Evidence map›Paper›PMID 39742666›Full record

ArticleMolecular cell2025

Bacterial Shedu immune nucleases share a common enzymatic core regulated by diverse sensor domains.

Yajie Gu, Huan Li, Amar Deep, Eray Enustun, Dapeng Zhang, Kevin D Corbett

Abstract read
In one paragraph

Article in Molecular cell, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.

0numbers the graph read from it
0cells of the map it votes in
21citing 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

21 citing papers in PubMed.

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  13. Defence systems encoded by core genomic islands of seventh pandemicPhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025
    Review
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  19. Structural basis of chiral wrap and T-segment capture byProceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors.

Yajie GuDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA.
Huan LiDepartment of Biology, Saint Louis University, Saint Louis, MO, USA.
Amar DeepDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA.
Eray EnustunDepartment of Molecular Biology, University of California, San Diego, La Jolla, CA, USA.
Dapeng ZhangDepartment of Biology, Saint Louis University, Saint Louis, MO, USA. Electronic address: dapeng.zhang@slu.edu.
Kevin D CorbettDepartment of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Department of Molecular Biology, University of California, San Diego, La Jolla, CA, USA. Electronic address: kcorbett@ucsd.edu.

Funding

Molecular mechanisms of nucleic acid recognition and maintenance in meiosis and innate immunityR35GM144121 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Kevin Daniel Corbett · 2022 to 2026
$2.7M
NIGMS NIH HHS R35 GM144121
6 · The paper itself

Abstract

Prokaryotes possess diverse anti-bacteriophage immune systems, including the single-protein Shedu nuclease. Here, we reveal the structural basis for activation of Bacillus cereus Shedu. Two cryoelectron microscopy structures of Shedu show that it switches between inactive and active states through conformational changes affecting active-site architecture, which are controlled by the protein's N-terminal domain (NTD). We find that B. cereus Shedu cleaves near DNA ends with a 3' single-stranded overhang, likely enabling it to specifically degrade the DNA injected by certain bacteriophages. Bioinformatic analysis of Shedu homologs reveals a conserved nuclease domain with remarkably diverse N-terminal regulatory domains: we identify 79 distinct NTD types falling into eight broad classes, including those with predicted nucleic acid binding, enzymatic, and other activities. Together, these data reveal Shedu as a broad family of immune nucleases with a common nuclease core regulated by diverse NTDs that likely respond to a range of signals.

Indexed as

Bacillus cereusBacterial ProteinsDeoxyribonucleasesCatalytic DomainCryoelectron MicroscopyModels, MolecularProtein DomainsBacterial ProteinsDeoxyribonucleasesanti-phage immunityDUF4263PD-(D/E)XK nucleasetwo-component signallingWhirly domain

Identifiers

PMID39742666
PMCPMC11805627

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Registered trials

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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.