Dynamic properties of pH-dependent structural organization of the amyloidogenic beta-protein (1-40). (Q42772282)

7 November 2017

Dynamic properties of pH-dependent structural organization of the amyloidogenic beta-protein (1-40). (English)

1 reference

7 November 2017

Alexander Rubinstein

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7 November 2017

Yuri L Lyubchenko

series ordinal

2

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7 November 2017

Simon Sherman

series ordinal

3

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7 November 2017

10 January 2009

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7 November 2017

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7 November 2017

3

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7 November 2017

1

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7 November 2017

31-43

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Structures and free-energy landscapes of the wild type and mutants of the Abeta(21-30) peptide are determined by an interplay between intrapeptide electrostatic and hydrophobic interactions

7 November 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Familial Alzheimer's disease mutations alter the stability of the amyloid beta-protein monomer folding nucleus

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Simulation study on the disordered state of an Alzheimer's beta amyloid peptide Abeta(12 36) in water consisting of random-structural, beta-structural, and helical clusters.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Role of electrostatic interactions in amyloid beta-protein (A beta) oligomer formation: a discrete molecular dynamics study

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Computer simulations of Alzheimer's amyloid beta-protein folding and assembly

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

A seven-helix coiled coil

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Elucidating amyloid beta-protein folding and assembly: A multidisciplinary approach

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Simulations as analytical tools to understand protein aggregation and predict amyloid conformation

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Nanoimaging for protein misfolding and related diseases

27 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Effects of solvent on the structure of the Alzheimer amyloid-beta(25-35) peptide

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Amyloid beta-protein monomer structure: a computational and experimental study.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Experimental constraints on quaternary structure in Alzheimer's beta-amyloid fibrils

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Solvent and mutation effects on the nucleation of amyloid beta-protein folding

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Molecular dynamics simulations of Alzheimer's beta-amyloid protofilaments

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Interfaces and the driving force of hydrophobic assembly

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

The aggregation kinetics of Alzheimer's beta-amyloid peptide is controlled by stochastic nucleation

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

On the nucleation of amyloid beta-protein monomer folding

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Folding events in the 21-30 region of amyloid beta-protein (Abeta) studied in silico

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Conformational transition of amyloid beta-peptide

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Self-propagating, molecular-level polymorphism in Alzheimer's beta-amyloid fibrils

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Synaptic targeting by Alzheimer's-related amyloid beta oligomers.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Aqueous urea solution destabilizes Abeta(16-22) oligomers

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Molecular dynamics simulation of amyloid beta dimer formation

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Influence of the solvent structure on the electrostatic interactions in proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Progress towards a molecular-level structural understanding of amyloid fibrils

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Stabilization of discordant helices in amyloid fibril-forming proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Mixtures of wild-type and a pathogenic (E22G) form of Abeta40 in vitro accumulate protofibrils, including amyloid pores.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

In vitro characterization of conditions for amyloid-beta peptide oligomerization and fibrillogenesis

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Paradigm shifts in Alzheimer's disease and other neurodegenerative disorders: the emerging role of oligomeric assemblies

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Relationship between ion pair geometries and electrostatic strengths in proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

The amyloid hypothesis of Alzheimer's disease: progress and problems on the road to therapeutics

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Charge states rather than propensity for beta-structure determine enhanced fibrillogenesis in wild-type Alzheimer's beta-amyloid peptide compared to E22Q Dutch mutant

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

A de novo designed helix-turn-helix peptide forms nontoxic amyloid fibrils

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Long timescale simulations

27 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Complementary packing of alpha-helices in proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Alzheimer amyloid abeta1-42 channels: effects of solvent, pH, and Congo Red.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Kinetics of peptide folding: computer simulations of SYPFDV and peptide variants in water.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Standard structures in proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Realistic simulations of native-protein dynamics in solution and beyond

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Strategies and rationales for the de novo design of a helical hairpin peptide

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Repacking protein cores with backbone freedom: structure prediction for coiled coils

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Helix to helix packing in proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Alzheimer's disease: the amyloid cascade hypothesis

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

The structure of the Alzheimer amyloid beta 10-35 peptide probed through replica-exchange molecular dynamics simulations in explicit solvent.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

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

16 August 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Nanomedicine and protein misfolding diseases.

16 August 2018

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A strand-loop-strand structure is a possible intermediate in fibril elongation: long time simulations of amyloid-beta peptide (10-35).

