biotin
CHEBI:15956 EXACT SEEDED antiviralenzyme 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REVIEWED records curator sign-off on identity, structure, filing class and producer claims; DEPRECATED retains a superseded or out-of-scope record.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.
An organic heterobicyclic compound that consists of 2-oxohexahydro-1H-thieno[3,4-d]imidazole having a valeric acid substituent attached to the tetrahydrothiophene ring. The parent of the class of biotins.
Structure
| Standard InChIKey | YBJHBAHKTGYVGT-ZKWXMUAHSA-N |
|---|---|
| SMILES | OC(=O)CCCC[C@@H]1SC[C@@H]2NC(=O)N[C@H]12 |
| Stereochemistry | fully defined |
| Cross-references | npatlas:NPA013155, pubchem:171548 |
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 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 |
|---|---|---|---|
| Aspergillus nidulans NCBITaxon:162425 |
SOURCE_ASSERTION | mibig:BGC0001238 | PMID:20713166 |
| Aspergillus nidulans NCBITaxon:162425 |
SOURCE_ASSERTION | mibig:BGC0001239 | PMID:20713166 |
Occurrences 23
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 |
|---|---|---|
| Mus musculus NCBITaxon:10090 |
CHEBI | PMID:19425150 |
| Lysinibacillus sphaericus NCBITaxon:1421 |
LOTUS | DOI:10.1271/BBB1961.49.2783 |
| Achromobacter NCBITaxon:222 |
LOTUS | DOI:10.1016/0006-291X(81)90262-X |
| Lipomyces starkeyi NCBITaxon:29829 |
LOTUS | DOI:10.2323/JGAM.20.277 |
| Glycine max NCBITaxon:3847 |
LOTUS | DOI:10.1080/09540100903203004 |
| Phaseolus vulgaris NCBITaxon:3885 |
LOTUS | DOI:10.3390/IJMS19041049 |
| Phaseolus vulgaris NCBITaxon:3885 |
LOTUS | DOI:10.3390/METABO4030599 |
| Phycomyces blakesleeanus NCBITaxon:4837 |
LOTUS | DOI:10.1016/0031-9422(96)00146-X |
| Escherichia coli NCBITaxon:562 |
LOTUS | DOI:10.1021/JA00085A061 |
| Escherichia coli NCBITaxon:562 |
LOTUS | DOI:10.1038/MSB.2011.65 |
| Escherichia coli NCBITaxon:562 |
LOTUS | DOI:10.1073/PNAS.69.8.2219 |
| Escherichia coli NCBITaxon:562 |
CHEBI | PMID:21988831 |
| Caenorhabditis elegans NCBITaxon:6239 |
LOTUS | DOI:10.3389/FMOLB.2018.00096 |
| Artemia salina NCBITaxon:85549 |
LOTUS | DOI:10.1021/JF60200A008 |
| Homo sapiens NCBITaxon:9606 |
LOTUS | DOI:10.1007/S11306-012-0464-Y |
| Homo sapiens NCBITaxon:9606 |
LOTUS | DOI:10.1007/S11306-016-1051-4 |
| Homo sapiens NCBITaxon:9606 |
LOTUS | DOI:10.1038/NBT.2488 |
| Homo sapiens NCBITaxon:9606 |
LOTUS | DOI:10.1111/J.1600-0404.1999.TB07369.X |
| Homo sapiens NCBITaxon:9606 |
CHEBI | Geigy Scientific Tables, 8th Rev edition, pp. 130. Edited by C. Lentner, West Cadwell, N.J.: Medical education Div., Ciba-Geigy Corp. Basel, Switzerland c1981-1992. |
| Homo sapiens NCBITaxon:9606 |
CHEBI | MTBLS87 |
| Homo sapiens NCBITaxon:9606 |
CHEBI | PMID:10577274 |
| Homo sapiens NCBITaxon:9606 |
CHEBI | Sugimoto et al. (2013) Physiological and environmental parameters associated with mass spectrometry-based salivary metabolomic profiles. |
| Aspergillus nidulans NCBITaxon:162425 |
LOTUS | DOI:10.1016/J.FGB.2010.08.004 |
Biosynthetic gene clusters 2
| Accession | Host | Locus evidence | Genome |
|---|---|---|---|
| mibig:BGC0001238 | Aspergillus nidulans NCBITaxon:162425 |
CLUSTER_UNSTATED | genbank:FJ430072.1 |
| mibig:BGC0001239 | Aspergillus nidulans NCBITaxon:162425 |
CLUSTER_UNSTATED | genbank:FJ430073.1 |
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
Causal graph — bioactivity 3 nodes, 2 edges
Biotin binds the Streptomyces avidinii streptavidin and chicken avidin subunits captured in homotetrameric biotin complexes.
| Subject | Predicate | Object | Notes | Evidence |
|---|---|---|---|---|
| biotin | binds | Streptomyces avidinii streptavidin | PubChem BioAssay AID 977611 maps this exact Standard InChIKey to an active 40 fM Kd row for PDB 1STP chain A; PDBe maps 1STP_A to Streptomyces avidinii UniProtKB:P22629, and RCSB reports BTN biotin as the 1STP non-polymer ligand. | DOI:10.1126/science.2911722 |
| biotin | binds | chicken avidin | PubChem BioAssay AID 977611 maps this exact Standard InChIKey to an active 1 fM Kd row for PDB 1AVD chain A; PDBe maps 1AVD_A to Gallus gallus UniProtKB:P02701, and RCSB reports BTN biotin as the 1AVD entity 3 ligand. | DOI:10.1006/jmbi.1993.1321 |
Every edge carries its own citation; an uncited edge is refused by the corpus tests.
