Replica exchange simulations of the thermodynamics of Abeta fibril growth (Q37277084)

19 August 2017

Replica exchange simulations of the thermodynamics of Abeta fibril growth (English)

1 reference

19 August 2017

0 references

Takako Takeda

1

1 reference

PMCID

2716483

19 August 2017

Dmitri K Klimov

series ordinal

2

1 reference

PMCID

2716483

19 August 2017

language of work or name

English

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publication date

1 January 2009

1 reference

19 August 2017

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19 August 2017

96

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19 August 2017

442-452

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19 August 2017

2

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Systematic analysis of nucleation-dependent polymerization reveals new insights into the mechanism of amyloid self-assembly

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Amyloid-beta protein dimers isolated directly from Alzheimer's brains impair synaptic plasticity and memory

6 September 2017

1 reference

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Temperature-induced dissociation of Abeta monomers from amyloid fibril

6 September 2017

1 reference

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Stepwise dynamics of epitaxially growing single amyloid fibrils

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1 reference

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Simulating replica exchange simulations of protein folding with a kinetic network model

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1 reference

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Structure and dynamics of parallel beta-sheets, hydrophobic core, and loops in Alzheimer's A beta fibrils

6 September 2017

1 reference

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Monomer adds to preformed structured oligomers of Abeta-peptides by a two-stage dock-lock mechanism.

6 September 2017

1 reference

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General structural motifs of amyloid protofilaments

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1 reference

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

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1 reference

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Polymorphic fibril formation by residues 10-40 of the Alzheimer's beta-amyloid peptide

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1 reference

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

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

6 September 2017

1 reference

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Molecular dynamics simulations of Alzheimer's beta-amyloid protofilaments

6 September 2017

1 reference

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Molecular recycling within amyloid fibrils

6 September 2017

1 reference

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Structure of the cross-beta spine of amyloid-like fibrils

6 September 2017

1 reference

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Energy landscape of amyloidogenic peptide oligomerization by parallel-tempering molecular dynamics simulation: significant role of Asn ladder

6 September 2017

1 reference

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Molecular basis for amyloid fibril formation and stability

6 September 2017

1 reference

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Molecular dynamics simulations of spontaneous fibril formation by random-coil peptides

6 September 2017

1 reference

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Non-steroidal anti-inflammatory drugs (NSAIDs) in Alzheimer's disease: old and new mechanisms of action

6 September 2017

1 reference

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Exploring peptide energy landscapes: a test of force fields and implicit solvent models.

6 September 2017

1 reference

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Folding proteins in fatal ways

6 September 2017

1 reference

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Protein folding and misfolding

6 September 2017

1 reference

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Folding a protein in a computer: An atomic description of the folding/unfolding of protein A

6 September 2017

1 reference

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Common structure of soluble amyloid oligomers implies common mechanism of pathogenesis

6 September 2017

1 reference

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

6 September 2017

1 reference

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Molecular dynamics simulations of alanine rich beta-sheet oligomers: Insight into amyloid formation

6 September 2017

1 reference

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

6 September 2017

1 reference

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Peptide aggregation in neurodegenerative disease

6 September 2017

1 reference

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Mutations that reduce aggregation of the Alzheimer's Abeta42 peptide: an unbiased search for the sequence determinants of Abeta amyloidogenesis

6 September 2017

1 reference

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Evaluation of a fast implicit solvent model for molecular dynamics simulations

6 September 2017

1 reference

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Folding simulations of a three-stranded antiparallel beta -sheet peptide

6 September 2017

1 reference

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Alzheimer's amyloid fibrils: structure and assembly

6 September 2017

1 reference

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Alzheimer's disease amyloid propagation by a template-dependent dock-lock mechanism

6 September 2017

1 reference

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NPS@: network protein sequence analysis

6 September 2017

1 reference

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Native proteins are surface-molten solids: application of the Lindemann criterion for the solid versus liquid state

6 September 2017

1 reference

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Temperature dependence of amyloid beta-protein fibrillization

6 September 2017

1 reference

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Point substitution in the central hydrophobic cluster of a human beta-amyloid congener disrupts peptide folding and abolishes plaque competence

6 September 2017

1 reference

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VMD: visual molecular dynamics

6 September 2017

1 reference

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Principles of protein folding--a perspective from simple exact models.

6 September 2017

1 reference

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

6 September 2017

1 reference

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Theory of cooperative transitions in protein molecules. I. Why denaturation of globular protein is a first-order phase transition

6 September 2017

1 reference

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Role of water in mediating the assembly of Alzheimer amyloid-beta Abeta16-22 protofilaments

6 September 2017

1 reference

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Determining the critical nucleus and mechanism of fibril elongation of the Alzheimer's Abeta(1-40) peptide.

26 June 2018

1 reference

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Computational study on the structural diversity of amyloid Beta Peptide (abeta(10-35)) oligomers.

26 June 2018

1 reference

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Amyloid toxicity is independent of polypeptide sequence, length and chirality

3 September 2018

1 reference

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

3 September 2018

1 reference

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Abeta42 is more rigid than Abeta40 at the C terminus: implications for Abeta aggregation and toxicity.

3 September 2018

1 reference

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Elongation of ordered peptide aggregate of an amyloidogenic hexapeptide NFGAIL observed in molecular dynamics simulations with explicit solvent

3 September 2018

1 reference

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Thermodynamics of A beta(1-40) amyloid fibril elongation

3 September 2018

1 reference

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Direct observation of Abeta amyloid fibril growth and inhibition

3 September 2018

1 reference

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Insulin amyloid fibrillation at above 100 degrees C: new insights into protein folding under extreme temperatures

3 September 2018

1 reference

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Kinetic analysis of beta-amyloid fibril elongation

3 September 2018

1 reference

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Thermodynamics and stability of a beta-sheet complex: molecular dynamics simulations on simplified off-lattice protein models

3 September 2018

1 reference

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Molecular dynamics simulations of the unfolding of beta(2)-microglobulin and its variants

3 September 2018

1 reference

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

3 September 2018

1 reference

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In vitro detection of (S)-naproxen and ibuprofen binding to plaques in the Alzheimer's brain using the positron emission tomography molecular imaging probe 2-(1-[6-[(2-[(18)F]fluoroethyl)(methyl)amino]-2-naphthyl]ethylidene)malononitrile

3 September 2018

1 reference

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Deposition of monomeric, not oligomeric, Abeta mediates growth of Alzheimer's disease amyloid plaques in human brain preparations.

3 September 2018

1 reference

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Two-dimensional structure of beta-amyloid(10-35) fibrils

3 September 2018

1 reference

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Surface structure of amyloid-beta fibrils contributes to cytotoxicity

20 October 2018

1 reference

12 December 2020

Replica exchange molecular dynamics simulations of amyloid peptide aggregation

1 reference

12 December 2020

Kinetically controlled thermal response of beta2-microglobulin amyloid fibrils

1 reference

12 December 2020

Optimized Monte Carlo data analysis

1 reference

12 December 2020

Pathways and intermediates of amyloid fibril formation

1 reference

12 December 2020

Probing the kinetics of beta-amyloid self-association

1 reference

12 December 2020

Dynamics and fluidity of amyloid fibrils: a model of fibrous protein aggregates

1 reference

12 December 2020

10.1016/J.BPJ.2008.10.008

Identifiers

DOI

1 reference

19 August 2017

1 reference

19 August 2017

1 reference

PMCID

2716483