Tracing conformational changes in proteins (Q33582625)

28 July 2017

title

Tracing conformational changes in proteins (English)

1 reference

28 July 2017

Wah Chiu

1 reference

28 July 2017

Lydia E Kavraki

0 references

Mark Moll

0 references

Nurit Haspel

1 reference

28 July 2017

Matthew L Baker

series ordinal

1 reference

28 July 2017

publication date

17 May 2010

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28 July 2017

published in

BMC Structural Biology

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28 July 2017

volume

10 Suppl 1

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28 July 2017

1 reference

The energy profiles of atomic conformational transition intermediates of adenylate kinase

28 July 2017

cites work

1 reference

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Multiscale characterization of protein conformational ensembles

21 June 2018

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Rapid sampling of molecular motions with prior information constraints

21 June 2018

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Can morphing methods predict intermediate structures?

21 June 2018

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Efficient algorithms to explore conformation spaces of flexible protein loops

21 June 2018

1 reference

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Iterative cluster-NMA: A tool for generating conformational transitions in proteins

21 June 2018

1 reference

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Combining efficient conformational sampling with a deformable elastic network model facilitates structure refinement at low resolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Intrinsic motions along an enzymatic reaction trajectory

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Large-scale allosteric conformational transitions of adenylate kinase appear to involve a population-shift mechanism

21 June 2018

1 reference

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Optimization by Simulated Annealing

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Simulating protein motions with rigidity analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

From coarse-grain to all-atom: toward multiscale analysis of protein landscapes

21 June 2018

1 reference

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Conformational transitions of adenylate kinase: switching by cracking

21 June 2018

1 reference

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On the characterization of protein native state ensembles

21 June 2018

1 reference

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A natural coarse graining for simulating large biomolecular motion

21 June 2018

1 reference

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The Amber biomolecular simulation programs

21 June 2018

1 reference

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Escherichia coli adenylate kinase dynamics: comparison of elastic network model modes with mode-coupling (15)N-NMR relaxation data

21 June 2018

1 reference

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A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations

21 June 2018

1 reference

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Minimalist models for protein folding and design

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Structures of the complexes of a potent anti-HIV protein cyanovirin-N and high mannose oligosaccharides

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

The domain-swapped dimer of cyanovirin-N is in a metastable folded state: reconciliation of X-ray and NMR structures

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Structural mechanisms for domain movements in proteins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

The universally conserved GroE (Hsp60) chaperonins

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

An NMA-guided path planning approach for computing large-amplitude conformational changes in proteins.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Ultrafast shape recognition to search compound databases for similar molecular shapes.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Simple energy landscape model for the kinetics of functional transitions in proteins

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Protein folding by motion planning

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Conformational equilibria and free energy profiles for the allosteric transition of the ribose-binding protein

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

A path planning approach for computing large-amplitude motions of flexible molecules

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Global ribosome motions revealed with elastic network model

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Molecular mechanisms of chaperonin GroEL-GroES function

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2873824

Comment on elastic network models and proteins

31 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20487508

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identification of dynamical correlations within the myosin motor domain by the normal mode analysis of an elastic network model

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20487508

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Using stochastic roadmap simulation to predict experimental quantities in protein folding kinetics: folding rates and phi-values

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20487508

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1472-6807-10-S1-S1

1 reference

Dimensions Publication ID

28 July 2017

0 references

1 reference

28 July 2017

1 reference