Evidence map›Paper›PMID 34702826›Full record

ArticleNature communications2021

Structural basis for protein glutamylation by the Legionella pseudokinase SidJ.

Michael Adams, Rahul Sharma, Thomas Colby, Felix Weis, Ivan Matic, Sagar Bhogaraju

Abstract read
In one paragraph

Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing 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

16 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Article
  5. Review
  6. Article
  7. Review
  8. Journal of bacteriology · 2024
    Review
  9. Covalent Probes To CaptureJournal of the American Chemical Society · 2024
    Article
  10. CapturingFrontiers in molecular biosciences · 2024
    Article
  11. Article
  12. Review
  13. Emerging functions of pseudoenzymes.The Biochemical journal · 2023
    Review
  14. Article
  15. Review
  16. Review
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.

Michael AdamsEuropean Molecular Biology Laboratory, 71 Avenue des Martyrs, 38042, Grenoble, France.ORCID 0000-0002-2143-7629
Rahul SharmaEuropean Molecular Biology Laboratory, 71 Avenue des Martyrs, 38042, Grenoble, France.
Thomas ColbyMax Planck Institute for Biology of Ageing, Joseph-Stelzmann-Straße 9b, 50931, Cologne, Germany.
Felix WeisEuropean Molecular Biology Laboratory, Meyerhofstraße 1, 69117, Heidelberg, Germany.ORCID 0000-0002-8137-3532
Ivan MaticMax Planck Institute for Biology of Ageing, Joseph-Stelzmann-Straße 9b, 50931, Cologne, Germany.ORCID 0000-0003-0170-7991
Sagar BhogarajuEuropean Molecular Biology Laboratory, 71 Avenue des Martyrs, 38042, Grenoble, France. bhogaraju@embl.fr.ORCID 0000-0001-9998-5927

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Legionella pneumophila (LP) avoids phagocytosis by secreting nearly 300 effector proteins into the host cytosol. SidE family of effectors (SdeA, SdeB, SdeC and SidE) employ phosphoribosyl ubiquitination to target multiple host Rab GTPases and innate immune factors. To suppress the deleterious toxicity of SidE enzymes in a timely manner, LP employs a metaeffector named SidJ. Upon activation by host Calmodulin (CaM), SidJ executes an ATP-dependent glutamylation to modify the catalytic residue Glu860 in the mono-ADP-ribosyl transferase (mART) domain of SdeA. SidJ is a unique glutamylase that adopts a kinase-like fold but contains two nucleotide-binding pockets. There is a lack of consensus about the substrate recognition and catalytic mechanism of SidJ. Here, we determined the cryo-EM structure of SidJ in complex with its substrate SdeA in two different states of catalysis. Our structures reveal that both phosphodiesterase (PDE) and mART domains of SdeA make extensive contacts with SidJ. In the pre-glutamylation state structure of the SidJ-SdeA complex, adenylylated E860 of SdeA is inserted into the non-canonical (migrated) nucleotide-binding pocket of SidJ. Structure-based mutational analysis indicates that SidJ employs its migrated pocket for the glutamylation of SdeA. Finally, using mass spectrometry, we identified several transient autoAMPylation sites close to both the catalytic pockets of SidJ. Our data provide unique insights into the substrate recognition and the mechanism of protein glutamylation by the pseudokinase SidJ.

Indexed as

Bacterial ProteinsBinding SitesCalmodulinCatalysisCryoelectron MicroscopyLegionella pneumophilaMembrane ProteinsModels, MolecularMutationProtein BindingProtein DomainsProtein Processing, Post-TranslationalVirulence FactorsBacterial ProteinsCalmodulinMembrane ProteinsSdeA protein, Legionella pneumophilaSidJ protein, Legionella pneumophilaVirulence Factors

Identifiers

PMID34702826
PMCPMC8548325

What OpenQuestion holds

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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.