Bioactivities 25
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 |
|---|---|---|---|
| Counterscreen for IDE activators: Fluorescence polarization-based biochemical high throughput dose response assay for activators of recombinant IDE | EC50 2.526 uM; ACTIVE | Not recorded | pubchem.aid:588681
|
| Counterscreen for IDE activators: Fluorescence polarization-based biochemical high throughput dose response assay to identify fluorescent artifacts and/or optically active compounds | EC50 2.057 uM; ACTIVE | Not recorded | pubchem.aid:588442
|
| Counterscreen for activators of insulin-degrading enzyme (IDE): fluorescence-based cell-based high throughput dose response LDH release assay to identify compounds that are cytotoxic to HEK cells or compromise cell membrane permeability | IC50 89.251 uM; INACTIVE | Not recorded | pubchem.aid:588440
|
| Counterscreen for inhibitors of the interaction of the Ras and Rab interactor 1 protein (Rin1) and the c-abl oncogene 1, non-receptor tyrosine kinase (Abl): Fluorescence-based biochemical high throughput dose response assay to identify GFP inhibitors and fluorescence quenchers | IC50 67.588 uM; INACTIVE | Not recorded | pubchem.aid:602182
|
| Cytochrome P450 Family 2 Subfamily C Member 19 (CYP2C19) small molecule antagonists: luciferase reporter qHTS assay | OTHER 0.1096 uM; INACTIVE | Not recorded | pubchem.aid:1671197
|
| Cytochrome P450 Family 2 Subfamily C Member 19 (CYP2C19) small molecule antagonists: luciferase reporter qHTS assay | OTHER 0.1096 uM; INACTIVE | Not recorded | pubchem.aid:1671197
|
| Cytochrome P450 Family 2 Subfamily D Member 6 (CYP2D6) small molecule antagonists: luciferase reporter qHTS assay | OTHER 43.6486 uM; NOT_DETERMINED | Not recorded | pubchem.aid:1671196
|
| Cytochrome P450 Family 2 Subfamily D Member 6 (CYP2D6) small molecule antagonists: luciferase reporter qHTS assay | OTHER 43.6486 uM; NOT_DETERMINED | Not recorded | pubchem.aid:1671196
|
| Cytochrome P450 family 3 subfamily A member 7 (CYP3A7) small molecule antagonists: luciferase cell-based qHTS assay | OTHER 21.8761 uM; NOT_DETERMINED | Not recorded | pubchem.aid:1963596
|
| Cytochrome P450 family 3 subfamily A member 7 (CYP3A7) small molecule antagonists: luciferase cell-based qHTS assay | OTHER 21.8761 uM; NOT_DETERMINED | Not recorded | pubchem.aid:1963596
|
| Discovery of Small Molecule Probes for H1N1 Influenza NS1A | IC50 0.2 uM; ACTIVE | Not recorded | pubchem.aid:504329
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 1e-09 uM; ACTIVE | Not recorded | PMID:8515446
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 0.0002 uM; ACTIVE | Not recorded | PMID:10850797
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 0.0002 uM; ACTIVE | Not recorded | PMID:10850797
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 2.8e-05 uM; ACTIVE | Not recorded | PMID:12925786
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 2.8e-05 uM; ACTIVE | Not recorded | PMID:12925786
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 1.1e-05 uM; ACTIVE | Not recorded | PMID:12925786
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 1.1e-05 uM; ACTIVE | Not recorded | PMID:12925786
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 6.9e-07 uM; ACTIVE | Not recorded | PMID:12925786
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 6.9e-07 uM; ACTIVE | Not recorded | PMID:12925786
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 4e-08 uM; ACTIVE | Not recorded | PMID:2911722
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 0.0439 uM; ACTIVE | Not recorded | PMID:9568892
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 1e-06 uM; ACTIVE | Not recorded | PMID:9636711
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 1e-06 uM; ACTIVE | Not recorded | PMID:9636711
|
| Experimentally measured binding affinity data (Kd) for protein-ligand complexes derived from PDB | KD 1e-06 uM; ACTIVE | Not recorded | PMID:9636711
|
Explore across X-Mech
Open questions 1
shared-structure — This structure is reported by more than one MIBiG entry: BGC0001238, BGC0001239. Confirm they describe the same compound rather than an upstream cross-reference error.
Provenance
| Source concept | Source | Version |
|---|---|---|
| BGC0001238 | MIBIG | 3 |
| BGC0001239 | MIBIG | 3 |
| CHEBI:15956 | CHEBI | 3-star |
This page is generated from data/natural_products/alkaloids/biotin.yaml, which is generated from the committed inventories. Neither is edited by hand.