nybomycin

naturalproductmech:mibig-a67b9d4402 MINTED SEEDED antibacterial

Grounding review: No 3-star ChEBI entry shares this structure, so the record keeps a content-hashed identifier.

What these status tags mean

Curation status describes a workflow state. SEEDED means the record entered through the source-seeding workflow; it does not imply that no later curation occurred. PROPOSED marks an addition awaiting review; REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record. These are workflow decisions, not independently verified human review. Agent-assisted contributions may appear in the record history.

Grounding describes the identifier mapping: EXACT uses an ontology identity asserted by the source; MINTED keeps a local identifier when no defensible ontology identity is available; REVIEW_NEEDED flags an exact structure whose ontology identity needs adjudication. The grounding note retains any unresolved alternatives. These tags do not establish the strength of producer or activity evidence.

Structure

Standard InChIKey	HKMUGCUFXWTNSP-UHFFFAOYSA-N
SMILES	CC1=CC(=O)N2COC3=C2C1=CC4=C3N(C(=O)C=C4CO)C
Stereochemistry	fully defined
Cross-references	pubchem:169159

Filing pathway

Alkaloids — computed by NPClassifier npclassifier.gnps2.org@2026-09-07, which is why it is pinned rather than recomputed. The gene cluster's asserted class is other, from MIBiG.

Producer organisms 1

A claim that this taxon makes the compound. The basis says what the evidence addressed — a knockout and a database assertion are not the same claim.

Taxon	Basis	Cluster	Evidence
Streptomyces albus subsp. chlorinus NCBITaxon:337066	SOURCE_ASSERTION	mibig:BGC0001965	PMID:30400361

Occurrences 0

None cited.

Biosynthetic gene clusters 1

Accession	Host	Locus evidence	Genome
mibig:BGC0001965	Streptomyces albus subsp. chlorinus NCBITaxon:337066	CLUSTER_UNSTATED	genbank:MH924838.1

A locus claim and a taxon claim are different questions. Heterologous expression settles the first and leaves the second where the isolation report left it.

Mechanism & Biosynthesis Overview

Bioactivities 6

Entries preserve source qualifiers, targets and evidence. Repeated assay names or values are not independent replications; inspect source detail for differences.

Assay	Result	Target enzyme	Source detail
USP10 deubiquitinase inhibition: Dose-response Confirmation	ACTIVE	UniProtKB:Q14694	pubchem.aid:1645863 assay USP10 deubiquitinase inhibition: Dose-response Confirmation evidence reference pubchem.aid:1645863 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1645863, deposited by 24642; assay type Confirmatory. call ACTIVE target enzyme UniProtKB:Q14694
USP17 deubiquitinase inhibition: Dose-response Confirmation	ACTIVE	UniProtKB:A8MUK1	pubchem.aid:1645864 assay USP17 deubiquitinase inhibition: Dose-response Confirmation evidence reference pubchem.aid:1645864 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1645864, deposited by 24642; assay type Confirmatory. call ACTIVE target enzyme UniProtKB:A8MUK1
USP17 deubiquitinase inhibition: Primary qHTS	ACTIVE	UniProtKB:A8MUK1	pubchem.aid:1645855 assay USP17 deubiquitinase inhibition: Primary qHTS evidence reference pubchem.aid:1645855 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1645855, deposited by 24642; assay type Other. call ACTIVE target enzyme UniProtKB:A8MUK1
USP28 deubiquitinase inhibition: Dose-response Confirmation	ACTIVE	UniProtKB:Q96RU2	pubchem.aid:1645866 assay USP28 deubiquitinase inhibition: Dose-response Confirmation evidence reference pubchem.aid:1645866 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1645866, deposited by 24642; assay type Confirmatory. call ACTIVE target enzyme UniProtKB:Q96RU2
USP8 deubiquitinase inhibition: Dose-response Confirmation	ACTIVE	UniProtKB:P40818	pubchem.aid:1645862 assay USP8 deubiquitinase inhibition: Dose-response Confirmation evidence reference pubchem.aid:1645862 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1645862, deposited by 24642; assay type Confirmatory. call ACTIVE target enzyme UniProtKB:P40818
USP8 deubiquitinase inhibition: Primary qHTS	ACTIVE	UniProtKB:P40818	pubchem.aid:1645853 assay USP8 deubiquitinase inhibition: Primary qHTS evidence reference pubchem.aid:1645853 evidence type DATABASE_ASSERTION notes PubChem BioAssay AID 1645853, deposited by 24642; assay type Other. call ACTIVE target enzyme UniProtKB:P40818

Elsewhere in the fleet

AntibioticMech — antibioticmech:aro-6fbc93a42c (same structure, same inchikey)

Explore across X-Mech

AntibioticMech (nybomycin) ↗ MediaIngredientMech (naturalproductmech:mibig-a67b9d4402) ↗ TaxonMech: Streptomyces albus subsp. chlorinus (NCBITaxon:337066) ↗ PathwayMech (mibig:BGC0001965) ↗

Provenance

Source concept	Source	Version
BGC0001965	MIBIG	4

This page is generated from data/natural_products/alkaloids/nybomycin.yaml, which is generated from the committed inventories. Neither is edited by hand.