(Q34396760)

25043760

1 August 2017

title

Protein dynamics control the progression and efficiency of the catalytic reaction cycle of the Escherichia coli DNA-repair enzyme AlkB (English)

1 reference

1 August 2017

1 reference

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

author name string

Burçe Ergel

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

Lewis Brown

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

Bomina Yu

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

Arthur G Palmer

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

John F Hunt

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

language of work or name

English

0 references

publication date

20 July 2014

1 reference

25043760

Journal of Biological Chemistry

1 August 2017

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

volume

289

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

issue

43

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

page(s)

29584-29601

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

Thermal adaptation of conformational dynamics in ribonuclease H

13 June 2020

cites work

1 reference

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6 July 2018

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Flexibility, diversity, and cooperativity: pillars of enzyme catalysis

6 July 2018

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Multiplet-filtered and gradient-selected zero-quantum TROSY experiments for 13C1H3 methyl groups in proteins

6 July 2018

1 reference

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Reexamination of the Rehm-Weller data set reveals electron transfer quenching that follows a Sandros-Boltzmann dependence on free energy

6 July 2018

1 reference

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Evidence for a high-spin Fe(IV) species in the catalytic cycle of a bacterial phenylalanine hydroxylase

6 July 2018

1 reference

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Iron-catalysed oxidation intermediates captured in a DNA repair dioxygenase

6 July 2018

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Evidence for the slow reaction of hypoxia-inducible factor prolyl hydroxylase 2 with oxygen

6 July 2018

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Physiological and biochemical aspects of hydroxylations and demethylations catalyzed by human 2-oxoglutarate oxygenases

6 July 2018

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Conformational switch triggered by -ketoglutarate in a halogenase of curacin A biosynthesis

6 July 2018

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Mechanisms of quenching of Alexa fluorophores by natural amino acids

6 July 2018

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Structural and Mutational Analysis of Escherichia coli AlkB Provides Insight into Substrate Specificity and DNA Damage Searching

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

Triosephosphate isomerase: 15N and 13C chemical shift assignments and conformational change upon ligand binding by magic-angle spinning solid-state NMR spectroscopy

6 July 2018

1 reference

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Enzymological and structural studies of the mechanism of promiscuous substrate recognition by the oxidative DNA repair enzyme AlkB

6 July 2018

1 reference

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The flexibility of a distant loop modulates active site motion and product release in ribonuclease A.

6 July 2018

1 reference

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Structural Analysis of an Open Active Site Conformation of Nonheme Iron Halogenase CytC3

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

Dynamic states of the DNA repair enzyme AlkB regulate product release

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

The FTO (fat mass and obesity associated) gene codes for a novel member of the non-heme dioxygenase superfamily

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

The obesity-associated FTO gene encodes a 2-oxoglutarate-dependent nucleic acid demethylase

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

Direct spectroscopic evidence for a high-spin Fe(IV) intermediate in tyrosine hydroxylase

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

Direct spectroscopic detection of a C-H-cleaving high-spin Fe(IV) complex in a prolyl-4-hydroxylase

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

The dynamic energy landscape of dihydrofolate reductase catalysis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

Structural studies on 2-oxoglutarate oxygenases and related double-stranded beta-helix fold proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

Crystal structures of catalytic complexes of the oxidative DNA/RNA repair enzyme AlkB

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

The approach to the Michaelis complex in lactate dehydrogenase: the substrate binding pathway

6 July 2018

1 reference

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FeII/alpha-ketoglutarate-dependent hydroxylases and related enzymes

6 July 2018

1 reference

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Phylogenomic identification of five new human homologs of the DNA repair enzyme AlkB

6 July 2018

1 reference

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Minimal methylated substrate and extended substrate range of Escherichia coli AlkB protein, a 1-methyladenine-DNA dioxygenase

6 July 2018

1 reference

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Reversal of DNA alkylation damage by two human dioxygenases

6 July 2018

1 reference

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AlkB-mediated oxidative demethylation reverses DNA damage in Escherichia coli

6 July 2018

1 reference

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Oxidative demethylation by Escherichia coli AlkB directly reverts DNA base damage

6 July 2018

1 reference

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The DNA-repair protein AlkB, EGL-9, and leprecan define new families of 2-oxoglutarate- and iron-dependent dioxygenases

6 July 2018

1 reference

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Defective processing of methylated single-stranded DNA by E. coli AlkB mutants

6 July 2018

1 reference

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A step toward the prediction of the fluorescence lifetimes of tryptophan residues in proteins based on structural and spectral data.

