An effective all-atom potential for proteins (Q41478788)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19356242%20AND%20SRC:MED&resulttype=core&format=json

25 January 2020

title

An effective all-atom potential for proteins (English)

1 reference

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25 January 2020

1

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25 January 2020

Simon Mitternacht

2

1 reference

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25 January 2020

Sandipan Mohanty

3

1 reference

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25 January 2020

author name string

Anders Irbäck

1

1 reference

1 October 2017

Simon Mitternacht

2

1 reference

1 October 2017

Sandipan Mohanty

3

1 reference

1 October 2017

8 April 2009

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19356242%20AND%20SRC:MED&resulttype=core&format=json

25 January 2020

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25 January 2020

volume

2

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25 January 2020

page(s)

2

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25 January 2020

issue

1

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Creative Commons Attribution 2.0 Generic

25 January 2020

copyright license

start time

8 April 2009

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

exact match

https://scigraph.springernature.com/pub.10.1186/1757-5036-2-2

0 references

cites work

Changing the mechanical unfolding pathway of FnIII10 by tuning the pulling strength.

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Formation and growth of oligomers: a Monte Carlo study of an amyloid tau fragment

11 June 2018

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Ab initio folding of proteins with all-atom discrete molecular dynamics

11 June 2018

1 reference

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A test on peptide stability of AMBER force fields with implicit solvation

11 June 2018

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Simulation of Top7-CFr: a transient helix extension guides folding.

11 June 2018

1 reference

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Structural reorganisation and potential toxicity of oligomeric species formed during the assembly of amyloid fibrils

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Molecular basis of coiled-coil formation

11 June 2018

1 reference

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Folding of proteins with diverse folds

11 June 2018

1 reference

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High-resolution protein folding with a transferable potential

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Dissecting the mechanical unfolding of ubiquitin

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Intrinsically unstructured proteins and their functions

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

In Silico Folding of a Three Helix Protein and Characterization of Its Free-Energy Landscape in an All-Atom Force Field

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Folding thermodynamics of peptides

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

10 residue folded peptide designed by segment statistics.

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Enhanced hairpin stability through loop design: the case of the protein G B1 domain hairpin

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Force fields for protein simulations

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Design of a Novel Globular Protein Fold with Atomic-Level Accuracy

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Thermodynamics of alpha- and beta-structure formation in proteins

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Peptide folding simulations

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Smaller and faster: the 20-residue Trp-cage protein folds in 4 micros

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Structure of a de novo designed protein model of radical enzymes

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Designing a 20-residue protein

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Conformations of amino acids in proteins.

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Natively unfolded proteins: a point where biology waits for physics

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Alpha-helical stabilization by side chain shielding of backbone hydrogen bonds

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Combinatorial approaches: a new tool to search for highly structured beta-hairpin peptides

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Computer-aided design of beta-sheet peptides

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Tryptophan zippers: Stable, monomeric -hairpins

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

De novo design of a monomeric three-stranded antiparallel beta-sheet

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Design of a 20-amino acid, three-stranded beta-sheet protein.

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Folding dynamics and mechanism of beta-hairpin formation

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Laser temperature jump study of the helix<==>coil kinetics of an alanine peptide interpreted with a 'kinetic zipper' model

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Fast events in protein folding: helix melting and formation in a small peptide.

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Electrostatic screening of charge and dipole interactions with the helix backbone

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Urea unfolding of peptide helices as a model for interpreting protein unfolding

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

A short linear peptide that folds into a native stable beta-hairpin in aqueous solution

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

A salt bridge stabilizes the helix formed by isolated C-peptide of RNase A

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Mis-translation of a computationally designed protein yields an exceptionally stable homodimer: implications for protein engineering and evolution.

11 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

PROFASI: A Monte Carlo simulation package for protein folding and aggregation.

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Inverse electrostatic effect: electrostatic repulsion in the unfolded state stabilizes a leucine zipper

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Design and characterization of helical peptides that inhibit the E6 protein of papillomavirus.

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Heterogeneous folding of the trpzip hairpin: full atom simulation and experiment

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Replica Monte Carlo simulation of spin glasses.

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Residue-residue potentials with a favorable contact pair term and an unfavorable high packing density term, for simulation and threading.

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Spontaneous beta-barrel formation: an all-atom Monte Carlo study of Abeta16-22 oligomerization

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

Internal stark effect measurement of the electric field at the amino terminus of an alpha helix

4 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2696411

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

4 November 2018

1 reference

12 December 2020

Structure-function relationships in a winter flounder antifreeze polypeptide. I. Stabilization of an alpha-helical antifreeze polypeptide by charged-group and hydrophobic interactions

1 reference

12 December 2020

Folding of a β-hairpin peptide derived from the N-terminus of ubiquitin

1 reference

12 December 2020

Unfolding thermodynamics of Trp-cage, a 20 residue miniprotein, studied by differential scanning calorimetry and circular dichroism spectroscopy

1 reference

12 December 2020

Caching of a chameleon segment facilitates folding of a protein with end-to-end beta-sheet

1 reference

12 December 2020

Identifiers

DOI

10.1186/1757-5036-2-2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19356242%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

25 January 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19356242%20AND%20SRC:MED&resulttype=core&format=json

25 January 2020

1 reference