Evidence map›Paper›PMID 34312563›Full record

ArticleNature chemical biology2021

Prospecting for natural products by genome mining and microcrystal electron diffraction.

Lee Joon Kim, Masao Ohashi, Zhuan Zhang, Dan Tan, Matthew Asay, Duilio Cascio, José A Rodriguez, Yi Tang, Hosea M Nelson

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature chemical biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.

0numbers the graph read from it
0cells of the map it votes in
34citing papers in PubMed
4.1field-weighted citation impact, top 5% 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

34 citing papers in PubMed, 65 citations in OpenAlex.

  1. Rapid Structural Analysis of Natural Products Using MicroED.Small (Weinheim an der Bergstrasse, Germany) · 2026
    Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Standards for MicroED.Acta crystallographica. Section C, Structural chemistry · 2025
    Article
  7. Review
  8. Review
  9. Review
  10. Article
  11. Article
  12. Article
  13. Review
  14. Applying 3D ED/MicroED workflows toward the next frontiers.Acta crystallographica. Section C, Structural chemistry · 2024
    Article
  15. 3D Nanocrystallography and the Imperfect Molecular Lattice.Annual review of physical chemistry · 2024
    Review
  16. Article
  17. Article
  18. 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

9 authors at 1 institution in 1 country.

Lee Joon Kim *Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0002-0786-7614
Masao Ohashi *Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, Los Angeles, CA, USA.
Zhuan Zhang *Department of Chemical and Biomolecular Engineering, University of California, Los Angeles, Los Angeles, CA, USA.
Dan TanDepartment of Chemical and Biomolecular Engineering, University of California, Los Angeles, Los Angeles, CA, USA.
Matthew AsayDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA, USA.
Duilio CascioDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0001-8285-754X
José A RodriguezDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0001-8471-2504
Yi TangDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA, USA. yitang@g.ucla.edu.
Hosea M NelsonDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA, USA. hosea@chem.ucla.edu.ORCID http://orcid.org/0000-0002-4666-2793
University of California, Los Angeles · US

Funding

Micro Electron Diffraction of Toxic and/or Infectious Macromolecular NanoassembliesR35GM128867 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Jose Alfonso Rodriguez · 2018 to 2026
$3.1M
Biosynthesis and Enzymology of Antifungal Natural Products - R01AI141481R01AI141481 · NIAID · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI GARG, NEIL K, HOUK, KENDALL N · 2019 to 2023
$2.8M
NIAID NIH HHS R01 AI141481NIGMS NIH HHS R35 GM128867
6 · The paper itself

Abstract

More than 60% of pharmaceuticals are related to natural products (NPs), chemicals produced by living organisms. Despite this, the rate of NP discovery has slowed over the past few decades. In many cases the rate-limiting step in NP discovery is structural characterization. Here we report the use of microcrystal electron diffraction (MicroED), an emerging cryogenic electron microscopy (CryoEM) method, in combination with genome mining to accelerate NP discovery and structural elucidation. As proof of principle we rapidly determine the structure of a new 2-pyridone NP, Py-469, and revise the structure of fischerin, an NP isolated more than 25 years ago, with potent cytotoxicity but hitherto ambiguous structural assignment. This study serves as a powerful demonstration of the synergy of MicroED and synthetic biology in NP discovery, technologies that when taken together will ultimately accelerate the rate at which new drugs are discovered.

Indexed as

Cryoelectron MicroscopyBiological ProductsModels, MolecularMolecular ConformationBiological Products

Identifiers

PMID34312563
PMCPMC8447837
OpenAlexW3186053381

What OpenQuestion holds

Textmetadata
LicenceTDM
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.