Evidence map›Paper›PMID 23728292›Full record

ArticleNature structural & molecular biology2013

The glucocorticoid receptor dimer interface allosterically transmits sequence-specific DNA signals.

Lisa C Watson, Kristopher M Kuchenbecker, Benjamin J Schiller, John D Gross, Miles A Pufall, Keith R Yamamoto

Abstract read
In one paragraph

Article in Nature structural & molecular biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 90 papers.

0numbers the graph read from it
0cells of the map it votes in
90citing papers in PubMed
–field-weighted citation impact
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

90 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
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  7. Review
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  9. Review
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  11. Article
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  13. Review
  14. Article
  15. The power of the (imperfect) palindrome: Sequence-specific roles of palindromic motifs in gene regulation.BioEssays : news and reviews in molecular, cellular and developmental biology · 2022
    Review
  16. Review
  17. Review
  18. Glucocorticoid receptor condensates link DNA-dependent receptor dimerization and transcriptional transactivation.Proceedings of the National Academy of Sciences of the United States of America · 2021
    Article
  19. Article
  20. Article

30 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

6 authors.

Lisa C WatsonTetrad Graduate Program, University of California, San Francisco, California, USA.
Kristopher M Kuchenbecker
Benjamin J Schiller
John D Gross
Miles A Pufall
Keith R Yamamoto

Funding

Research BaseP30DK063720 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI VAISSE, CHRISTIAN · 2003 to 2019
$21.8M
STRUCTURAL BIOLOGY TRAINING PROGRAMT32GM008284 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI KORTEMME, TANJA · 1988 to 2022
$10.1M
GENE REGULATION BY STEROID RECEPTOR PROTEINSR01CA020535 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI YAMAMOTO, KEITH ROBERT · 1985 to 2018
$8.9M
TRAINING PROGRAM IN PEDIATRIC GASTROENTEROLOGY/NUTRITIONT32DK007762 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI James Bayrer · 1998 to 2026
$7.3M
Studies in Children with Digestive DisordersK24DK060617 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI HEYMAN, MELVIN B. · 2002 to 2011
$1.6M
PREDOCTORAL TRAINING PROGRAM IN BIOLOGICAL CHEMISTRYT32GM008537 · NIGMS · UNIVERSITY OF UTAH · PI POULTER, CHARLES DALE · 1993 to 2005
$1.4M
The Glucocorticoid Receptor as Signal Integrator: Studying All Drug ResistanceR00CA149088 · NCI · UNIVERSITY OF IOWA · PI PUFALL, MILES A · 2011 to 2013
$699k
The glucocorticoid receptor as signal integrator: studying ALL drug resistanceK99CA149088 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI PUFALL, MILES A · 2010 to 2011
$233k
GENE REGULATION BY STEROID RECEPTOR PROTEINSR37CA020535 · NCI · UNIVERSITY OF CALIFORNIA SAN FRANCISCO · PI YAMAMOTO, KEITH ROBERT · 1990 to 1998
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NCI NIH HHS 5K99CA149088NCI NIH HHS CA020535NCI NIH HHS K99 CA149088NCI NIH HHS R00 CA149088NCI NIH HHS R01 CA020535NCI NIH HHS R37 CA020535NIDDK NIH HHS K24 DK060617NIDDK NIH HHS P30 DK063720NIDDK NIH HHS T32 DK007762NIGMS NIH HHS GM08537NIGMS NIH HHS T32 GM008284NIGMS NIH HHS T32GM008284NIGMS NIH HHS T32 GM008537
6 · The paper itself

Abstract

Glucocorticoid receptor (GR) binds to genomic response elements and regulates gene transcription with cell and gene specificity. Within a response element, the precise sequence to which the receptor binds has been implicated in directing its structure and activity. Here, we use NMR chemical-shift difference mapping to show that nonspecific interactions with bases at particular positions in the binding sequence, such as those of the 'spacer', affect the conformation of distinct regions of the rat GR DNA-binding domain. These regions include the DNA-binding surface, the 'lever arm' and the dimerization interface, suggesting an allosteric pathway that signals between the DNA-binding sequence and the associated dimer partner. Disrupting this pathway by mutating the dimer interface alters sequence-specific conformations, DNA-binding kinetics and transcriptional activity. Our study demonstrates that GR dimer partners collaborate to read DNA shape and to direct sequence-specific gene activity.

Indexed as

Allosteric RegulationAnimalsBase SequenceBinding SitesConsensus SequenceDimerizationDNAElectrophoretic Mobility Shift AssayGenes, ReporterModels, MolecularNuclear Magnetic Resonance, BiomolecularProtein BindingProtein ConformationRatsReceptors, GlucocorticoidRecombinant ProteinsDNAReceptors, GlucocorticoidRecombinant Proteins

Identifiers

PMID23728292
PMCPMC3702670

What OpenQuestion holds

Textmetadata
LicenceTDM
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.