Evidence map›Paper›PMID 40138658›Full record

ArticleRNA (New York, N.Y.)2025

tRNA pseudouridine synthase D (TruD) from

Ryota Yamagami, Kojiro Takahashi, Shogo Shingu, Miyu Namba, Kohsuke Kamizaki, Hiroyuki Hori

Abstract read
In one paragraph

Article in RNA (New York, N.Y.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Optimized tRNA structure-seq reveals robust tRNA secondary structures inbioRxiv : the preprint server for biology · 2026
    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

6 authors.

Ryota YamagamiDepartment of Applied Chemistry, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan yamagami.ryota.bn@ehime-u.ac.jp hori.hiroyuki@outlook.jp.ORCID 0000-0002-6947-1906
Kojiro TakahashiDepartment of Applied Chemistry, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan.
Shogo ShinguDepartment of Applied Chemistry, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan.
Miyu NambaDepartment of Applied Chemistry, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan.
Kohsuke KamizakiDepartment of Applied Chemistry, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan.
Hiroyuki HoriDepartment of Applied Chemistry, Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan yamagami.ryota.bn@ehime-u.ac.jp hori.hiroyuki@outlook.jp.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Pseudouridine is a modified nucleoside found in various RNA species, including tRNA, rRNA, mRNA, and other noncoding RNAs. Pseudouridine is synthesized from uridine by pseudouridine synthases. While the landscape of pseudouridines in RNA has been extensively studied, much less is known about substrate RNA recognition mechanisms of pseudouridine synthases. Herein, we investigate the tRNA pseudouridine synthase D (TruD), which catalyzes the formation of pseudouridine at position 13 in tRNA

Indexed as

Hydro-LyasesIntramolecular TransferasesRNA, Transfer, AspRNA, Transfer, GlnRNA, Transfer, GluRNA, Transfer, TyrThermus thermophilusBacterial ProteinsPseudouridineRNA, TransferSubstrate SpecificityBacterial ProteinsHydro-LyasesIntramolecular TransferasesPseudouridinepseudouridine synthasespseudouridylate synthetaseRNA, TransferRNA, Transfer, AspRNA, Transfer, GlnRNA, Transfer, GluRNA, Transfer, TyrpseudouridinePus7RNA modificationtRNATruD

Identifiers

PMID40138658
PMCPMC12084886

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.