The energy profiles of atomic conformational transition intermediates of adenylate kinase (Q37399868)

20 August 2017

The energy profiles of atomic conformational transition intermediates of adenylate kinase (English)

1 reference

20 August 2017

4

Robert L Jernigan

1 reference

20 August 2017

3

Andrzej Kloczkowski

1 reference

20 August 2017

Yaping Feng

1

1 reference

PMCID

2767473

20 August 2017

Lei Yang

series ordinal

2

1 reference

PMCID

2767473

20 August 2017

language of work or name

English

0 references

publication date

1 November 2009

1 reference

20 August 2017

1 reference

20 August 2017

77

1 reference

20 August 2017

3

1 reference

20 August 2017

551-558

1 reference

Small- and large-scale conformational changes of adenylate kinase: a molecular dynamics study of the subdomain motion and mechanics

20 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Dynamic personalities of proteins

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

A hierarchy of timescales in protein dynamics is linked to enzyme catalysis

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Intrinsic motions along an enzymatic reaction trajectory

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

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

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Folding pathway of the b1 domain of protein G explored by multiscale modeling

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

A molecular dynamics study of slow base flipping in DNA using conformational flooding

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Conformational transition pathway in the allosteric process of human glucokinase

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Molecular motors: strategies to get along

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Protein modeling and structure prediction with a reduced representation.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Anisotropy of fluctuation dynamics of proteins with an elastic network model

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

The ENZYME database in 2000

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Protein structure alignment by incremental combinatorial extension (CE) of the optimal path

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Normal modes for specific motions of macromolecules: application to the hinge-bending mode of lysozyme

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Dynamics of folded proteins

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Structural change and nucleotide dissociation of Myosin motor domain: dual go model simulation

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Efficient generation of feasible pathways for protein conformational transitions

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

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

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Large amplitude conformational change in proteins explored with a plastic network model: adenylate kinase

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Rigid-cluster models of conformational transitions in macromolecular machines and assemblies

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

An elastic network model of HK97 capsid maturation

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Short-range conformational energies, secondary structure propensities, and recognition of correct sequence-structure matches

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

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

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Geometry-based sampling of conformational transitions in proteins.

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Protein conformational transitions explored by mixed elastic network models.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Four-body contact potentials derived from two protein datasets to discriminate native structures from decoys.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

TASSER: an automated method for the prediction of protein tertiary structures in CASP6.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

A Comparison Between Elastic Network Interpolation and MD Simulation of 16S Ribosomal RNA

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

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

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Correlations in the Motion of Atoms in Liquid Argon

2 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1002%2FPROT.22467

Solvent effects in the slow dynamics of proteins

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

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

3 December 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2767473

Cell signalling and gene regulation

3 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19507242

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Domain closure in adenylate kinase. Joints on either side of two helices close like neighboring fingers

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19507242

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Elastic models of conformational transitions in macromolecules

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19507242

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1002/PROT.22467

1 reference

20 August 2017

1 reference

20 August 2017

1 reference

PMCID

2767473