(Q35810027)

English

Functional domain motions in proteins on the ~1-100 ns timescale: comparison of neutron spin-echo spectroscopy of phosphoglycerate kinase with molecular-dynamics simulation

scientific article published on 6 March 2012

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

Functional domain motions in proteins on the ~1-100 ns timescale: comparison of neutron spin-echo spectroscopy of phosphoglycerate kinase with molecular-dynamics simulation (English)

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

author name string

N Smolin

1

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

R Biehl

2

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

G R Kneller

3

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

D Richter

4

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

J C Smith

5

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

language of work or name

0 references

publication date

6 March 2012

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

Biophysical Journal

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

102

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

5

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

1108-1117

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation

1 reference

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Structural heterogeneity and quantitative FRET efficiency distributions of polyprolines through a hybrid atomistic simulation and Monte Carlo approach

1 reference

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11 July 2018

Proteins move! Protein dynamics and long-range allostery in cell signaling

1 reference

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11 July 2018

A spring-loaded release mechanism regulates domain movement and catalysis in phosphoglycerate kinase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Native and unfolded states of phosphoglycerate kinase studied by single-molecule FRET.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Activation of nanoscale allosteric protein domain motion revealed by neutron spin echo spectroscopy

1 reference

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Evaluating elastic network models of crystalline biological molecules with temperature factors, correlated motions, and diffuse x-ray scattering

1 reference

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11 July 2018

Large domain fluctuations on 50-ns timescale enable catalytic activity in phosphoglycerate kinase.

1 reference

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Scrutinizing molecular mechanics force fields on the submicrosecond timescale with NMR data

1 reference

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11 July 2018

Theory and normal-mode analysis of change in protein vibrational dynamics on ligand binding

1 reference

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11 July 2018

Self-similar dynamics of proteins under hydrostatic pressure-Computer simulations and experiments.

1 reference

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11 July 2018

Fretting about FRET: failure of the ideal dipole approximation

1 reference

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11 July 2018

Database of ligand-induced domain movements in enzymes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Application of elastic network models to proteins in the crystalline state

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Evaluating rotational diffusion from protein MD simulations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Fretting about FRET: correlation between kappa and R.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Coupled protein domain motion in Taq polymerase revealed by neutron spin-echo spectroscopy

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Observation of a Power-Law Memory Kernel for Fluctuations within a Single Protein Molecule

1 reference

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11 July 2018

Methyl group dynamics as a probe of the protein dynamical transition

1 reference

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11 July 2018

Diffusion and electrophoretic mobility of single-stranded RNA from molecular dynamics simulations.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Protein conformational dynamics probed by single-molecule electron transfer.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Translational hydration water dynamics drives the protein glass transition

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Molecular dynamics decomposition of temperature-dependent elastic neutron scattering by a protein solution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Protein dynamics studied by neutron scattering.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

The role of dynamics in enzyme activity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Temperature dependence of protein dynamics: computer simulation analysis of neutron scattering properties

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

SASSIM: a method for calculating small-angle X-ray and neutron scattering and the associated molecular envelope from explicit-atom models of solvated proteins

1 reference

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11 July 2018

Radially softening diffusive motions in a globular protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

The dynamics of protein hydration water: a quantitative comparison of molecular dynamics simulations and neutron-scattering experiments

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

How soft is a protein? A protein dynamics force constant measured by neutron scattering.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Calculation of hydrodynamic properties of globular proteins from their atomic-level structure

1 reference

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11 July 2018

Canonical dynamics: Equilibrium phase-space distributions

1 reference

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11 July 2018

Protein hydration in solution: experimental observation by x-ray and neutron scattering

1 reference

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The structure of a thermally stable 3-phosphoglycerate kinase and a comparison with its mesophilic equivalent

1 reference

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11 July 2018

Sequence and structure of yeast phosphoglycerate kinase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

11 July 2018

Dynamical transition of myoglobin revealed by inelastic neutron scattering

1 reference

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11 July 2018

Dynamics of myoglobin: comparison of simulation results with neutron scattering spectra

1 reference

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11 July 2018

Protein dynamics: comparison of simulations with inelastic neutron scattering experiments

1 reference

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11 July 2018

Crystal structure of the binary complex of pig muscle phosphoglycerate kinase and its substrate 3-phospho-D-glycerate

1 reference

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Domain motions in phosphoglycerate kinase: determination of interdomain distance distributions by site-specific labeling and time-resolved fluorescence energy transfer

1 reference

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11 July 2018

Sequence, structure and activity of phosphoglycerate kinase: a possible hinge-bending enzyme

1 reference

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11 July 2018

Thermodynamic analysis of substrate induced domain closure of 3-phosphoglycerate kinase

1 reference

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Substrate binding modifies the hinge bending characteristics of human 3-phosphoglycerate kinase: a molecular dynamics study.

1 reference

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1 reference

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1 reference

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Effects of water model and simulation box size on protein diffusional motions.

1 reference

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Temperature-dependent protein dynamics: a simulation-based probabilistic diffusion-vibration Langevin description.

1 reference

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25 September 2018

Fractional Brownian dynamics in proteins.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3296038

25 September 2018

Direct determination of vibrational density of states change on ligand binding to a protein.

1 reference

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Convergence of sampling in protein simulations.

1 reference

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1 reference

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1 reference

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Vibrational Softening of a Protein on Ligand Binding

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

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based on heuristic

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Lattice dynamics of a protein crystal

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Correlated dynamics determining x-ray diffuse scattering from a crystalline protein revealed by molecular dynamics simulation

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Energy landscape of a native protein: jumping-among-minima model

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Energy resolution and dynamical heterogeneity effects on elastic incoherent neutron scattering from molecular systems

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Liquid-like side-chain dynamics in myoglobin

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The hinge-bending mode in lysozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Inelastic neutron scattering analysis of picosecond internal protein dynamics

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Direct observation of correlated interdomain motion in alcohol dehydrogenase

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Correlated intramolecular motions and diffuse X-ray scattering in lysozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transverse-current autocorrelation-function calculations of the shear viscosity for molecular liquids

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Langevin model of the temperature and hydration dependence of protein vibrational dynamics

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Subdiffusion in peptides originates from the fractal-like structure of configuration space

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Principal components of the protein dynamical transition

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Single-particle and collective dynamics of protein hydration water: a molecular dynamics study

1 reference

https://pubmed.ncbi.nlm.nih.gov/22404933

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1016/J.BPJ.2012.01.002

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

ResearchGate publication ID

0 references

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