(Q33944857)

30 July 2017

1 reference

title

MAVENs: motion analysis and visualization of elastic networks and structural ensembles (English)

1 reference

30 July 2017

1 reference

3

Robert L Jernigan

1 reference

30 July 2017

2

Andrzej Kloczkowski

1 reference

30 July 2017

Michael T Zimmermann

1

1 reference

30 July 2017

language of work or name

1 reference

28 June 2011

1 reference

30 July 2017

1 reference

30 July 2017

volume

12

1 reference

30 July 2017

page(s)

264

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2105-12-264

30 July 2017

exact match

0 references

cites work

Computational generation inhibitor-bound conformers of p38 MAP kinase and comparison with experiments.

1 reference

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Generalized spring tensor models for protein fluctuation dynamics and conformation changes

5 July 2018

1 reference

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Bend-twist-stretch model for coarse elastic network simulation of biomolecular motion.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Focused functional dynamics of supramolecules by use of a mixed-resolution elastic network model

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Protein elastic network models and the ranges of cooperativity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Application of elastic network models to proteins in the crystalline state

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Close correspondence between the motions from principal component analysis of multiple HIV-1 protease structures and elastic network modes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Signal propagation in proteins and relation to equilibrium fluctuations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

The Extent of Cooperativity of Protein Motions Observed with Elastic Network Models Is Similar for Atomic and Coarser-Grained Models

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

MinActionPath: maximum likelihood trajectory for large-scale structural transitions in a coarse-grained locally harmonic energy landscape

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

How well can we understand large-scale protein motions using normal modes of elastic network models?

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Packing regularities in biological structures relate to their dynamics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

NOMAD-Ref: visualization, deformation and refinement of macromolecular structures based on all-atom normal mode analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Soliton/exciton transport in proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Simulating movement of tRNA into the ribosome during decoding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Identification of slow correlated motions in proteins using residual dipolar and hydrogen-bond scalar couplings.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

The role of shape in determining molecular motions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

An analysis of core deformations in protein superfamilies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

ElNemo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

A comparative study of motor-protein motions by using a simple elastic-network model

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Dynamics of large proteins through hierarchical levels of coarse-grained structures.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Conformational change of proteins arising from normal mode calculations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Anisotropy of fluctuation dynamics of proteins with an elastic network model

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

NMR evidence for slow collective motions in cyanometmyoglobin

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

VMD: visual molecular dynamics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Dynamics of a small globular protein in terms of low-frequency vibrational modes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Quasi-continuum models of twist-like and accordion-like low-frequency motions in DNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Computer simulation of protein folding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Dynamics of folded proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Functional motions can be extracted from on‐lattice construction of protein structures

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-12-264

Anisotropic network model: systematic evaluation and a new web interface.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-12-264

Large Amplitude Elastic Motions in Proteins from a Single-Parameter, Atomic Analysis

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-12-264

Normal modes and essential dynamics.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Torsional Network Model: Normal Modes in Torsion Angle Space Better Correlate with Conformation Changes in Proteins

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3213244

Anisotropic collective motion contributes to nuclear spin relaxation in crystalline proteins

29 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21711533

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

bcl::Cluster : A method for clustering biological molecules coupled with visualization in the Pymol Molecular Graphics System

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21711533

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-12-264

1 reference

journals/bmcbi/ZimmermannKJ11

30 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

30 July 2017

1 reference