Evidence map›Paper›PMID 25918376›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2015

Homologous trans-editing factors with broad tRNA specificity prevent mistranslation caused by serine/threonine misactivation.

Ziwei Liu, Oscar Vargas-Rodriguez, Yuki Goto, Eva Maria Novoa, Lluís Ribas de Pouplana, Hiroaki Suga, Karin Musier-Forsyth

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.

0numbers the graph read from it
0cells of the map it votes in
29citing 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

29 citing papers in PubMed.

  1. Article
  2. Copper-induced stress mechanisms inApplied and environmental microbiology · 2025
    Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Frontiers in microbiology · 2024
    Article
  10. Review
  11. Article
  12. Review
  13. Article
  14. Article
  15. Article
  16. Article
  17. Aminoacyl-tRNA synthetases.RNA (New York, N.Y.) · 2020
    Review
  18. 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

7 authors.

Ziwei LiuDepartment of Chemistry and Biochemistry and Center for RNA Biology, The Ohio State University, Columbus, OH 43210;
Oscar Vargas-RodriguezDepartment of Chemistry and Biochemistry and Center for RNA Biology, The Ohio State University, Columbus, OH 43210;
Yuki GotoDepartment of Chemistry, Graduate School of Science, The University of Tokyo, Tokyo 113-0033, Japan;
Eva Maria NovoaInstitute for Research in Biomedicine, 08028 Barcelona, Catalonia, Spain; and.
Lluís Ribas de PouplanaInstitute for Research in Biomedicine, 08028 Barcelona, Catalonia, Spain; and Catalan Institution for Research and Advanced Studies, 08010 Barcelona, Catalonia, Spain.
Hiroaki SugaDepartment of Chemistry, Graduate School of Science, The University of Tokyo, Tokyo 113-0033, Japan;
Karin Musier-ForsythDepartment of Chemistry and Biochemistry and Center for RNA Biology, The Ohio State University, Columbus, OH 43210; musier@chemistry.ohio-state.edu.

Funding

CLASS II AMINOACYL-TRNA SYNTHETASE SUBSTRATE RECOGNITIONR01GM049928 · NIGMS · UNIVERSITY OF MINNESOTA TWIN CITIES · PI MUSIER-FORSYTH, KARIN M · 1996 to 2012
$4.0M
Translational quality control by trans-editing domainsR01GM113656 · NIGMS · OHIO STATE UNIVERSITY · PI MUSIER-FORSYTH, KARIN M · 2015 to 2018
$1.1M
NIGMS NIH HHS R01 GM049928NIGMS NIH HHS R01 GM113656
6 · The paper itself

Abstract

Aminoacyl-tRNA synthetases (ARSs) establish the rules of the genetic code, whereby each amino acid is attached to a cognate tRNA. Errors in this process lead to mistranslation, which can be toxic to cells. The selective forces exerted by species-specific requirements and environmental conditions potentially shape quality-control mechanisms that serve to prevent mistranslation. A family of editing factors that are homologous to the editing domain of bacterial prolyl-tRNA synthetase includes the previously characterized trans-editing factors ProXp-ala and YbaK, which clear Ala-tRNA(Pro) and Cys-tRNA(Pro), respectively, and three additional homologs of unknown function, ProXp-x, ProXp-y, and ProXp-z. We performed an in vivo screen of 230 conditions in which an Escherichia coli proXp-y deletion strain was grown in the presence of elevated levels of amino acids and specific ARSs. This screen, together with the results of in vitro deacylation assays, revealed Ser- and Thr-tRNA deacylase function for this homolog. A similar activity was demonstrated for Bordetella parapertussis ProXp-z in vitro. These proteins, now renamed "ProXp-ST1" and "ProXp-ST2," respectively, recognize multiple tRNAs as substrates. Taken together, our data suggest that these free-standing editing domains have the ability to prevent mistranslation errors caused by a number of ARSs, including lysyl-tRNA synthetase, threonyl-tRNA synthetase, seryl-tRNA synthetase, and alanyl-tRNA synthetase. The expression of these multifunctional enzymes is likely to provide a selective growth advantage to organisms subjected to environmental stresses and other conditions that alter the amino acid pool.

Indexed as

Protein BiosynthesisRNA EditingAmino AcidsAmino Acyl-tRNA SynthetasesBacillusCatalysisCell ProliferationComputational BiologyEscherichia coliHydrolysisProtein Structure, TertiaryReproducibility of ResultsRNA, TransferSerineSubstrate SpecificityTemperatureAmino AcidsAmino Acyl-tRNA SynthetasesRNA, TransferSerineThreonineaminoacyl tRNA synthetaseprotein synthesisProXpquality controltrans-editing

Identifiers

PMID25918376
PMCPMC4434731

What OpenQuestion holds

Textmetadata
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.