Evidence map›Paper›PMID 40993131›Full record

ArticleNature communications2025

Periplasmic protein quality control at atomic level in live cells.

Lisandro J González, Francisco J Hita, Letizia Pontoriero, Roberta Pierattelli, Andres Binolfi, Alejandro J Vila

Abstract read
In one paragraph

Article in Nature communications, 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. Lipid Analysis in LiveBio-protocol · 2026
    Article
  2. Article
  3. 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.

Lisandro J GonzálezLaboratory of Metalloproteins, Institute of Molecular and Cellular Biology of Rosario, National University of Rosario (IBR-CONICET-UNR), Rosario, Argentina. lgonzalez@ibr-conicet.gov.ar.ORCID http://orcid.org/0000-0002-0575-1810
Francisco J HitaLaboratory of Metalloproteins, Institute of Molecular and Cellular Biology of Rosario, National University of Rosario (IBR-CONICET-UNR), Rosario, Argentina.ORCID http://orcid.org/0000-0003-3576-3342
Letizia PontorieroMagnetic Resonance Center (CERM) and Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino, Italy.
Roberta PierattelliMagnetic Resonance Center (CERM) and Department of Chemistry "Ugo Schiff", University of Florence, Sesto Fiorentino, Italy. roberta.pierattelli@unifi.it.ORCID http://orcid.org/0000-0001-7755-0885
Andres BinolfiCellular-Structural Biology Laboratory, Institute of Molecular and Cellular Biology of Rosario, National University of Rosario (IBR-CONICET-UNR), Rosario, Argentina. binolfi@ibr-conicet.gov.ar.ORCID http://orcid.org/0000-0003-2374-0864
Alejandro J VilaLaboratory of Metalloproteins, Institute of Molecular and Cellular Biology of Rosario, National University of Rosario (IBR-CONICET-UNR), Rosario, Argentina. vila@ibr-conicet.gov.ar.ORCID http://orcid.org/0000-0002-7978-3233

Funding

Ministero degli Affari Esteri e della Cooperazione Internazionale (Ministry of Foreign Affairs and International Cooperation) IT/GR/17/03Ministero della Salute (Ministry of Health, Italy) PAN-HUB 2021-T4-AN-07Ministry of Science, Technology and Productive Innovation, Argentina | Agencia Nacional de Promoción Científica y Tecnológica (National Agency for Science and Technology, Argentina) PICT 2018-02572Ministry of Science, Technology and Productive Innovation, Argentina | Agencia Nacional de Promoción Científica y Tecnológica (National Agency for Science and Technology, Argentina) PICT 2020-0031Ministry of Science, Technology and Productive Innovation, Argentina | Agencia Nacional de Promoción Científica y Tecnológica (National Agency for Science and Technology, Argentina) PICT 2022-01-2022
6 · The paper itself

Abstract

The periplasm of gram-negative bacteria facilitates critical functions, including nutrient uptake, cell wall metabolism, antibiotic resistance, and virulence. Efficient quality control of proteins involved in these processes is crucial for bacterial fitness and survival. The limited size of the periplasm has hindered high-resolution mechanistic investigations of complex processes within this compartment. Using in-cell NMR spectroscopy, we dissect the mechanism of periplasmic quality control of the metallo-β-lactamase NDM-1 under conditions of zinc starvation, which destabilizes its native structure promoting its degradation. We show that the protease Prc targets membrane-bound NDM-1 at specific residues and secondary structure motifs, while DegP processes peptides generated by Prc. This approach discloses the concerted mechanism of these proteases at atomic resolution in the periplasm of live cells.

Indexed as

Bacterial Proteinsbeta-LactamasesEscherichia coliEscherichia coli ProteinsPeriplasmPeriplasmic ProteinsHeat-Shock ProteinsMagnetic Resonance SpectroscopyProteolysisSerine EndopeptidasesZincBacterial Proteinsbeta-lactamase NDM-1beta-LactamasesDegP proteaseEscherichia coli ProteinsHeat-Shock ProteinsPeriplasmic ProteinsSerine EndopeptidasesZinc

Identifiers

PMID40993131
PMCPMC12460800

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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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.