Evidence map›Paper›PMID 23159739›Full record

ArticleMolecular cell2013

Structural switch of lysyl-tRNA synthetase between translation and transcription.

Yifat Ofir-Birin, Pengfei Fang, Steven P Bennett, Hui-Min Zhang, Jing Wang, Inbal Rachmin, Ryan Shapiro, Jing Song, Arie Dagan, Jorge Pozo and 7 more

Open access · greenAbstract read
In one paragraph

Article in Molecular cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.

0numbers the graph read from it
0cells of the map it votes in
86citing papers in PubMed
4.4field-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

86 citing papers in PubMed, 139 citations in OpenAlex.

  1. Detection and sequencing of ApProceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  2. Review
  3. Review
  4. Article
  5. Article
  6. Structural basis for aminoacylation of cellular modified tRNAbioRxiv : the preprint server for biology · 2024
    Article
  7. Article
  8. Review
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26 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

17 authors at 4 institutions in 3 countries.

Yifat Ofir-BirinDepartment of Biochemistry and Molecular Biology, The Institute for Medical Research Israel-Canada, The Hebrew University-Hadassah Medical School, Jerusalem 91120, Israel.
Pengfei Fang
Steven P Bennett
Hui-Min Zhang
Jing Wang
Inbal Rachmin
Ryan Shapiro
Jing Song
Arie Dagan
Jorge Pozo
Sunghoon Kim
Alan G Marshall
Paul Schimmel
Xiang-Lei Yang
Hovav Nechushtan
Ehud Razin
Min Guo
Scripps Research Institute · USFlorida State University · USHadassah Medical Center · ILSeoul National University · KR

Funding

ZWITTERION SURFACTANT DDMAB FOR IMPROV STABIL OF PROTEINP41RR001209 · NCRR · STANFORD UNIVERSITY · PI GONZALEZ, ANA M · 1985 to 2011
$38.9M
GENETIC APPROACHES TO PROTEIN/NUCLEIC ACID INTERACTIONSR01GM023562 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI SCHIMMEL, PAUL R · 1985 to 2012
$4.9M
Extra-translational roles of aminoacyl tRNA synthetases in connection to diseaseR01GM088278 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI YANG, XIANG-LEI · 2010 to 2019
$3.7M
Structural and Functional Studies of LysRS in Mast Cell ActivationR01GM100136 · NIGMS · SCRIPPS FLORIDA · PI KODADEK, THOMAS J. · 2012 to 2016
$1.9M
Structural Mapping of Protein Complexes by Hydrogen/Deuterium ExchangeR01GM078359 · NIGMS · FLORIDA STATE UNIVERSITY · PI MARSHALL, ALAN G · 2006 to 2009
$1.2M
Development of Assays for Inhibitors of LysRS in Mast Cell ActivationR01GM106134 · NIGMS · SCRIPPS FLORIDA · PI GUO, MIN · 2013 to 2015
$1.1M
NCRR NIH HHS P41 RR001209NIGMS NIH HHS GM088278NIGMS NIH HHS GM100136NIGMS NIH HHS GM23562NIGMS NIH HHS GM78359NIGMS NIH HHS R01 GM023562NIGMS NIH HHS R01 GM078359NIGMS NIH HHS R01 GM088278NIGMS NIH HHS R01 GM100136NIGMS NIH HHS R01 GM106134
6 · The paper itself

Abstract

Lysyl-tRNA synthetase (LysRS), a component of the translation apparatus, is released from the cytoplasmic multi-tRNA synthetase complex (MSC) to activate the transcription factor MITF in stimulated mast cells through undefined mechanisms. Here we show that Ser207 phosphorylation provokes a new conformer of LysRS that inactivates its translational function but activates its transcriptional function. The crystal structure of an MSC subcomplex established that LysRS is held in the MSC by binding to the N terminus of the scaffold protein p38/AIMP2. Phosphorylation-created steric clashes at the LysRS domain interface disrupt its binding grooves for p38/AIMP2, releasing LysRS and provoking its nuclear translocation. This alteration also exposes the C-terminal domain of LysRS to bind to MITF and triggers LysRS-directed production of the second messenger Ap(4)A that activates MITF. Thus our results establish that a single conformational change triggered by phosphorylation leads to multiple effects driving an exclusive switch of LysRS function from translation to transcription.

Indexed as

Protein BiosynthesisTranscription, GeneticAmino Acid MotifsAmino Acid SequenceAmino Acid SubstitutionAnimalsCarrier ProteinsCell LineConserved SequenceCrystallography, X-RayDinucleoside PhosphatesHumansLysine-tRNA LigaseMast CellsMicrophthalmia-Associated Transcription FactorModels, MolecularAIMP2 protein, humanCarrier Proteinsdiadenosine tetraphosphateDinucleoside PhosphatesLysine-tRNA LigaseMicrophthalmia-Associated Transcription FactorMITF protein, humanNuclear Proteins

Identifiers

PMID23159739
PMCPMC3766370
OpenAlexW1976701350

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.