yersiniabactin

naturalproductmech:mibig-5395461679 MINTED SEEDED

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REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record.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	JHYVWAMMAMCUIR-UHFFFAOYSA-N
SMILES	CC1(CSC(=N1)C(C)(C)C(C2CSC(N2)C3CSC(=N3)C4=CC=CC=C4O)O)C(=O)O
Stereochemistry	undefined stereocentres — the InChIKey does not distinguish this compound from its stereoisomers
Cross-references	npatlas:NPA015861

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 nrps, pks, from MIBiG.

Producer organisms 2

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
Pseudomonas syringae pv. tomato str. DC3000 NCBITaxon:223283	BGC_CHARACTERIZED	mibig:BGC0002570	PMID:17660289
Yersinia enterocolitica Strain: WA-314 (sub_strain WA-C) NCBITaxon:630	SOURCE_ASSERTION	mibig:BGC0000467	PMID:9457855, https://www.ebi.ac.uk/ena/browser/view/Y12527.1 reference PMID:9457855 evidence type DATABASE_ASSERTION notes MIBiG BGC0000467 entry version 5; citation taken from the entry level reference https://www.ebi.ac.uk/ena/browser/view/Y12527.1 evidence type CURATOR_INFERENCE notes Strain context: WA-314 (sub_strain WA-C). The Y12527.1 source feature specifies strain WA-314 and sub_strain WA-C. These are source-locus qualifiers, not the separate isolation strain H1852; no evidence grade is upgraded. See issue #901. Taxon identity and evidence grade are unchanged; this is not a species-wide experiment. MIBiG source row BGC0000467:1; SHA256 58d479d0c60839137bc08cc96bb057424c9b782b917b7e893ce89fc0735a0540. Curator: codex; date: 2026-10-13.

Occurrences 1

Somebody found the compound in this organism and cited it. That is not a claim that the organism makes it, and nothing here promotes one to the other.

Taxon	Source	Reference
Yersinia enterocolitica NCBITaxon:630	LOTUS	DOI:10.1128/JB.180.3.538-546.1998

Biosynthetic gene clusters 2

Accession	Host	Locus evidence	Genome
mibig:BGC0002570	Pseudomonas syringae pv. tomato str. DC3000 NCBITaxon:223283	CLUSTER_DEMONSTRATED	genbank:AE016853.1
mibig:BGC0000467	Yersinia enterocolitica NCBITaxon:630	CLUSTER_UNSTATED	genbank:Y12527.1

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

Explore across X-Mech

AntibioticMech (yersiniabactin) ↗ MediaIngredientMech (naturalproductmech:mibig-5395461679) ↗ TaxonMech: Pseudomonas syringae pv. tomato str. DC3000 (NCBITaxon:223283) ↗ TaxonMech: Yersinia enterocolitica (NCBITaxon:630) ↗ PathwayMech (mibig:BGC0002570) ↗ PathwayMech (mibig:BGC0000467) ↗

Open questions 1

shared-structure — This structure is reported by more than one MIBiG entry: BGC0000467, BGC0002570. Confirm they describe the same compound rather than an upstream cross-reference error.

Provenance

Source concept	Source	Version
BGC0002570	MIBIG	2
BGC0000467	MIBIG	5

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