Evidence map›Paper›PMID 29626214›Full record

ArticleNature communications2018

Cryptic glucocorticoid receptor-binding sites pervade genomic NF-κB response elements.

William H Hudson, Ian Mitchelle S de Vera, Jerome C Nwachukwu, Emily R Weikum, Austin G Herbst, Qin Yang, David L Bain, Kendall W Nettles, Douglas J Kojetin, Eric A Ortlund

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 71 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
71citing papers in PubMed, 2 pooled it
4.0field-weighted citation impact, top 5% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

71 citing papers in PubMed, 2 syntheses or guidelines pooled it, 129 citations in OpenAlex.

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11 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors at 3 institutions in 1 country.

William H HudsonDepartment of Biochemistry, Emory University School of Medicine, Atlanta, Georgia, 30322, USA.
Ian Mitchelle S de VeraDepartment of Molecular Therapeutics, The Scripps Research Institute, Jupiter, Florida, 33458, USA.
Jerome C NwachukwuDepartment of Integrated Structural and Computational Biology, The Scripps Research Institute, Jupiter, Florida, 33458, USA.ORCID http://orcid.org/0000-0003-4313-9187
Emily R WeikumDepartment of Biochemistry, Emory University School of Medicine, Atlanta, Georgia, 30322, USA.
Austin G HerbstDepartment of Biochemistry, Emory University School of Medicine, Atlanta, Georgia, 30322, USA.
Qin YangDepartment of Pharmaceutical Sciences, University of Colorado Anschutz Medical Campus, Aurora, Colorado, 80045​, USA.
David L BainDepartment of Pharmaceutical Sciences, University of Colorado Anschutz Medical Campus, Aurora, Colorado, 80045​, USA.
Kendall W NettlesDepartment of Integrated Structural and Computational Biology, The Scripps Research Institute, Jupiter, Florida, 33458, USA.
Douglas J KojetinDepartment of Molecular Therapeutics, The Scripps Research Institute, Jupiter, Florida, 33458, USA.ORCID http://orcid.org/0000-0001-8058-6168
Eric A OrtlundDepartment of Biochemistry, Emory University School of Medicine, Atlanta, Georgia, 30322, USA. eortlun@emory.edu.
Emory University · USScripps Research Institute · USUniversity of Colorado Anschutz Medical Campus · US

Funding

Graduate Training in the Pharmacological StudiesT32GM008602 · NIGMS · EMORY UNIVERSITY · PI HALL, RANDY A. · 1996 to 2021
$5.1M
Structure and Function of Alternate-Site Binding of Anti-Diabetic PPARG LigandsR01DK101871 · NIDDK · SCRIPPS FLORIDA · PI KOJETIN, DOUGLAS · 2014 to 2018
$2.1M
Targeting LRH-1 - Phospholipid Signaling in Metabolic PathwaysR01DK095750 · NIDDK · EMORY UNIVERSITY · PI ORTLUND, ERIC A · 2012 to 2016
$1.7M
Structural mechanism and function of endogenous ligands targeting orphan NR4A receptorsR01GM114420 · NIGMS · SCRIPPS FLORIDA · PI KOJETIN, DOUGLAS · 2015 to 2018
$1.5M
A Novel Mechanism for the Glucocorticoid Receptor in Inflammatory Gene RegulationF31GM113397 · NIGMS · EMORY UNIVERSITY · PI WEIKUM, EMILY RYE · 2015 to 2017
$111k
NIDDK NIH HHS R01 DK095750NIDDK NIH HHS R01 DK101871NIGMS NIH HHS F31 GM113397NIGMS NIH HHS R01 GM114420NIGMS NIH HHS T32 GM008602
6 · The paper itself

Abstract

Glucocorticoids (GCs) are potent repressors of NF-κB activity, making them a preferred choice for treatment of inflammation-driven conditions. Despite the widespread use of GCs in the clinic, current models are inadequate to explain the role of the glucocorticoid receptor (GR) within this critical signaling pathway. GR binding directly to NF-κB itself-tethering in a DNA binding-independent manner-represents the standing model of how GCs inhibit NF-κB-driven transcription. We demonstrate that direct binding of GR to genomic NF-κB response elements (κBREs) mediates GR-driven repression of inflammatory gene expression. We report five crystal structures and solution NMR data of GR DBD-κBRE complexes, which reveal that GR recognizes a cryptic response element between the binding footprints of NF-κB subunits within κBREs. These cryptic sequences exhibit high sequence and functional conservation, suggesting that GR binding to κBREs is an evolutionarily conserved mechanism of controlling the inflammatory response.

Indexed as

Response ElementsAmino Acid SubstitutionAnimalsBinding SitesCrystallography, X-RayHEK293 CellsHeLa CellsHumansModels, MolecularMutagenesis, Site-DirectedNF-kappa BNuclear Magnetic Resonance, BiomolecularReceptors, GlucocorticoidTumor Necrosis Factor-alphaNF-kappa BReceptors, GlucocorticoidTumor Necrosis Factor-alpha

Identifiers

PMID29626214
PMCPMC5889392
OpenAlexW2796206050

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.