Evidence map›Paper›PMID 34176236›Full record

ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2021

Learning from Nature: From a Marine Natural Product to Synthetic Cyclooxygenase-1 Inhibitors by Automated De Novo Design.

Lukas Friedrich, Gino Cingolani, Ying-Hui Ko, Mariaclara Iaselli, Morena Miciaccia, Maria Grazia Perrone, Konstantin Neukirch, Veronika Bobinger, Daniel Merk, Robert Klaus Hofstetter and 4 more

Open access · goldAbstract read
In one paragraph

Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
3.9field-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

14 citing papers in PubMed, 29 citations in OpenAlex.

  1. Article
  2. Review
  3. Small-molecule natural product sophoricoside reduces peripheral neuropathic pain via directly blocking of NaV1.6 in dorsal root ganglion nociceptive neurons.Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology · 2025
    Article
  4. Review
  5. Review
  6. CombiningRSC advances · 2024
    Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Review
  13. Article
  14. 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

14 authors at 6 institutions in 7 countries.

Lukas FriedrichDepartment of Chemistry and Applied Biosciences, ETH Zurich, Vladimir-Prelog-Weg 4, Zurich, 8093, Switzerland.
Gino CingolaniDepartment of Biochemistry and Molecular Biology, Sidney Kimmel Cancer Center, Thomas Jefferson University, 1020 Locust Street, Philadelphia, PA, 19107, USA.
Ying-Hui KoDepartment of Biochemistry and Molecular Biology, Sidney Kimmel Cancer Center, Thomas Jefferson University, 1020 Locust Street, Philadelphia, PA, 19107, USA.
Mariaclara IaselliDepartment of Pharmacy - Pharmaceutical Sciences, University of Bari, Via E. Orabona 4, Bari, 70125, Italy.
Morena MiciacciaDepartment of Pharmacy - Pharmaceutical Sciences, University of Bari, Via E. Orabona 4, Bari, 70125, Italy.
Maria Grazia PerroneDepartment of Pharmacy - Pharmaceutical Sciences, University of Bari, Via E. Orabona 4, Bari, 70125, Italy.
Konstantin NeukirchMichael Popp Institute and Center for Molecular Biosciences Innsbruck (CMBI), University of Innsbruck, Innsbruck, 6020, Austria.
Veronika BobingerDepartment of Chemistry and Applied Biosciences, ETH Zurich, Vladimir-Prelog-Weg 4, Zurich, 8093, Switzerland.
Daniel MerkDepartment of Chemistry and Applied Biosciences, ETH Zurich, Vladimir-Prelog-Weg 4, Zurich, 8093, Switzerland.
Robert Klaus HofstetterDepartment of Pharmaceutical/Medicinal Chemistry, Friedrich-Schiller-University Jena, Philosophenweg 14, Jena, 07743, Germany.
Oliver WerzDepartment of Pharmaceutical/Medicinal Chemistry, Friedrich-Schiller-University Jena, Philosophenweg 14, Jena, 07743, Germany.
Andreas KoeberleMichael Popp Institute and Center for Molecular Biosciences Innsbruck (CMBI), University of Innsbruck, Innsbruck, 6020, Austria.
Antonio ScilimatiDepartment of Pharmacy - Pharmaceutical Sciences, University of Bari, Via E. Orabona 4, Bari, 70125, Italy.
Gisbert SchneiderDepartment of Chemistry and Applied Biosciences, ETH Zurich, Vladimir-Prelog-Weg 4, Zurich, 8093, Switzerland.ORCID 0000-0001-6706-1084
University of Bari Aldo Moro · ITETH Zurich · CHFriedrich Schiller University Jena · DEThomas Jefferson University · USUniversität Innsbruck · ATGoethe University Frankfurt · DE

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI Hongbiao Carl Lekaye · 1985 to 2026
$347.4M
X-Ray Crystallography and Macromolecular CharacterizationP30CA056036 · NCI · THOMAS JEFFERSON UNIVERSITY · PI Andrew Chapman · 1995 to 2026
$94.8M
Mechanism of Viral Genome Delivery into CellsR35GM140733 · NIGMS · UNIVERSITY OF ALABAMA AT BIRMINGHAM · PI CINGOLANI, GINO · 2021 to 2025
$2.8M
Multisubunit viral ATPases that couple ATP-hydrolysis to genome translocationR01GM100888 · NIGMS · THOMAS JEFFERSON UNIVERSITY · PI CINGOLANI, GINO · 2012 to 2020
$2.5M
Regulation of Nuclear Import Through Importin Alpha IsoformsR01GM122844 · NIGMS · THOMAS JEFFERSON UNIVERSITY · PI CINGOLANI, GINO · 2018 to 2021
$1.4M
A NEW HYBRID DIFFRACTOMETER FOR MACROMOLECULAR CRYSTALLOGRAPHY AND SAXS AT TJUS10OD017987 · OD · THOMAS JEFFERSON UNIVERSITY · PI CINGOLANI, GINO · 2014 to 2014
$600k
A High-Throughput Crystallization Platform at JeffersonS10OD023479 · OD · THOMAS JEFFERSON UNIVERSITY · PI CINGOLANI, GINO · 2019 to 2019
$94k
Deutsche Forschungsgemeinschaft 239748522Deutsche Forschungsgemeinschaft 316213987Eidgenössische Technische Hochschule Zürich RETHINKNCI NIH HHS P30 CA008748NCI NIH HHS P30 CA056036NCI NIH HHS P30 CA56036NIGMS NIH HHS R01 GM100888NIGMS NIH HHS R01 GM122844NIGMS NIH HHS R35 GM140733NIH HHS R01 GM100888NIH HHS S10 OD017987NIH HHS S10 OD023479Novartis Stiftung für Medizinisch-Biologische Forschung AI in Drug Discovery
6 · The paper itself

Abstract

The repertoire of natural products offers tremendous opportunities for chemical biology and drug discovery. Natural product-inspired synthetic molecules represent an ecologically and economically sustainable alternative to the direct utilization of natural products. De novo design with machine intelligence bridges the gap between the worlds of bioactive natural products and synthetic molecules. On employing the compound Marinopyrrole A from marine Streptomyces as a design template, the algorithm constructs innovative small molecules that can be synthesized in three steps, following the computationally suggested synthesis route. Computational activity prediction reveals cyclooxygenase (COX) as a putative target of both Marinopyrrole A and the de novo designs. The molecular designs are experimentally confirmed as selective COX-1 inhibitors with nanomolar potency. X-ray structure analysis reveals the binding of the most selective compound to COX-1. This molecular design approach provides a blueprint for natural product-inspired hit and lead identification for drug discovery with machine intelligence.

Indexed as

Artificial IntelligenceBiological ProductsCyclooxygenase InhibitorsDrug DesignDrug DiscoveryPyrrolesBiological ProductsCyclooxygenase Inhibitorsmarinopyrrole APyrroleschemoinformaticscomputational chemistrydrug designmachine learningnatural product

Identifiers

PMID34176236
PMCPMC8373093
OpenAlexW3177171145

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.