(Q34183896)

31 July 2017

title

Molecular dynamics simulations of the E1/E2 transmembrane domain of the Semliki Forest virus (English)

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31 July 2017

main subject

transmembrane protein

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2

Lennart Nilsson

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31 July 2017

author name string

Ana Caballero-Herrera

series ordinal

1

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31 July 2017

language of work or name

English

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publication date

1 December 2003

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31 July 2017

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31 July 2017

volume

85

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31 July 2017

issue

6

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31 July 2017

page(s)

3646-3658

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

31 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Interactions between the transmembrane segments of the alphavirus E1 and E2 proteins play a role in virus budding and fusion

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Acid-induced movements in the glycoprotein shell of an alphavirus turn the spikes into membrane fusion mode

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Specificity in transmembrane helix-helix interactions can define a hierarchy of stability for sequence variants

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

The Calpha ---H...O hydrogen bond: a determinant of stability and specificity in transmembrane helix interactions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Strength of the Calpha H..O hydrogen bond of amino acid residues

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

On the truncation of long-range electrostatic interactions in DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Helical membrane protein folding, stability, and evolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Cryo-Electron Microscopy Reveals the Functional Organization of an Enveloped Virus, Semliki Forest Virus

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Internal packing of helical membrane 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=1303669

The pi-helix translates structure into function

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Structure and dynamics of the pore-lining helix of the nicotinic receptor: MD simulations in water, lipid bilayers, and transbilayer bundles

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Exploring models of the influenza A M2 channel: MD simulations in a phospholipid bilayer

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Helix packing in polytopic membrane proteins: role of glycine in transmembrane helix association

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Uncoupling hydrophobicity and helicity in transmembrane segments. Alpha-helical propensities of the amino acids in non-polar environments.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

A transmembrane helix dimer: structure and implications

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Improved prediction for the structure of the dimeric transmembrane domain of glycophorin A obtained through global searching

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Coiled coils: new structures and new functions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Pi-turns in proteins and peptides: Classification, conformation, occurrence, hydration and sequence

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

The alpha aneurism: a structural motif revealed in an insertion mutant of staphylococcal nuclease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Western equine encephalitis virus is a recombinant virus

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Structural fluctuations of a helical polypeptide traversing a lipid bilayer

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

The structure and insertion of integral proteins in membranes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Embedded or not? Hydrophobic sequences and membranes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

A sequence motif in the transmembrane region of growth factor receptors with tyrosine kinase activity mediates dimerization

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

The purple membrane from Halobacterium halobium

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

The structure of the purple membrane from Halobacterium hallobium: analysis of the X-ray diffraction pattern

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

A designed Zn2+-binding amphiphilic polypeptide: energetic consequences of pi-helicity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Transitions from alpha to pi helix observed in molecular dynamics simulations of synthetic peptides.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Modulation of glycophorin A transmembrane helix interactions by lipid bilayers: molecular dynamics calculations.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

A potential smoothing algorithm accurately predicts transmembrane helix packing.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Principles of helix-helix packing in proteins: the helical lattice superposition model.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Three-dimensional model for the membrane domain of Escherichia coli leader peptidase based on disulfide mapping.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1303669

Improved prediction for the structure of the dimeric transmembrane domain of glycophorin A obtained through global searching

28 October 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

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

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

The Fourier transform of a coiled-coil

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

The packing of α-helices: simple coiled-coils

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

Molecular dynamics simulations of the ErbB-2 transmembrane domain within an explicit membrane environment: comparison with vacuum simulations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

Detailed description of an alpha helix-->pi bulge transition detected by molecular dynamics simulations of the p185c-erbB2 V659G transmembrane domain

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

Force Field Influence on the Observation of π-Helical Protein Structures in Molecular Dynamics Simulations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

The missing link between envelope formation and fusion in alphaviruses

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

A conserved membrane-spanning amino acid motif drives homomeric and supports heteromeric assembly of presynaptic SNARE proteins

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

A dimerization motif for transmembrane α–helices

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

Membrane protein folding and oligomerization: the two-stage model

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

Neu receptor dimerization

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

The glycophorin A transmembrane domain dimer: Sequence-specific propensity for a right-handed supercoil of helixes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2803%2974782-1

10.1016/S0006-3495(03)74782-1

7 January 2021

Identifiers

DOI

1 reference

31 July 2017

1 reference

31 July 2017

1 reference