Linking folding with aggregation in Alzheimer's beta-amyloid peptides (Q36089177)

12 August 2017

Linking folding with aggregation in Alzheimer's beta-amyloid peptides (English)

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12 August 2017

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2

Charles L Brooks

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12 August 2017

Jana Khandogin

1

1 reference

PMC publication ID

2040412

12 August 2017

language of work or name

English

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publication date

17 October 2007

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Proceedings of the National Academy of Sciences of the United States of America

12 August 2017

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12 August 2017

104

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12 August 2017

43

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12 August 2017

16880-16885

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

12 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Folding intermediate in the villin headpiece domain arises from disruption of a N-terminal hydrogen-bonded network

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Exploring atomistic details of pH-dependent peptide folding

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Toward the accurate first-principles prediction of ionization equilibria in proteins.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Alzheimer's disease beta-amyloid peptides are released in association with exosomes

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Amyloid precursor protein and Notch intracellular domains are generated after transport of their precursors to the cell surface

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Balancing solvation and intramolecular interactions: toward a consistent generalized Born force field

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

3D structure of Alzheimer's amyloid-beta(1-42) fibrils

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Prediction of "aggregation-prone" and "aggregation-susceptible" regions in proteins associated with neurodegenerative diseases

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Constant pH molecular dynamics with proton tautomerism

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Natural oligomers of the amyloid-beta protein specifically disrupt cognitive function

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Cell biology of protein misfolding: the examples of Alzheimer's and Parkinson's diseases

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

MMTSB Tool Set: enhanced sampling and multiscale modeling methods for applications in structural biology.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Protein folding and misfolding

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

A structural model for Alzheimer's beta -amyloid fibrils based on experimental constraints from solid state NMR

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Solution structure of the Alzheimer amyloid beta-peptide (1-42) in an apolar microenvironment. Similarity with a virus fusion domain

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Simulation study of the structure and dynamics of the Alzheimer's amyloid peptide congener in solution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

The Alzheimer's peptide a beta adopts a collapsed coil structure in water

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Solution structures of micelle-bound amyloid beta-(1-40) and beta-(1-42) peptides of Alzheimer's disease

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Solution structure of amyloid beta-peptide(1-40) in a water-micelle environment. Is the membrane-spanning domain where we think it is?

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

A direct comparison of helix propensity in proteins and peptides

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Helix propagation and N-cap propensities of the amino acids measured in alanine-based peptides in 40 volume percent trifluoroethanol

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

A revised set of potentials for beta-turn formation in proteins

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

1H NMR of A beta amyloid peptide congeners in water solution. Conformational changes correlate with plaque competence

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Structure of amyloid A4-(1-40)-peptide of Alzheimer's disease

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

The interpretation of protein structures: Estimation of static accessibility

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Folding of immunogenic peptide fragments of proteins in water solution. II. The nascent helix

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

pH-dependent structural transitions of Alzheimer amyloid peptides

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

On the nucleation of amyloid beta-protein monomer folding

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Beta-turns and their distortions: a proposed new nomenclature

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Solution Structures of β Peptide and Its Constituent Fragments: Relation to Amyloid Deposition

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

Solution NMR studies of the A beta(1-40) and A beta(1-42) peptides establish that the Met35 oxidation state affects the mechanism of amyloid formation

11 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Identification and characterization of key kinetic intermediates in amyloid beta-protein fibrillogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Amyloid beta protein immunotherapy neutralizes Abeta oligomers that disrupt synaptic plasticity in vivo

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Replica-exchange molecular dynamics method for protein folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Generalized born model with a simple smoothing function.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Prediction of amyloid fibril-forming proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Distinct early folding and aggregation properties of Alzheimer amyloid-beta peptides Abeta40 and Abeta42: stable trimer or tetramer formation by Abeta42.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Alzheimer's Abeta40 studied by NMR at low pH reveals that sodium 4,4-dimethyl-4-silapentane-1-sulfonate (DSS) binds and promotes beta-ball oligomerization.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Structure of the 21-30 fragment of amyloid beta-protein.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Charge substitution shows that repulsive electrostatic interactions impede the oligomerization of Alzheimer amyloid peptides.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Protein particulates: another generic form of protein aggregation?

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Amyloid fibril formation by A beta 16-22, a seven-residue fragment of the Alzheimer's beta-amyloid peptide, and structural characterization by solid state NMR

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2040412

GROMACS 3.0: a package for molecular simulation and trajectory analysis

21 October 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Tests of the helix dipole model for stabilization of α-helices

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703832104

Constant-pH molecular dynamics using continuous titration coordinates

21 January 2018

1 reference

12 December 2020

Helicity, circular dichroism and molecular dynamics of proteins

1 reference

12 December 2020

Arrest of beta-amyloid fibril formation by a pentapeptide ligand

1 reference

12 December 2020

Solution conformations and aggregational properties of synthetic amyloid beta-peptides of Alzheimer's disease. Analysis of circular dichroism spectra

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.0703832104

1 reference

12 August 2017

0 references

1 reference

PMC publication ID

2040412

12 August 2017

PubMed publication ID

17942695

1 reference

PMC publication ID

2040412