(Q42920124)

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Toward optimized potential functions for protein-protein interactions in aqueous solutions: osmotic second virial coefficient calculations using the MARTINI coarse-grained force field

scientific article published on September 2013

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

Toward optimized potential functions for protein-protein interactions in aqueous solutions: osmotic second virial coefficient calculations using the MARTINI coarse-grained force field (English)

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

1 reference

based on heuristic

inferred from title

protein-protein interaction

1 reference

based on heuristic

inferred from title

author name string

Austin C Stark

1

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

Casey T Andrews

2

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

Adrian H Elcock

3

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

publication date

1 September 2013

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

Journal of Chemical Theory and Computation

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Europe PubMed Central

PMC publication ID

11 November 2017

9

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

9

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Martini Coarse-Grained Force Field: Extension to Carbohydrates.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Improved Parameters for the Martini Coarse-Grained Protein Force Field.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Structural determinants of the supramolecular organization of G protein-coupled receptors in bilayers.

1 reference

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27 May 2018

Improving Internal Peptide Dynamics in the Coarse-Grained MARTINI Model: Toward Large-Scale Simulations of Amyloid- and Elastin-like Peptides

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Coarse-grained molecular simulations of large biomolecules

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Lipid packing drives the segregation of transmembrane helices into disordered lipid domains in model membranes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Brownian dynamics simulation of protein solutions: structural and dynamical properties

1 reference

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27 May 2018

Crowding and hydrodynamic interactions likely dominate in vivo macromolecular motion

1 reference

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27 May 2018

Polarizable water model for the coarse-grained MARTINI force field

1 reference

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27 May 2018

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

1 reference

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27 May 2018

Insights from coarse-grained Gō models for protein folding and dynamics

1 reference

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27 May 2018

Coarse-grained molecular simulation of diffusion and reaction kinetics in a crowded virtual cytoplasm

1 reference

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27 May 2018

Coarse-grained models for simulations of multiprotein complexes: application to ubiquitin binding

1 reference

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27 May 2018

The MARTINI force field: coarse grained model for biomolecular simulations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Multiscale modeling of biomolecular systems: in serial and in parallel

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Assembly of lipoprotein particles revealed by coarse-grained molecular dynamics simulations.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Coarse-grained models for proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Direct measurement of protein osmotic second virial cross coefficients by cross-interaction chromatography

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

A mesoscopic model for protein-protein interactions in solution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Calculation of weak protein-protein interactions: the pH dependence of the second virial coefficient

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Protein interactions in solution characterized by light and neutron scattering: comparison of lysozyme and chymotrypsinogen

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

Molecular origins of osmotic second virial coefficients of proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

27 May 2018

The MARTINI Coarse-Grained Force Field: Extension to Proteins.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

16 August 2018

Atomic detail brownian dynamics simulations of concentrated protein solutions with a mean field treatment of hydrodynamic interactions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819042

16 August 2018

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

1 reference

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16 August 2018

Dimerization of Amino Acid Side Chains: Lessons from the Comparison of Different Force Fields

1 reference

https://pubmed.ncbi.nlm.nih.gov/24223529

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Combining an Elastic Network With a Coarse-Grained Molecular Force Field: Structure, Dynamics, and Intermolecular Recognition

1 reference

https://pubmed.ncbi.nlm.nih.gov/24223529

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Measured and calculated effects of mutations in bacteriophage T4 lysozyme on interactions in solution

1 reference

https://pubmed.ncbi.nlm.nih.gov/24223529

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/24223529

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

G Protein-Coupled Receptors Self-Assemble in Dynamics Simulations of Model Bilayers

1 reference

https://pubmed.ncbi.nlm.nih.gov/24223529

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

On the charge regulation of proteins

1 reference

https://pubmed.ncbi.nlm.nih.gov/24223529

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1021/CT400008P

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

11 November 2017

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