6 July 2018

1 reference

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Structural and mechanistic studies on 2-oxoglutarate-dependent oxygenases and related enzymes

6 July 2018

1 reference

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Loop and subdomain movements in the mechanism of Escherichia coli dihydrofolate reductase: crystallographic evidence

6 July 2018

1 reference

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Denaturant m values and heat capacity changes: relation to changes in accessible surface areas of protein unfolding

6 July 2018

1 reference

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NMRPipe: a multidimensional spectral processing system based on UNIX pipes

6 July 2018

1 reference

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Coupling of local folding to site-specific binding of proteins to DNA

6 July 2018

1 reference

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A general enhancement scheme in heteronuclear multidimensional NMR employing pulsed field gradients

6 July 2018

1 reference

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Dynamics of the flexible loop of triosephosphate isomerase: the loop motion is not ligand gated

6 July 2018

1 reference

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A new gene (alkB) of Escherichia coli that controls sensitivity to methyl methane sulfonate

6 July 2018

1 reference

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Ascorbate is consumed stoichiometrically in the uncoupled reactions catalyzed by prolyl 4-hydroxylase and lysyl hydroxylase

6 July 2018

1 reference

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Mechanism of the Prolyl Hydroxylase Reaction. 2. Kinetic Analysis of the Reaction Sequence

6 July 2018

1 reference

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Kinetic study of thymine 7-hydroxylase from Neurospora crassa

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4207975

The first direct characterization of a high-valent iron intermediate in the reaction of an alpha-ketoglutarate-dependent dioxygenase: a high-spin FeIV complex in taurine/alpha-ketoglutarate dioxygenase (TauD) from Escherichia coli

6 July 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Kinetic dissection of the catalytic mechanism of taurine:alpha-ketoglutarate dioxygenase (TauD) from Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Steady-state and transient kinetic analyses of taurine/alpha-ketoglutarate dioxygenase: effects of oxygen concentration, alternative sulfonates, and active-site variants on the FeIV-oxo intermediate

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Evidence for hydrogen abstraction from C1 of taurine by the high-spin Fe(IV) intermediate detected during oxygen activation by taurine:alpha-ketoglutarate dioxygenase (TauD).

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

EXAFS spectroscopic evidence for an Fe=O unit in the Fe(IV) intermediate observed during oxygen activation by taurine:alpha-ketoglutarate dioxygenase

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Direct detection of oxygen intermediates in the non-heme Fe enzyme taurine/alpha-ketoglutarate dioxygenase.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Changes in protein dynamics of the DNA repair dioxygenase AlkB upon binding of Fe(2+) and 2-oxoglutarate.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Flexibility and function in HIV-1 protease

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Linkage between dynamics and catalysis in a thermophilic-mesophilic enzyme pair

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

A DFT study of nucleobase dealkylation by the DNA repair enzyme AlkB.

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

A 1H-NMR thermometer suitable for cryoprobes.

21 January 2018

1 reference

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IPython: A System for Interactive Scientific Computing

21 January 2018

1 reference

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Principles of Fluorescence Spectroscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Stopped-Flow Kinetic Analysis ofEscherichia coliTaurine/α-Ketoglutarate Dioxygenase: Interactions with α-Ketoglutarate, Taurine, and Oxygen†

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

SOFAST-HMQC Experiments for Recording Two-dimensional Deteronuclear Correlation Spectra of Proteins within a Few Seconds

21 January 2018

1 reference

https://api.crossref.org/works/10.1074%2FJBC.M114.575647

Probing side-chain dynamics in the proteasome by relaxation violated coherence transfer NMR spectroscopy

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25043760

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Solution NMR and computer simulation studies of active site loop motion in triosephosphate isomerase

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25043760

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1074/JBC.M114.575647

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25043760%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

25043760

1 reference