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

A survey of flexible protein binding mechanisms and their transition states using native topology based energy landscapes

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Beta-hairpin conformation of fibrillogenic peptides: structure and alpha-beta transition mechanism revealed by molecular dynamics simulations

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Methods for molecular dynamics simulations of protein folding/unfolding in solution

16 August 2018

1 reference

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Preformed structural elements feature in partner recognition by intrinsically unstructured proteins

16 August 2018

1 reference

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Dissecting the assembly of Abeta16-22 amyloid peptides into antiparallel beta sheets.

16 August 2018

1 reference

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Assessing equilibration and convergence in biomolecular simulations

16 August 2018

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

16 August 2018

1 reference

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Novel amyloid precursor protein mutation in an Iowa family with dementia and severe cerebral amyloid angiopathy

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Temperature-induced conformational changes in amyloid beta(1-40) peptide investigated by simultaneous FT-IR microspectroscopy with thermal system.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Substitutions at codon 22 of Alzheimer's abeta peptide induce diverse conformational changes and apoptotic effects in human cerebral endothelial cells.

16 August 2018

1 reference

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Left-handed polyproline II helices commonly occur in globular proteins.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2676741

Comparison of simple potential functions for simulating liquid water

16 August 2018

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https://api.crossref.org/works/10.4161%2FPRI.3.1.8388

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

21 January 2018

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Particle mesh Ewald: An N⋅log(N) method for Ewald sums in large systems

21 January 2018

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Structural Analysis of Peptide Substrates for Mucin-Type O-Glycosylation†

21 January 2018

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https://api.crossref.org/works/10.4161%2FPRI.3.1.8388

Insights into the amyloid folding problem from solid-state NMR

21 January 2018

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https://api.crossref.org/works/10.4161%2FPRI.3.1.8388

Misfolding of the amyloid β-protein: A molecular dynamics study

21 January 2018

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https://api.crossref.org/works/10.4161%2FPRI.3.1.8388

Molecular dynamics with coupling to an external bath

21 January 2018

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https://api.crossref.org/works/10.4161%2FPRI.3.1.8388

Temperature-dependent beta-sheet formation in beta-amyloid Abeta(1-40) peptide in water: uncoupling beta-structure folding from aggregation

21 January 2018

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12 December 2020

Charge alterations of E22 enhance the pathogenic properties of the amyloid beta-protein

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12 December 2020

Pathogenic effects of D23N Iowa mutant amyloid beta -protein

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12 December 2020

A linear 23-residue peptide reveals a propensity to form an unusual native-like conformation

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12 December 2020

Calculations on folding of segment B1 of streptococcal protein G

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12 December 2020

Folding-unfolding thermodynamics of a beta-heptapeptide from equilibrium simulations

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12 December 2020

Dissection of the de novo designed peptide alpha t alpha: stability and properties of the intact molecule and its constituent helices

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12 December 2020

Amyloid beta-protein fibrillogenesis. Structure and biological activity of protofibrillar intermediates

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12 December 2020

Protein conformational transitions coupled to binding in molecular recognition of unstructured proteins: hierarchy of structural loss from all-atom Monte Carlo simulations of p27Kip1 unfolding-unbinding and structural determinants of the binding mec

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12 December 2020

Protein interactions and misfolding analyzed by AFM force spectroscopy

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12 December 2020

The effect of Abeta conformation on the metal affinity and aggregation mechanism studied by circular dichroism spectroscopy

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12 December 2020

Identifiers

DOI

10.4161/PRI.3.1.8388

1 reference

7 November 2017

1 reference

7 November 2017

PubMed publication ID

19372746

1 reference