(Q31011535)

6 November 2017

0 references

Diffusion and association processes in biological systems: theory, computation and experiment (English)

1 reference

6 November 2017

computational biology

0 references

author

Paolo Mereghetti

series ordinal

1

1 reference

6 November 2017

Rebecca C Wade

4

0 references

J. Andrew McCammon

series ordinal

3

object named as

J Andrew McCammon

1 reference

6 November 2017

Daria Kokh

2

1 reference

6 November 2017

2 March 2011

1 reference

6 November 2017

1 reference

6 November 2017

4

1 reference

6 November 2017

2

1 reference

ProMetCS: An Atomistic Force Field for Modeling Protein-Metal Surface Interactions in a Continuum Aqueous Solvent

6 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Continuum simulations of biomembrane dynamics and the importance of hydrodynamic effects

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Mechanisms of protein-ligand association and its modulation by protein mutations

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Browndye: A Software Package for Brownian Dynamics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Brownian dynamics simulation of protein solutions: structural and dynamical properties

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Absolute protein-protein association rate constants from flexible, coarse-grained Brownian dynamics simulations: the role of intermolecular hydrodynamic interactions in barnase-barstar association

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Stochastic reaction-diffusion kinetics in the microscopic limit

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Crowding and hydrodynamic interactions likely dominate in vivo macromolecular motion

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Rate theories for biologists

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

From induced fit to conformational selection: a continuum of binding mechanism controlled by the timescale of conformational transitions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Key residues on microtubule responsible for activation of kinesin ATPase

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Kinetics of diffusion-controlled enzymatic reactions with charged substrates

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Translational and rotational diffusion of a small globular protein under crowded conditions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Fruitful and futile encounters along the association reaction between proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Dissection of the high rate constant for the binding of a ribotoxin to the ribosome.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Substrate induced population shifts and stochastic gating in the PBCV-1 mRNA capping enzyme

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Fundamental aspects of protein-protein association kinetics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Differential dynamical effects of macromolecular crowding on an intrinsically disordered protein and a globular protein: implications for in-cell NMR spectroscopy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Sampling the cell with anomalous diffusion - the discovery of slowness

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Continuum simulations of acetylcholine diffusion with reaction-determined boundaries in neuromuscular junction models

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Protein-protein association in polymer solutions: from dilute to semidilute to concentrated

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Biomolecular diffusional association

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Ion permeation and glutamate residues linked by Poisson-Nernst-Planck theory in L-type calcium channels

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Simulation of the diffusional association of barnase and barstar.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Diffusion, crowding & protein stability in a dynamic molecular model of the bacterial cytoplasm

28 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F2046-1682-4-2

An O(N2) approximation for hydrodynamic interactions in Brownian dynamics simulations.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F2046-1682-4-2

Numerical analysis of Ca2+ signaling in rat ventricular myocytes with realistic transverse-axial tubular geometry and inhibited sarcoplasmic reticulum

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F2046-1682-4-2

Interfacing Brownian dynamics simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F2046-1682-4-2

SIMUFLEX: Algorithms and Tools for Simulation of the Conformation and Dynamics of Flexible Molecules and Nanoparticles in Dilute Solution.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

A Quantitative, Real-Time Assessment of Binding of Peptides and Proteins to Gold Surfaces

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations.

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Enzymatic activity versus structural dynamics: the case of acetylcholinesterase tetramer

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Influence of macromolecular crowding on protein-protein association rates--a Brownian dynamics study

25 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3093674

Atomically detailed simulations of concentrated protein solutions: the effects of salt, pH, point mutations, and protein concentration in simulations of 1000-molecule systems

25 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21595997

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Striking Effects of Hydrodynamic Interactions on the Simulated Diffusion and Folding of Proteins

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21595997

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Efficient, accurate calculation of rotational diffusion and NMR relaxation of globular proteins from atomic-level structures and approximate hydrodynamic calculations

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21595997

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/2046-1682-4-2

1 reference

PMC publication ID

3093674

Dimensions Publication ID

6 November 2017

0 references

0 references

1 reference

PMC publication ID

3093674

6 November 2017

PubMed publication ID

21595997

1 reference

PMC publication ID

3093674