Evidence map›Paper›PMID 25063302›Full record

ArticleNucleic acids research2014

Discovery of the β-barrel-type RNA methyltransferase responsible for N6-methylation of N6-threonylcarbamoyladenosine in tRNAs.

Satoshi Kimura, Kenjyo Miyauchi, Yoshiho Ikeuchi, Patrick C Thiaville, Valérie de Crécy-Lagard, Tsutomu Suzuki

Open access · goldAbstract read
In one paragraph

Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.

0numbers the graph read from it
0cells of the map it votes in
50citing papers in PubMed
1.7field-weighted citation impact, top 16% 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

50 citing papers in PubMed, 58 citations in OpenAlex.

  1. Compendium of RNA modifications for bacterial stress adaptation.Microbiology and molecular biology reviews : MMBR · 2026
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  6. Genetically Predicted tClinical, cosmetic and investigational dermatology · 2026
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  12. The modification landscape ofRNA (New York, N.Y.) · 2024
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  13. The modification landscape ofbioRxiv : the preprint server for biology · 2024
    Article
  14. Review
  15. Structural Analysis of Spermidine Synthase fromMolecules (Basel, Switzerland) · 2023
    Article
  16. Review
  17. Article
  18. Conservation and Diversification of tRNA tInternational journal of molecular sciences · 2022
    Review
  19. Arsenite toxicity is regulated by queuine availability and oxidation-induced reprogramming of the human tRNA epitranscriptome.Proceedings of the National Academy of Sciences of the United States of America · 2022
    Article
  20. Methyltransferases: Functions and Applications.Chembiochem : a European journal of chemical biology · 2022
    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

6 authors at 3 institutions in 3 countries.

Satoshi KimuraDepartment of Chemistry and Biotechnology, Graduate School of Engineering, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan.
Kenjyo MiyauchiDepartment of Chemistry and Biotechnology, Graduate School of Engineering, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan.
Yoshiho IkeuchiDepartment of Chemistry and Biotechnology, Graduate School of Engineering, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan.
Patrick C ThiavilleGenetics and Genomics Graduate Program University of Florida Genetics Institute Department of Microbiology, University of Florida, Gainesville, Florida 32611-0700, USA Institut de Génétique et Microbiologie, Université of Paris-Sud, Orsay, France.
Valérie de Crécy-LagardUniversity of Florida Genetics Institute Department of Microbiology, University of Florida, Gainesville, Florida 32611-0700, USA.
Tsutomu SuzukiDepartment of Chemistry and Biotechnology, Graduate School of Engineering, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan ts@chembio.t.u-tokyo.ac.jp.
The University of Tokyo · JPInstitut thématique Génétique, génomique et bioinformatique · FRUniversity of Florida · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Methylation is a versatile reaction involved in the synthesis and modification of biologically active molecules, including RNAs. N(6)-methyl-threonylcarbamoyl adenosine (m(6)t(6)A) is a post-transcriptional modification found at position 37 of tRNAs from bacteria, insect, plants, and mammals. Here, we report that in Escherichia coli, yaeB (renamed as trmO) encodes a tRNA methyltransferase responsible for the N(6)-methyl group of m(6)t(6)A in tRNA(Thr) specific for ACY codons. TrmO has a unique single-sheeted β-barrel structure and does not belong to any known classes of methyltransferases. Recombinant TrmO employs S-adenosyl-L-methionine (AdoMet) as a methyl donor to methylate t(6)A to form m(6)t(6)A in tRNA(Thr). Therefore, TrmO/YaeB represents a novel category of AdoMet-dependent methyltransferase (Class VIII). In a ΔtrmO strain, m(6)t(6)A was converted to cyclic t(6)A (ct(6)A), suggesting that t(6)A is a common precursor for both m(6)t(6)A and ct(6)A. Furthermore, N(6)-methylation of t(6)A enhanced the attenuation activity of the thr operon, suggesting that TrmO ensures efficient decoding of ACY. We also identified a human homolog, TRMO, indicating that m(6)t(6)A plays a general role in fine-tuning of decoding in organisms from bacteria to mammals.

Indexed as

AdenosineBinding SitesCodonEscherichia coli ProteinsHeLa CellsHumansMethylationProteinsRNA, Transfer, SerRNA, Transfer, ThrS-AdenosylmethionineSubstrate SpecificitytRNA MethyltransferasesAdenosineCodonEscherichia coli ProteinsN6-methyl-N6-threonylcarbamoyladenosineN(6)-(N-threonylcarbonyl)adenosineProteinsRNA, Transfer, SerRNA, Transfer, ThrS-AdenosylmethionineTrmO protein, E coliTRMO protein, humantRNA Methyltransferases

Identifiers

PMID25063302
PMCPMC4132733
OpenAlexW2116882419

What OpenQuestion holds

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LicenceCC BY
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.