Evidence map›Paper›PMID 41916762›Full record

ArticleRNA (New York, N.Y.)2026

Chronology of tRNA structural dynamics prior to and during interaction with a pseudouridine synthase.

Emily M Dennis, Nico E Conoan Nieves, Madison Kadrmas, Abigail L Vaaler, Margaret L Barry, David M Garcia, Julia R Widom

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in RNA (New York, N.Y.), 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors.

Emily M DennisInstitute of Molecular Biology, University of Oregon, Eugene, Oregon 97403, USA.ORCID 0000-0002-5160-1899
Nico E Conoan NievesDepartment of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403, USA.ORCID 0009-0004-1024-2393
Madison KadrmasDepartment of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon 97403, USA.ORCID 0000-0002-8466-5434
Abigail L VaalerInstitute of Molecular Biology, University of Oregon, Eugene, Oregon 97403, USA.ORCID 0000-0001-6096-9428
Margaret L BarryInstitute of Molecular Biology, University of Oregon, Eugene, Oregon 97403, USA.ORCID 0009-0009-2441-0737
David M GarciaInstitute of Molecular Biology, University of Oregon, Eugene, Oregon 97403, USA jwidom@uoregon.edu dmgarcia@uoregon.edu.ORCID 0000-0003-0600-9527
Julia R WidomInstitute of Molecular Biology, University of Oregon, Eugene, Oregon 97403, USA jwidom@uoregon.edu dmgarcia@uoregon.edu.ORCID 0000-0002-6357-2749

Funding

Graduate Training in Genetics Administrative Supplement - Career Curriculum DevelopmentT32GM007413 · NIGMS · UNIVERSITY OF OREGON · PI GUILLEMIN, KAREN J · 1985 to 2022
$7.8M
Prion-based regulation of RNA-modifying enzyme activitiesR35GM143125 · NIGMS · UNIVERSITY OF OREGON · PI GARCIA, DAVID M. · 2021 to 2025
$1.9M
Mapping the sequence landscape of RNA structure, dynamics and protein interactions using high-throughput single-molecule FRETR35GM147229 · NIGMS · UNIVERSITY OF OREGON · PI Julia Reed Widom · 2022 to 2026
$1.8M
MFB: Integrating LC-MS/MS and Nanopore Sequencing Platforms to Enable the Direct and Quantatative Detection of RNA ModificationsR01HG013876 · NHGRI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Kristin S Koutmou · 2024 to 2026
$1.2M
NHGRI NIH HHS R01 HG013876NIGMS NIH HHS R35 GM143125NIGMS NIH HHS R35 GM147229NIGMS NIH HHS T32 GM007413
6 · The paper itself

Abstract

Transfer RNA has long served as an exemplar of a thermodynamically stable, structured RNA. Yet, it undergoes significant structural changes upon binding and catalysis by diverse modification enzymes. We leveraged optical binding assays and single-molecule FRET to observe the structural dynamics of two yeast tRNAs, in isolation, and upon interaction with the conserved pseudouridine synthase Pus4/TruB. We show that unmodified and pseudouridylated tRNA

Indexed as

Intramolecular TransferasesRNA, FungalRNA, TransferRNA, Transfer, MetSaccharomyces cerevisiae ProteinsFluorescence Resonance Energy TransferModels, MolecularNucleic Acid ConformationProtein BindingSaccharomyces cerevisiaeIntramolecular Transferasespseudouridine synthasesRNA, FungalRNA, TransferRNA, Transfer, MetSaccharomyces cerevisiae ProteinspseudouridinePus4RNA modificationsmFRETtRNAtRNA structure

Identifiers

PMID41916762
PMCPMC13270999

What Socratic holds

Textmetadata
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 Socratic graph.