Evidence map›Paper›PMID 30190596›Full record

ArticleNature structural & molecular biology2018

Architecture of Pol II(G) and molecular mechanism of transcription regulation by Gdown1.

Miki Jishage, Xiaodi Yu, Yi Shi, Sai J Ganesan, Wei-Yi Chen, Andrej Sali, Brian T Chait, Francisco J Asturias, Robert G Roeder

Open access · greenAbstract read
In one paragraph

Article in Nature structural & molecular biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed
1.9field-weighted citation impact, top 14% 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

27 citing papers in PubMed, 37 citations in OpenAlex.

  1. The molecular basis of transcription initiation by RNA polymerase II.Nature reviews. Molecular cell biology · 2026
    Review
  2. Article
  3. Article
  4. Article
  5. Structure of cytoplasmic RNA polymerase II.Nature communications · 2026
    Article
  6. Article
  7. Review
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Cells · 2022
    Review
  14. Review
  15. Article
  16. Reconstitution of Pol II (G) responsive form of the human Mediator complex.Turkish journal of biology = Turk biyoloji dergisi · 2021
    Article
  17. Review
  18. microPublication biology · 2020
    Article
  19. Article
  20. Article
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

9 authors at 5 institutions in 2 countries.

Miki JishageLaboratory of Biochemistry and Molecular Biology, The Rockefeller University, New York, NY, USA.
Xiaodi YuDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, San Diego, CA, USA.
Yi ShiLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, USA.
Sai J GanesanDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA, USA.ORCID http://orcid.org/0000-0002-8335-2866
Wei-Yi ChenLaboratory of Biochemistry and Molecular Biology, The Rockefeller University, New York, NY, USA.
Andrej SaliDepartment of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, CA, USA.
Brian T ChaitLaboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, NY, USA.ORCID http://orcid.org/0000-0003-3524-557X
Francisco J AsturiasDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, San Diego, CA, USA.
Robert G RoederLaboratory of Biochemistry and Molecular Biology, The Rockefeller University, New York, NY, USA. roeder@mail.rockefeller.edu.ORCID http://orcid.org/0000-0003-3865-8572
Rockefeller University · USQB3 · USScripps Research Institute · USNational Yang Ming Chiao Tung University · TWUniversity of Pittsburgh · US

Funding

TR&D Project 4. The Imaging Stage: Multiscale Spatiotemporal Modeling of Macromolecular Systems in Cellular NeighborhoodsP41GM109824 · NIGMS · ROCKEFELLER UNIVERSITY · PI ROUT, MICHAEL P · 2014 to 2023
$18.8M
National Resource for Mass Spectrom of Biological MacromoleculesP41GM103314 · NIGMS · ROCKEFELLER UNIVERSITY · PI CHAIT, BRIAN T · 2012 to 2017
$9.9M
STRUCTURAL STUDIES OF EUKARYOTIC TRANSCRIPTIONR01GM067167 · NIGMS · UNIVERSITY OF COLORADO DENVER · PI ASTURIAS, FRANCISCO J · 2003 to 2025
$9.2M
Nuclear Receptor Coactivator Functions and MechanismsR01DK071900 · NIDDK · ROCKEFELLER UNIVERSITY · PI ROEDER, ROBERT G · 2005 to 2015
$5.9M
IMP: Software for Hybrid Determination of Macromolecular Assembly StructuresR01GM083960 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2008 to 2024
$5.2M
Biological roles and Mediator-dependent transcription mechanisms of RNA polymerase II(G)R01CA202245 · NCI · ROCKEFELLER UNIVERSITY · PI ROEDER, ROBERT G · 2016 to 2020
$1.9M
High Performance Computer for Computational BiosciencesS10OD021596 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SALI, ANDREJ · 2016 to 2016
$443k
NCI NIH HHS R01 CA202245NIDDK NIH HHS R01 DK071900NIGMS NIH HHS P41 GM103314NIGMS NIH HHS P41 GM109824NIGMS NIH HHS R01 GM067167NIGMS NIH HHS R01 GM083960NIH HHS S10 OD021596
6 · The paper itself

Abstract

Tight binding of Gdown1 represses RNA polymerase II (Pol II) function in a manner that is reversed by Mediator, but the structural basis of these processes is unclear. Although Gdown1 is intrinsically disordered, its Pol II interacting domains were localized and shown to occlude transcription factor IIF (TFIIF) and transcription factor IIB (TFIIB) binding by perfect positioning on their Pol II interaction sites. Robust binding of Gdown1 to Pol II is established by cooperative interactions of a strong Pol II binding region and two weaker binding modulatory regions, thus providing a mechanism both for tight Pol II binding and transcription inhibition and for its reversal. In support of a physiological function for Gdown1 in transcription repression, Gdown1 co-localizes with Pol II in transcriptionally silent nuclei of early Drosophila embryos but re-localizes to the cytoplasm during zygotic genome activation. Our study reveals a self-inactivation through Gdown1 binding as a unique mode of repression in Pol II function.

Indexed as

Gene Expression RegulationTranscription, GeneticAnimalsBinding SitesCryoelectron MicroscopyDrosophila melanogasterHeLa CellsHumansRNA Polymerase IITranscription Factors, TFIIPOLR2M protein, humanRNA Polymerase IITranscription Factors, TFII

Identifiers

PMID30190596
PMCPMC6298426
OpenAlexW2889553071

What OpenQuestion holds

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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.