Nucleotide-mediated conformational changes of monomeric actin and Arp3 studied by molecular dynamics simulations (Q37027259)

17 August 2017

Nucleotide-mediated conformational changes of monomeric actin and Arp3 studied by molecular dynamics simulations (English)

1 reference

17 August 2017

Thomas D Pollard

1 reference

17 August 2017

Paul Dalhaimer

1 reference

17 August 2017

Brad J Nolen

series ordinal

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17 August 2017

language of work or name

English

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publication date

28 November 2007

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Journal of Molecular Biology

17 August 2017

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17 August 2017

376

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17 August 2017

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17 August 2017

166-183

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describes a project that uses

17 August 2017

molecular dynamics simulation

1 reference

The structural basis of actin filament branching by the Arp2/3 complex

inferred from title

cites work

1 reference

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Nucleotide effects on the structure and dynamics of actin

29 September 2017

1 reference

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Polymerization kinetics of ADP- and ADP-Pi-actin determined by fluorescence microscopy

29 September 2017

1 reference

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Insights into the influence of nucleotides on actin family proteins from seven structures of Arp2/3 complex

29 September 2017

1 reference

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Regulation of actin filament assembly by Arp2/3 complex and formins

29 September 2017

1 reference

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The ARP2/3 complex: an actin nucleator comes of age

29 September 2017

1 reference

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Crystal structures of expressed non-polymerizable monomeric actin in the ADP and ATP states

29 September 2017

1 reference

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Arp2/3 ATP hydrolysis-catalysed branch dissociation is critical for endocytic force generation

29 September 2017

1 reference

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Density functional calculations of ATP systems. 2. ATP hydrolysis at the active site of actin.

29 September 2017

1 reference

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The open nucleotide pocket of the profilin/actin x-ray structure is unstable and closes in the absence of profilin

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Scalable molecular dynamics with NAMD

29 September 2017

1 reference

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Allostery of actin filaments: molecular dynamics simulations and coarse-grained analysis

29 September 2017

1 reference

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Crystal structures of actin-related protein 2/3 complex with bound ATP or ADP.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Critical conformational changes in the Arp2/3 complex are induced by nucleotide and nucleation promoting factor.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Activation of Arp2/3 complex: addition of the first subunit of the new filament by a WASP protein triggers rapid ATP hydrolysis on Arp2

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Nucleotide-induced conformational changes in the Saccharomyces cerevisiae SR protein kinase, Sky1p, revealed by X-ray crystallography

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Crystal structure of monomeric actin in the ATP state. Structural basis of nucleotide-dependent actin dynamics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

ATP hydrolysis on actin-related protein 2/3 complex causes debranching of dendritic actin arrays

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

The structure of nonvertebrate actin: Implications for the ATP hydrolytic mechanism

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Cellular motility driven by assembly and disassembly of actin filaments

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Substructure synthesis method for simulating large molecular complexes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Occurrence, conformational features and amino acid propensities for the pi-helix

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Arp2/3 complex requires hydrolyzable ATP for nucleation of new actin filaments

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Crystal structure of Arp2/3 complex

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

The crystal structure of uncomplexed actin in the ADP state

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Latrunculin alters the actin-monomer subunit interface to prevent polymerization

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Thymosin-beta(4) changes the conformation and dynamics of actin monomers

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

A change in actin conformation associated with filament instability after Pi release.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

The structure of an open state of beta-actin at 2.65 A resolution

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

VMD: visual molecular dynamics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

The structure of crystalline profilin-beta-actin

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Nucleotide-free actin: stabilization by sucrose and nucleotide binding kinetics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Atomic structure of the actin:DNase I complex

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Characterization of actin filament severing by actophorin from Acanthamoeba castellanii

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Interactions of Acanthamoeba profilin with actin and nucleotides bound to actin.

29 September 2017

1 reference

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Direct evidence for ADP-Pi-F-actin as the major intermediate in ATP-actin polymerization. Rate of dissociation of Pi from actin filaments

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Rate constants for the reactions of ATP- and ADP-actin with the ends of actin filaments

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Collective motions in proteins: A covariance analysis of atomic fluctuations in molecular dynamics and normal mode simulations

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Dynamite: a simple way to gain insight into protein motions.

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Non-muscle actin filament elongation from complexes of profilin with nucleotide-free actin and divalent cation-free ATP-actin

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Mechanism of acetylcholinesterase inhibition by fasciculin: a 5-ns molecular dynamics simulation.

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Hydrolysis of ATP by polymerized actin depends on the bound divalent cation but not profilin

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3716381

Normal mode analysis of G-actin

4 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18155236

12 December 2020

inferred from PubMed ID database lookup

Nucleotide binding to actin. Cation dependence of nucleotide dissociation and exchange rates

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18155236

12 December 2020

inferred from PubMed ID database lookup

Investigating a back door mechanism of actin phosphate release by steered molecular dynamics

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18155236

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1016/J.JMB.2007.11.068

1 reference

release_agaw36irlfhsfnqvfql22jx5by

17 August 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/agaw36irlfhsfnqvfql22jx5by

24 November 2022

mapped directly with Wikidata item

1 reference

17 August 2017

PubMed publication ID

18155236

1 reference