(Q33852045)

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

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scholarly article

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Europe PubMed Central

PubMed publication ID

29 July 2017

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

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

energy landscape

1 reference

based on heuristic

inferred from title

6

object named as

Ruth Nussinov

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

Chung-Jung Tsai

3

object named as

Chung-Jung Tsai

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

5

object named as

Ehud Gazit

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

Hui-Hsu Gavin Tsai

1

object named as

Hui-Hsu Gavin Tsai

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

Kannan Gunasekaran

4

object named as

Kannan Gunasekaran

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

author name string

Meital Reches

2

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

language of work or name

0 references

publication date

27 May 2005

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

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

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

102

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

23

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

8174-8179

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

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

1 reference

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5 July 2018

Molecular basis for amyloid fibril formation and stability

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

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Amyloidogenic hexapeptide fragment of medin: homology to functional islet amyloid polypeptide fragments

1 reference

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5 July 2018

Aqueous urea solution destabilizes Abeta(16-22) oligomers

1 reference

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Scrambled prion domains form prions and amyloid

1 reference

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The stability and dynamics of the human calcitonin amyloid peptide DFNKF

1 reference

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5 July 2018

Evidence for assembly of prions with left-handed beta-helices into trimers

1 reference

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5 July 2018

Progress towards a molecular-level structural understanding of amyloid fibrils

1 reference

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5 July 2018

High-resolution molecular structure of a peptide in an amyloid fibril determined by magic angle spinning NMR spectroscopy

1 reference

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

1 reference

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5 July 2018

Trp-cage: Folding free energy landscape in explicit water

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Understanding folding and design: replica-exchange simulations of "Trp-cage" miniproteins

1 reference

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5 July 2018

Peptide folding simulations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Common structure of soluble amyloid oligomers implies common mechanism of pathogenesis

1 reference

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The role of side-chain interactions in the early steps of aggregation: Molecular dynamics simulations of an amyloid-forming peptide from the yeast prion Sup35

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Atomistic protein folding simulations on the submillisecond time scale using worldwide distributed computing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Stabilities and conformations of Alzheimer's beta -amyloid peptide oligomers (Abeta 16-22, Abeta 16-35, and Abeta 10-35): Sequence effects

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Ideas of order for amyloid fibril structure

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Amyloid fibers are water-filled nanotubes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

The free energy landscape for beta hairpin folding in explicit water

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

The architecture of parallel beta-helices and related folds

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

An expanded glutamine repeat destabilizes native ataxin-3 structure and mediates formation of parallel beta -fibrils.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

An amyloid-forming peptide from the yeast prion Sup35 reveals a dehydrated beta-sheet structure for amyloid

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

A census of glutamine/asparagine-rich regions: implications for their conserved function and the prediction of novel prions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Alzheimer's amyloid fibrils: structure and assembly

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

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Identification of a penta- and hexapeptide of islet amyloid polypeptide (IAPP) with amyloidogenic and cytotoxic properties

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Protein misfolding, evolution and disease

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

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Novel methods of sampling phase space in the simulation of biological systems

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Knowledge-based protein secondary structure assignment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

VMD: visual molecular dynamics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

The structure and mechanism of formation of human calcitonin fibrils

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

Monte Carlo-minimization approach to the multiple-minima problem in protein folding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1149403

5 July 2018

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

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

21 January 2018

Pathway complexity of Alzheimer's beta-amyloid Abeta16-22 peptide assembly

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

21 January 2018

Amyloid fibril formation by pentapeptide and tetrapeptide fragments of human calcitonin

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

21 January 2018

A comparative study of amyloid fibril formation by residues 15-19 of the human calcitonin hormone: a single beta-sheet model with a small hydrophobic core

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

21 January 2018

Structural diversity of amyloid fibril formed in human calcitonin as revealed by site-directed 13C solid-state NMR spectroscopy

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

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Free energy surfaces of beta-hairpin and alpha-helical peptides generated by replica exchange molecular dynamics with the AGBNP implicit solvent model

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

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Casting Metal Nanowires Within Discrete Self-Assembled Peptide Nanotubes

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

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Replica-exchange multicanonical algorithm and multicanonical replica-exchange method for simulating systems with rough energy landscape

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408653102

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Molecular modeling of the core of Abeta amyloid fibrils

1 reference

https://pubmed.ncbi.nlm.nih.gov/15923262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Creation of amyloid fibrils from mutant Asn187 gelsolin peptides

1 reference

https://pubmed.ncbi.nlm.nih.gov/15923262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mathematical analysis of coupled parallel simulations

1 reference

https://pubmed.ncbi.nlm.nih.gov/15923262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identification and characterization of a novel molecular-recognition and self-assembly domain within the islet amyloid polypeptide

1 reference

https://pubmed.ncbi.nlm.nih.gov/15923262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1073/PNAS.0408653102

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

2005PNAS..102.8174T

0 references

PMC publication ID

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

29 July 2017

ResearchGate publication ID

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