Evidence map›Paper›PMID 39793047›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2025

Structural basis of nearest-neighbor cooperativity in the ring-shaped gene regulatory protein TRAP from protein engineering and cryo-EM.

Weicheng Li, Haoyun Yang, Kye Stachowski, Andrew S Norris, Katie Lichtenthal, Skyler Kelly, Paul Gollnick, Vicki H Wysocki, Mark P Foster

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2025. 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

9 authors.

Weicheng LiDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus, OH 43210.ORCID 0000-0001-6356-2674
Haoyun YangDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus, OH 43210.
Kye StachowskiDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus, OH 43210.ORCID 0000-0003-2378-6651
Andrew S NorrisDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus, OH 43210.
Katie LichtenthalDepartment of Biology, University at Buffalo, Buffalo, NY 14260.
Skyler KellyDepartment of Biology, University at Buffalo, Buffalo, NY 14260.
Paul GollnickDepartment of Biology, University at Buffalo, Buffalo, NY 14260.
Vicki H WysockiDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus, OH 43210.
Mark P FosterDepartment of Chemistry and Biochemistry, The Ohio State University, Columbus, OH 43210.ORCID 0000-0001-9645-7491

Funding

TRD3 NMRbox: Bayesian AnalyticsP41GM111135 · NIGMS · UNIVERSITY OF CONNECTICUT SCH OF MED/DNT · PI HOCH, JEFFREY C · 2015 to 2024
$14.0M
Waters Select Series Cyclic IMS for P41 Native MS Resource Application to Alzheimer's DiseaseP41GM128577 · NIGMS · OHIO STATE UNIVERSITY · PI WYSOCKI, VICKI H. · 2018 to 2022
$7.6M
ChimeraX -- Next Generation Visualization and Analysis Software for Multiscale ModelingR01GM129325 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2018 to 2025
$5.2M
Native Mass Spectrometry Guided Structural Biology CenterRM1GM149374 · NIGMS · OHIO STATE UNIVERSITY · PI Vicki H. Wysocki · 2023 to 2026
$5.0M
Dynamics and allostery in protein-RNA regulationR01GM120923 · NIGMS · OHIO STATE UNIVERSITY · PI MARK P. FOSTER · 2017 to 2026
$2.5M
REGULATION OF THE TRYTOPHAN GENES IN BACILLUSR01GM062750 · NIGMS · STATE UNIVERSITY OF NEW YORK AT BUFFALO · PI GOLLNICK, PAUL D · 2000 to 2009
$2.1M
Structural and Dynamics in Allosteric Gene RegulationR01GM077234 · NIGMS · OHIO STATE UNIVERSITY · PI FOSTER, MARK P. · 2007 to 2010
$1.2M
HHS | NIH | National Institute of General Medical Sciences (NIGMS) GM062750HHS | NIH | National Institute of General Medical Sciences (NIGMS) GM077234HHS | NIH | National Institute of General Medical Sciences (NIGMS) GM120923HHS | NIH | National Institute of General Medical Sciences (NIGMS) GM128577NIGMS NIH HHS P41 GM111135NIGMS NIH HHS P41 GM128577NIGMS NIH HHS R01 GM062750NIGMS NIH HHS R01 GM077234NIGMS NIH HHS R01 GM120923NIGMS NIH HHS R01 GM129325NIGMS NIH HHS RM1 GM149374
6 · The paper itself

Abstract

The homo-dodecameric ring-shaped

Indexed as

Bacterial ProteinsCryoelectron MicroscopyProtein EngineeringBacillaceaeBinding SitesLigandsModels, MolecularProtein BindingProtein ConformationRNA-Binding ProteinsThermodynamicsTranscription FactorsTryptophanBacterial ProteinsLigandsMtrB protein, BacteriaRNA-Binding ProteinsTranscription FactorsTryptophancooperativitycryo-EMnative mass spectrometryoligomeric proteinregulation

Identifiers

PMID39793047
PMCPMC11725872

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.