in membranes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Amphipathic helix motif: classes and properties

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

The functions of tryptophan residues in membrane proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Models of lipid-protein interactions in membranes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

A computer perspective of membranes: molecular dynamics studies of lipid bilayer systems

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Prediction of membrane protein topology utilizing multiple sequence alignments.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Molecular dynamics simulations of a fluid bilayer of dipalmitoylphosphatidylcholine at full hydration, constant pressure, and constant temperature

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Interaction of Tetraethylammonium Ion Derivatives with the Potassium Channels of Giant Axons

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Statistical analysis of predicted transmembrane alpha-helices.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Lipid properties and the orientation of aromatic residues in OmpF, influenza M2, and alamethicin systems: molecular dynamics simulations

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Structure and dynamics of an amphiphilic peptide in a lipid bilayer: a molecular dynamics study

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Transmembrane helix structure, dynamics, and interactions: multi-nanosecond molecular dynamics simulations

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1300619

Molecular dynamics with coupling to an external bath

20 August 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

GROMACS: A message-passing parallel molecular dynamics implementation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

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

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Contribution of proline-14 to the structure and actions of melittin

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Hydrophobic mismatch between proteins and lipids in membranes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Gated access to the pore of a voltage-dependent K+ channel

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Positively and negatively charged residues have different effects on the position in the membrane of a model transmembrane helix

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Bundles of amphipathic transmembrane alpha-helices as a structural motif for ion-conducting channel proteins: studies on sodium channels and acetylcholine receptors

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Membrane protein folding and oligomerization: the two-stage model

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Simulations of ion permeation through a potassium channel: molecular dynamics of KcsA in a phospholipid bilayer

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Acetylcholine receptor channel imaged in the open state

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Structure, energetics, and dynamics of lipid-protein interactions: A molecular dynamics study of the gramicidin A channel in a DMPC bilayer

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2800%2976574-X

Interactions of synthetic peptide analogs of the class A amphipathic helix with lipids. Evidence for the snorkel hypothesis

7 January 2021

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/10620275

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Molecular dynamics simulations of isolated transmembrane helices of potassium channels

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/10620275

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/S0006-3495(00)76574-X

1 reference

18 September 2017

1 reference

18 September 2017

PubMed publication ID

10620275

1 reference