Evidence map›Paper›PMID 39285206›Full record

ArticleNature chemistry2024

A single diiron enzyme catalyses the oxidative rearrangement of tryptophan to indole nitrile.

Sanjoy Adak, Naike Ye, Logan A Calderone, Meng Duan, Wilson Lubeck, Rebecca J B Schäfer, April L Lukowski, K N Houk, Maria-Eirini Pandelia, Catherine L Drennan and 1 more

Abstract read
In one paragraph

Article in Nature chemistry, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing 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

20 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Heme oxygenase-like dimetal oxidases and oxygenases.Biochemical Society transactions · 2026
    Review
  7. Review
  8. Article
  9. Article
  10. A ferritin-like diiron oxygenase BioE initiates bacterial biotin synthesis, a promising antivirulence target.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Mining for Halogenated Metabolites ofJournal of natural products · 2025
    Article
  16. Heme Oxygenase-Like Metalloenzymes.Annual review of biochemistry · 2025
    Review
  17. Article
  18. Biochemical characterization of the self-sacrificing p-aminobenzoate synthase from Nitrosomonas europaea reveals key residues involved in selecting a Fe/Fe or Mn/Fe cofactor.Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry · 2025
    Article
  19. Article
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Sanjoy Adak *Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0003-2889-4272
Naike Ye *Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0003-0823-6862
Logan A CalderoneDepartment of Biochemistry, Brandeis University, Waltham, MA, USA.ORCID 0000-0002-0960-3831
Meng DuanDepartment of Chemistry and Biochemistry, University of California, Los Angeles, CA, USA.
Wilson LubeckCenter for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.
Rebecca J B SchäferCenter for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.
April L LukowskiCenter for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0003-4865-0910
K N HoukDepartment of Chemistry and Biochemistry, University of California, Los Angeles, CA, USA.ORCID 0000-0002-8387-5261
Maria-Eirini PandeliaDepartment of Biochemistry, Brandeis University, Waltham, MA, USA. mepandelia@brandeis.edu.ORCID 0000-0002-6750-1948
Catherine L DrennanDepartment of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA. cdrennan@mit.edu.ORCID 0000-0001-5486-2755
Bradley S MooreCenter for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA. bsmoore@ucsd.edu.ORCID 0000-0002-4652-1253

Funding

A Synchrotron Radiation Structural Biology ResourcesP30GM133894 · NIGMS · STANFORD UNIVERSITY · PI Ritimukta Sarangi · 2020 to 2026
$43.3M
User Training and OutreachP30GM124165 · NIGMS · CORNELL UNIVERSITY · PI STEVEN E EALICK · 2018 to 2026
$34.2M
Metalloenzyme structure, function and assemblyR35GM126982 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI CATHERINE L DRENNAN · 2018 to 2026
$3.4M
Scripps Center for Oceans and Human Health: advancing the science of marine contaminants and seafood securityP01ES035541 · NIEHS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BRADLEY S MOORE · 2024 to 2026
$2.4M
How does a metallofactor in Hepatitis B viral protein X orchestrate pathogenesis and liver cancerR01GM126303 · NIGMS · BRANDEIS UNIVERSITY · PI PANDELIA, MARIA-EIRINI · 2019 to 2023
$1.8M
Natural Sources and Microbial Transformation of Marine Halogenated PollutantsR01ES030316 · NIEHS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI ALLEN, ERIC ELLSWORTH, MOORE, BRADLEY S · 2018 to 2022
$669k
Interrogating novel biosynthetic sources for the production of polybrominated diphenyl ethersF32ES033540 · NIEHS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI LUKOWSKI, APRIL · 2021 to 2023
$145k
National Science Foundation (NSF) CHE-2153972National Science Foundation (NSF) OCE-1837116NIEHS NIH HHS F32 ES033540NIEHS NIH HHS P01 ES035541NIEHS NIH HHS R01 ES030316NIGMS NIH HHS P30 GM124165NIGMS NIH HHS P30 GM133894NIGMS NIH HHS R01 GM126303NIGMS NIH HHS R35 GM126982Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Swiss National Science Foundation) P2EZP3_195643U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) F32-ES033540U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) R01-ES030316U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R01-GM126303U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R35-GM126982
6 · The paper itself

Abstract

Nitriles are uncommon in nature and are typically constructed from oximes through the oxidative decarboxylation of amino acid substrates or from the derivatization of carboxylic acids. Here we report a third nitrile biosynthesis strategy featuring the cyanobacterial nitrile synthase AetD. During the biosynthesis of the eagle-killing neurotoxin, aetokthonotoxin, AetD transforms the 2-aminopropionate portion of 5,7-dibromo-L-tryptophan to a nitrile. Employing a combination of structural, biochemical and biophysical techniques, we characterized AetD as a non-haem diiron enzyme that belongs to the emerging haem-oxygenase-like dimetal oxidase superfamily. High-resolution crystal structures of AetD together with the identification of catalytically relevant products provide mechanistic insights into how AetD affords this unique transformation, which we propose proceeds via an aziridine intermediate. Our work presents a unique template for nitrile biogenesis and portrays a substrate binding and metallocofactor assembly mechanism that may be shared among other haem-oxygenase-like dimetal oxidase enzymes.

Indexed as

NitrilesOxidation-ReductionTryptophanCrystallography, X-RayCyanobacteriaIndolesIronModels, MolecularOxidoreductasesIndolesIronNitrilesOxidoreductasesTryptophan

Identifiers

PMID39285206
PMCPMC11611611

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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.