Evidence map›Paper›PMID 23303183›Full record

ArticleThe Journal of biological chemistry2013

Formation and fate of a complete 31-protein RNA polymerase II transcription preinitiation complex.

Kenji Murakami, Guillermo Calero, Christopher R Brown, Xin Liu, Ralph E Davis, Hinrich Boeger, Roger D Kornberg

Abstract read
In one paragraph

Article in The Journal of biological chemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing 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

24 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Dynamics of RNA polymerase II and elongation factor Spt4/5 recruitment during activator-dependent transcription.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  6. Article
  7. Review
  8. The capping enzyme facilitates promoter escape and assembly of a follow-on preinitiation complex for reinitiation.Proceedings of the National Academy of Sciences of the United States of America · 2019
    Article
  9. The TAFs of TFIID Bind and Rearrange the Topology of the TATA-LessInternational journal of molecular sciences · 2019
    Article
  10. Article
  11. Def1 interacts with TFIIH and modulates RNA polymerase II transcription.Proceedings of the National Academy of Sciences of the United States of America · 2017
    Article
  12. Article
  13. Chromatin potentiates transcription.Proceedings of the National Academy of Sciences of the United States of America · 2017
    Article
  14. Article
  15. Structure of an RNA polymerase II preinitiation complex.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  16. Article
  17. Article
  18. Article
  19. Review
  20. Review
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

7 authors.

Kenji MurakamiDepartment of Structural Biology, Stanford University, Stanford, California 94305, USA.
Guillermo Calero
Christopher R Brown
Xin Liu
Ralph E Davis
Hinrich Boeger
Roger D Kornberg

Funding

Structure of the Eukaryote Transcription ApparatusR01AI021144 · NIAID · STANFORD UNIVERSITY · PI KORNBERG, ROGER D · 1985 to 2018
$10.3M
RNA POLYMERASE II TRANSCRIPTION SYSTEM FROM YEASTR01GM036659 · NIGMS · STANFORD UNIVERSITY · PI KORNBERG, ROGER D · 1986 to 2016
$4.7M
RNA POLYMERASE II TRANSCRIPTION SYSTEM FROM YEASTR37GM036659 · NIGMS · STANFORD UNIVERSITY · PI KORNBERG, ROGER D · 1998 to 2008
$4.6M
NIAID NIH HHS AI21144NIAID NIH HHS R01 AI021144NIGMS NIH HHS GM36659NIGMS NIH HHS R01 GM036659NIGMS NIH HHS R37 GM036659
6 · The paper itself

Abstract

Whereas individual RNA polymerase II (pol II)-general transcription factor (GTF) complexes are unstable, an assembly of pol II with six GTFs and promoter DNA could be isolated in abundant homogeneous form. The resulting complete pol II transcription preinitiation complex (PIC) contained equimolar amounts of all 31 protein components. An intermediate in assembly, consisting of four GTFs and promoter DNA, could be isolated and supplemented with the remaining components for formation of the PIC. Nuclease digestion and psoralen cross-linking mapped the PIC between positions -70 and -9, centered on the TATA box. Addition of ATP to the PIC resulted in quantitative conversion to an open complex, which retained all 31 proteins, contrary to expectation from previous studies. Addition of the remaining NTPs resulted in run-off transcription, with an efficiency that was promoter-dependent and was as great as 17.5% with the promoters tested.

Indexed as

DNA, FungalPromoter Regions, GeneticRNA Polymerase IISaccharomyces cerevisiaeTranscription FactorsTranscription, GeneticDNA, FungalRNA Polymerase IITranscription Factors

Identifiers

PMID23303183
PMCPMC3585067

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.