Evidence map›Paper›PMID 34475399›Full record

ArticleNature communications2021

The cryo-EM structure of the bd oxidase from M. tuberculosis reveals a unique structural framework and enables rational drug design to combat TB.

Schara Safarian, Helen K Opel-Reading, Di Wu, Ahmad R Mehdipour, Kiel Hards, Liam K Harold, Melanie Radloff, Ian Stewart, Sonja Welsch, Gerhard Hummer and 3 more

Open access · goldAbstract 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 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed
3.5field-weighted citation impact, top 6% of its field
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

26 citing papers in PubMed, 65 citations in OpenAlex.

  1. Article
  2. Article
  3. TheProceedings of the National Academy of Sciences of the United States of America · 2026
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  4. Article
  5. Article
  6. Article
  7. Article
  8. Carbon Monoxide and Prokaryotic Energy Metabolism.International journal of molecular sciences · 2025
    Review
  9. Cryo-EM of native membranes reveals an intimate connection between the Krebs cycle and aerobic respiration in mycobacteria.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  10. Antibiotics (Basel, Switzerland) · 2024
    Review
  11. Review
  12. Article
  13. CytochromeRSC medicinal chemistry · 2024
    Review
  14. Article
  15. Article
  16. Article
  17. Recent developments of imidazo[1,2-RSC medicinal chemistry · 2023
    Review
  18. Structure of mycobacterial respiratory complex I.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  19. Article
  20. 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

13 authors at 3 institutions in 2 countries.

Schara SafarianDepartment of Molecular Membrane Biology, Max Planck Institute of Biophysics, Frankfurt/Main, Germany. schara.safarian@biophys.mpg.de.ORCID http://orcid.org/0000-0002-0232-1612
Helen K Opel-ReadingDepartment of Biochemistry, University of Otago, Dunedin, New Zealand.
Di WuDepartment of Molecular Membrane Biology, Max Planck Institute of Biophysics, Frankfurt/Main, Germany.
Ahmad R MehdipourDepartment of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt/Main, Germany.
Kiel HardsDepartment of Microbiology and Immunology, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.
Liam K HaroldDepartment of Microbiology and Immunology, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.ORCID http://orcid.org/0000-0002-7570-7348
Melanie RadloffDepartment of Molecular Membrane Biology, Max Planck Institute of Biophysics, Frankfurt/Main, Germany.ORCID http://orcid.org/0000-0001-7543-1778
Ian StewartDepartment of Chemistry, University of Otago, Dunedin, New Zealand.
Sonja WelschCentral Electron Microscopy Facility, Max Planck Institute of Biophysics, Frankfurt am Main, Germany.ORCID http://orcid.org/0000-0002-6049-6664
Gerhard HummerDepartment of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt/Main, Germany.ORCID http://orcid.org/0000-0001-7768-746X
Gregory M CookDepartment of Microbiology and Immunology, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.ORCID http://orcid.org/0000-0001-8349-1500
Kurt L KrauseDepartment of Biochemistry, University of Otago, Dunedin, New Zealand.ORCID http://orcid.org/0000-0002-3525-1112
Hartmut MichelDepartment of Molecular Membrane Biology, Max Planck Institute of Biophysics, Frankfurt/Main, Germany. hartmut.michel@biophys.mpg.de.ORCID http://orcid.org/0000-0003-4351-7846
Max Planck Institute of Biophysics · DEUniversity of Otago · NZGoethe University Frankfurt · DE

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

New drugs are urgently needed to combat the global TB epidemic. Targeting simultaneously multiple respiratory enzyme complexes of Mycobacterium tuberculosis is regarded as one of the most effective treatment options to shorten drug administration regimes, and reduce the opportunity for the emergence of drug resistance. During infection and proliferation, the cytochrome bd oxidase plays a crucial role for mycobacterial pathophysiology by maintaining aerobic respiration at limited oxygen concentrations. Here, we present the cryo-EM structure of the cytochrome bd oxidase from M. tuberculosis at 2.5 Å. In conjunction with atomistic molecular dynamics (MD) simulation studies we discovered a previously unknown MK-9-binding site, as well as a unique disulfide bond within the Q-loop domain that defines an inactive conformation of the canonical quinol oxidation site in Actinobacteria. Our detailed insights into the long-sought atomic framework of the cytochrome bd oxidase from M. tuberculosis will form the basis for the design of highly specific drugs to act on this enzyme.

Indexed as

Bacterial ProteinsBinding SitesCryoelectron MicroscopyCytochrome b GroupCytochrome d GroupElectron Transport Chain Complex ProteinsMolecular Dynamics SimulationMycobacterium tuberculosisOxidoreductasesProtein ConformationProtein SubunitsVitamin K 2Bacterial ProteinsCytochrome b GroupCytochrome d GroupElectron Transport Chain Complex Proteinsmenaquinone 9OxidoreductasesProtein SubunitsVitamin K 2

Identifiers

PMID34475399
PMCPMC8413341
OpenAlexW3198296690

What OpenQuestion holds

Textmetadata
LicenceCC BY
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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.