# Targeted Inactivation of an α/β Hydrolase Gene Enables Discovery of Heterodimeric Nenestatins

**Authors:** Wenzheng Wei, Xiaodong Jiang, Yiguang Zhu, Wenjun Zhang, Chunfang Yang, Qingbo Zhang, Changsheng Zhang

PMC · DOI: 10.3390/md24030103 · Marine Drugs · 2026-03-08

## TL;DR

Scientists discovered new chemical compounds called NENs by inactivating a specific gene in a type of bacteria.

## Contribution

Targeted gene inactivation revealed new NEN analogs and highlighted the role of Nes5 in their biosynthesis.

## Key findings

- Inactivating the nes5 gene produced five new NEN analogs (NENs E–I) and a known compound.
- NEN A and NEN B were absent in the mutant, showing Nes5 is essential for their production.
- Structures of the new analogs were determined using spectroscopy and computational methods.

## Abstract

Nenestatins (NENs) belong to benzo[b]fluorene-containing atypical angucyclines, a structurally diverse class of microbial natural products. Bioinformatic analysis of the NEN biosynthetic gene cluster (nes BGC) from the deep-sea sediment-derived Micromonospora echinospora SCSIO 04089 implicated Nes5 as an α/β hydrolase. The targeted inactivation of the nes5 gene led to the accumulation of five new analogs, NENs E–I (1–5), together with the known monomer homo-dehydrorabelomycin E (6). Their structures were elucidated by comprehensive spectroscopic analysis and electronic circular dichroism calculations. Notably, both NEN A and NEN B were absent in the Δnes5 mutant, indicating that Nes5 is essential for their biosynthesis; however, the exact function of Nes5 requires further exploration.

## Linked entities

- **Chemicals:** benzo[b]fluorene (PubChem CID 9201), homo-dehydrorabelomycin E (PubChem CID 156583046)
- **Species:** Micromonospora echinospora (taxon 1877)

## Full-text entities

- **Genes:** SUCO (SUN domain containing ossification factor) [NCBI Gene 51430] {aka C1orf9, CH1, OPT, SLP1}, SCN9A (sodium voltage-gated channel alpha subunit 9) [NCBI Gene 6335] {aka ETHA, FEB3B, GEFSP7, HSAN2D, NE-NA, NENA}
- **Diseases:** cancer (MESH:D009369), lung adenocarcinoma (MESH:D000077192), glioma (MESH:D005910), breast adenocarcinoma (MESH:D001943), injury to (MESH:D014947), cytotoxic (MESH:D064420), liver carcinoma (MESH:D006528)
- **Chemicals:** CH3OH (MESH:D000432), DMSO (MESH:D004121), (-)-homoseongomycin (MESH:C584040), Sephadex LH-20 (MESH:C025614), quinone methides (MESH:C068040), H3 (MESH:C012616), CH3CN (MESH:C032159), H2O (MESH:D014867), KBr (MESH:C039004), glucose (MESH:D005947), Silica Gel (MESH:D058428), CO2 (MESH:D002245), Benzo[b]fluorene (MESH:C041512), C (MESH:D002244), O (MESH:D010100), C-2 (MESH:C023714), difluostatin A (MESH:C000605687), 13C (MESH:C000615229), H (MESH:D006859), C-8 (MESH:C037690), lomaiviticin A (MESH:C433842), NEN (-), glycerol (MESH:D005990), trichloroacetic acid (MESH:D014238), CaCO3 (MESH:D002119), cisplatin (MESH:D002945), starch (MESH:D013213), acetic acid (MESH:D019342)
- **Species:** Streptomyces (genus) [taxon 1883], Acinetobacter baumannii (species) [taxon 470], Micrococcus luteus (species) [taxon 1270], Mycolicibacterium smegmatis MC2 155 (strain) [taxon 246196], Klebsiella pneumoniae (species) [taxon 573], Escherichia coli (E. coli, species) [taxon 562], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Staphylococcus aureus (species) [taxon 1280], Enterococcus faecalis ATCC 29212 (strain) [taxon 1201292], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** C-1-C, C-2-C
- **Cell lines:** A549 — Homo sapiens (Human), Lung adenocarcinoma, Cancer cell line (CVCL_0023), MCF-7 — Homo sapiens (Human), Invasive breast carcinoma of no special type, Cancer cell line (CVCL_0031), SF-268 — Homo sapiens (Human), Astrocytoma, Cancer cell line (CVCL_1689), ET12567 — Homo sapiens (Human), Transformed cell line (CVCL_9X40), HepG-2 — Homo sapiens (Human), Hepatoblastoma, Cancer cell line (CVCL_0027), ATCC 13883 — Homo sapiens (Human), Ataxia telangiectasia syndrome, Transformed cell line (CVCL_1M10)

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC13028485/full.md

## References

24 references — full list in the complete paper: https://tomesphere.com/paper/PMC13028485/full.md

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Source: https://tomesphere.com/paper/PMC13028485