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streptolydigin

CHEBI:45773 EXACT SEEDED antimicrobial unspecifiedenzyme inhibitor

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REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record.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.

A monocarboxylic acid amide that is a broad-spectrum antibiotic produced by Streptomyces lydicus.

Structure

Standard InChIKeyKVTPRMVXYZKLIG-NCAOFHFGSA-N
SMILESC[C@H]1[C@H]2C=C[C@@]3(CO3)[C@](O2)(O[C@@H]1[C@H](C)/C=C(\C)/C=C/C(=C\4/C(=O)[C@@H](N(C4=O)[C@@H]5CC[C@@H]([C@@H](O5)C)O)[C@H](C)C(=O)NC)/O)C
Stereochemistryfully defined
Cross-referencespubchem:54708748

Filing pathway

Polyketides — 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, saccharide, 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.

TaxonBasisClusterEvidence
Streptomyces lydicus
NCBITaxon:47763		 BGC_CHARACTERIZED mibig:BGC0001046 PMID:19875077

Occurrences 13

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.

TaxonSourceReference
Streptomyces lydicus
NCBITaxon:47763		 CHEBI 10.1021/ja107190w
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1007/S00253-009-1872-4
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1007/S00253-013-4790-4
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1007/S10295-013-1326-Y
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1021/JA00907A034
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1021/JA107190W
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1038/JA.2012.37
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1038/SREP44786
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1099/MIC.0.061325-0
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1111/J.1751-7915.2012.00352.X
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1128/AAC.01406-09
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.1128/JB.00108-11
Streptomyces lydicus
NCBITaxon:47763		 LOTUS DOI:10.7164/ANTIBIOTICS.36.1536

Biosynthetic gene clusters 1

AccessionHostLocus evidenceGenome
mibig:BGC0001046 Streptomyces lydicus
NCBITaxon:47763 		CLUSTER_DEMONSTRATED genbank:FN433113.1

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

PRODUCERS & OCCURRENCE 1 producer (1 causal) 13 cited occurrences BIOSYNTHETIC LOCUS 1 gene cluster 0 curated pathway steps NATURAL PRODUCT streptolydigin CHEBI:45773 Polyketides TARGETS & BIOACTIVITY 0 molecular targets 2 bioactivities · 0 graphs

Bioactivities 2

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

AssayResultTarget enzymeSource detail
Experimentally measured binding affinity data (Ki) for protein-ligand complexes derived from PDBKI 1.8 uM; ACTIVENot recorded
PMID:16122422
assay
Experimentally measured binding affinity data (Ki) for protein-ligand complexes derived from PDB
evidence
  • reference
    PMID:16122422
    evidence type
    DATABASE_ASSERTION
    notes
    PubChem BioAssay AID 977610, deposited by Shanghai Institute of Organic Chemistry; assay type Other. Target accession 1ZYR_C was left ungrounded because PubChem did not provide a UniProtKB accession.
call
ACTIVE
measurement type
KI
value
1.8
units
uM
activity class
ENZYME_INHIBITOR
Experimentally measured binding affinity data (Ki) for protein-ligand complexes derived from PDBKI 1.8 uM; ACTIVENot recorded
PMID:16122422
assay
Experimentally measured binding affinity data (Ki) for protein-ligand complexes derived from PDB
evidence
  • reference
    PMID:16122422
    evidence type
    DATABASE_ASSERTION
    notes
    PubChem BioAssay AID 977610, deposited by Shanghai Institute of Organic Chemistry; assay type Other. Target accession 1ZYR_D was left ungrounded because PubChem did not provide a UniProtKB accession.
call
ACTIVE
measurement type
KI
value
1.8
units
uM
activity class
ENZYME_INHIBITOR

Elsewhere in the fleet

Explore across X-Mech

AntibioticMech (streptolydigin) ↗ MediaIngredientMech (CHEBI:45773) ↗ TaxonMech: Streptomyces lydicus (NCBITaxon:47763) ↗ PathwayMech (mibig:BGC0001046) ↗

Provenance

Source conceptSourceVersion
BGC0001046MIBIG5
CHEBI:45773CHEBI3-star

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