Evidence map›Paper›PMID 39107302›Full record

ArticleNature communications2024

Deciphering the allosteric regulation of mycobacterial inosine-5'-monophosphate dehydrogenase.

Ondřej Bulvas, Zdeněk Knejzlík, Jakub Sýs, Anatolij Filimoněnko, Monika Čížková, Kamila Clarová, Dominik Rejman, Tomáš Kouba, Iva Pichová

Abstract read
In one paragraph

Article in Nature communications, 2024. 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. Article
  2. Article
  3. An IMPDH2 variant associated with neurodevelopmental disorder disrupts purine biosynthesis and somite organization.Proceedings of the National Academy of Sciences of the United States of America · 2025
    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

9 authors.

Ondřej BulvasInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.ORCID 0000-0003-3945-4408
Zdeněk KnejzlíkInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.
Jakub SýsInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.ORCID 0000-0003-2589-1631
Anatolij FilimoněnkoInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.
Monika ČížkováInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.ORCID 0009-0003-9051-4434
Kamila ClarováInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.
Dominik RejmanInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.ORCID 0000-0001-5977-5001
Tomáš KoubaInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic. tomas.kouba@uochb.cas.cz.ORCID 0000-0001-8173-6930
Iva PichováInstitute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic. iva.pichova@uochb.cas.cz.ORCID 0000-0002-2178-9819

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Allosteric regulation of inosine 5'-monophosphate dehydrogenase (IMPDH), an essential enzyme of purine metabolism, contributes to the homeostasis of adenine and guanine nucleotides. However, the precise molecular mechanism of IMPDH regulation in bacteria remains unclear. Using biochemical and cryo-EM approaches, we reveal the intricate molecular mechanism of the IMPDH allosteric regulation in mycobacteria. The enzyme is inhibited by both GTP and (p)ppGpp, which bind to the regulatory CBS domains and, via interactions with basic residues in hinge regions, lock the catalytic core domains in a compressed conformation. This results in occlusion of inosine monophosphate (IMP) substrate binding to the active site and, ultimately, inhibition of the enzyme. The GTP and (p)ppGpp allosteric effectors bind to their dedicated sites but stabilize the compressed octamer by a common mechanism. Inhibition is relieved by the competitive displacement of GTP or (p)ppGpp by ATP allowing IMP-induced enzyme expansion. The structural knowledge and mechanistic understanding presented here open up new possibilities for the development of allosteric inhibitors with antibacterial potential.

Indexed as

Guanosine TriphosphateIMP DehydrogenaseAdenosine TriphosphateAllosteric RegulationBacterial ProteinsCatalytic DomainCryoelectron MicroscopyGuanosine PentaphosphateInosine MonophosphateModels, MolecularMycobacterium smegmatisProtein BindingAdenosine TriphosphateBacterial ProteinsGuanosine PentaphosphateGuanosine TriphosphateIMP DehydrogenaseInosine Monophosphate

Identifiers

PMID39107302
PMCPMC11303537

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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.