Evidence map›Paper›PMID 33827808›Full record

ArticleScience advances2021

Structure of TFIIK for phosphorylation of CTD of RNA polymerase II.

Trevor van Eeuwen, Tao Li, Hee Jong Kim, Jose J Gorbea Colón, Mitchell I Parker, Roland L Dunbrack, Benjamin A Garcia, Kuang-Lei Tsai, Kenji Murakami

Abstract read
In one paragraph

Article in Science advances, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 citing papers in PubMed.

  1. The molecular basis of transcription initiation by RNA polymerase II.Nature reviews. Molecular cell biology · 2026
    Review
  2. Article
  3. Review
  4. Article
  5. Review
  6. Article
  7. Structural basis of Cdk7 activation by dual T-loop phosphorylation.bioRxiv : the preprint server for biology · 2024
    Article
  8. Article
  9. Article
  10. Review
  11. Article
  12. 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.

Trevor van EeuwenDepartment of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0003-0549-1702
Tao LiDepartment of Biochemistry and Molecular Biology, McGovern Medical School, University of Texas Health Science Center at Houston, Houston, TX 77030, USA.ORCID 0000-0003-3672-6906
Hee Jong KimDepartment of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-0823-5301
Jose J Gorbea ColónDepartment of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-6327-5672
Mitchell I ParkerInstitute for Cancer Research, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.ORCID 0000-0003-1223-3904
Roland L DunbrackInstitute for Cancer Research, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.ORCID 0000-0001-7674-6667
Benjamin A GarciaDepartment of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Kuang-Lei TsaiDepartment of Biochemistry and Molecular Biology, McGovern Medical School, University of Texas Health Science Center at Houston, Houston, TX 77030, USA. kenjim@pennmedicine.upenn.edu kuang-lei.tsai@uth.tmc.edu.ORCID 0000-0002-5428-4219
Kenji MurakamiDepartment of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. kenjim@pennmedicine.upenn.edu kuang-lei.tsai@uth.tmc.edu.ORCID 0000-0002-2017-5575

Funding

WORD PROCESSING CENTER--COREP30CA006927 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI Dietmar J Kappes · 1985 to 2026
$138.8M
STRUCTURAL BASIS FOR EPIGENETICS IN AGING AND LONGEVITYP01AG031862 · NIA · WISTAR INSTITUTE · PI ADAMS, PETER D. · 2008 to 2022
$28.3M
Shared Resources Core 2: Quantitative Proteomics CoreP01CA196539 · NCI · ROCKEFELLER UNIVERSITY · PI MUIR, TOM · 2015 to 2024
$17.6M
Structural Bioinformatics of Proteins and Protein Complexes and Applications to Cancer BiologyR35GM122517 · NIGMS · RESEARCH INST OF FOX CHASE CAN CTR · PI ROLAND L DUNBRACK · 2017 to 2026
$6.3M
STRUCTURAL BIOLOGY TRAINING PROGRAMT32GM008275 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI WAND, A. JOSHUA · 1988 to 2018
$6.0M
Viral modulation of epitranscriptomic mechanismsR01AI118891 · NIAID · WASHINGTON UNIVERSITY · PI GARCIA, BENJAMIN A, WEITZMAN, MATTHEW D. · 2015 to 2025
$5.4M
Functional and structural studies of the transition from transcription initiation to elongationR01GM123233 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI MURAKAMI, KENJI · 2017 to 2025
$3.6M
Predoctoral Training at the Chemistry-Biology InterfaceT32GM071339 · NIGMS · WISTAR INSTITUTE · PI MARMORSTEIN, RONEN, SPEICHER, DAVID W. · 2005 to 2019
$3.2M
Understanding the Role of Combinatorial Histone PTM PatternsR01GM110174 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI GARCIA, BENJAMIN A · 2014 to 2017
$1.3M
Computational Resource for Structural Biology and Molecular BiophysicsS10OD023592 · OD · UNIVERSITY OF PENNSYLVANIA · PI SHARP, KIM A · 2017 to 2017
$402k
NCI NIH HHS P01 CA196539NCI NIH HHS P30 CA006927NIAID NIH HHS R01 AI118891NIA NIH HHS P01 AG031862NIGMS NIH HHS R01 GM110174NIGMS NIH HHS R01 GM123233NIGMS NIH HHS R35 GM122517NIGMS NIH HHS T32 GM008275NIGMS NIH HHS T32 GM071339NIH HHS S10 OD023592
6 · The paper itself

Abstract

During transcription initiation, the general transcription factor TFIIH marks RNA polymerase II by phosphorylating Ser5 of the carboxyl-terminal domain (CTD) of Rpb1, which is followed by extensive modifications coupled to transcription elongation, mRNA processing, and histone dynamics. We have determined a 3.5-Å resolution cryo-electron microscopy (cryo-EM) structure of the TFIIH kinase module (TFIIK in yeast), which is composed of Kin28, Ccl1, and Tfb3, yeast homologs of CDK7, cyclin H, and MAT1, respectively. The carboxyl-terminal region of Tfb3 was lying at the edge of catalytic cleft of Kin28, where a conserved Tfb3 helix served to stabilize the activation loop in its active conformation. By combining the structure of TFIIK with the previous cryo-EM structure of the preinitiation complex, we extend the previously proposed model of the CTD path to the active site of TFIIK.

Identifiers

PMID33827808
PMCPMC8026125

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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.