edeine D
antibioticmech:aro-1cc6dbd596
·ANTIBACTERIAL
·MINTED
SEEDED
Edeine D is a subtype of edeine similar to edeine A with the beta-tyr replaced by beta-phe-beta-ala. Edeines bind to the 30S subunit to block fMet-tRNA interaction at the P site, inhibiting protein synthesis and subsequent structure/function processes critical for life or replication. — PMID:70202
Machine-generated and unreviewed. Identity, structure and
cross-references come straight from ChEBI's and CARD's own data; no curator has
signed off on this record yet.
Classification
nonribosomal peptide antibioticsARO:3009657
Strictly broader compounds or drug classes this molecule belongs to.
Chemical structure
Computed structure properties
| Molecular formula | C33H58N10O9 |
|---|
| Charge | 0 |
|---|
| Average mass | 738.9 Da |
|---|
| Monoisotopic mass | 738.43882347 Da |
|---|
| Source | PubChem · retrieved 2026-08-29 |
|---|
| InChIKey | FPJBIRIVZPUIOL-DDURVGIBSA-N |
|---|
SMILES
C1=CC=C(C=C1)[C@@H](CN)C(=O)N([C@@H](CN)C(=O)N[C@H](CCC[C@@H]([C@@H](CC(=O)NC(=O)CNCCCNCCCCN)O)N)C(=O)O)C(=O)C[C@H](N)O
InChI
InChI=1S/C33H58N10O9/c34-12-4-5-13-39-14-7-15-40-20-29(47)42-28(46)16-26(44)23(37)10-6-11-24(33(51)52)41-31(49)25(19-36)43(30(48)17-27(38)45)32(50)22(18-35)21-8-2-1-3-9-21/h1-3,8-9,22-27,39-40,44-45H,4-7,10-20,34-38H2,(H,41,49)(H,51,52)(H,42,46,47)/t22-,23+,24-,25+,26-,27-/m1/s1
Cross-references
Equivalent identifiers for this same structure in other resources.
Source concepts
Every upstream concept that resolved to this record. The merge is
the product: this is what shows ChEBI and CARD are describing the same structure.
Upstream concepts merged into this record
| Source | Native ID | Label | Minted CURIE | Version |
|---|
| ARO |
ARO:3000135 |
edeine D |
antibioticmech:aro-1cc6dbd596 |
2026-08-30 |
Molecular targets
The molecular entity or process this compound acts on. Each target
carries evidence — this is a mechanistic claim, not a classification.
30S ribosomal subunit P-site RIBOSOMAL_SUBUNIT DIRECT_BINDING_TARGET
ARO:3000756
CARD/ARO database assertion; target organism, strain, and assay are not specified. The 30S P-site is asserted as the target site. Evidence status: PRIMARY_EVIDENCE_NEEDED. Source: CARD_ARO 2026-08-30 (retrieved 2026-08-30).
- ARO:3000756 (CARD/ARO asserts targeted_by_antibiotic ARO:3000135 (edeine D); database assertion, not a primary citation.)
Resistance mechanisms
2 known routes by which microbes
resist this compound, grounded in ARO where CARD models them. Grouped by mechanism
type — expand a group to see its determinants.
ANTIBIOTIC_INACTIVATION 1
ANTIBIOTIC_INACTIVATION
| Determinant | ARO ID | Organism | Gene families | Evidence |
|---|
| EdeQ |
ARO:3004063 |
not organism-specific |
— |
- ARO:3004063 (CARD/ARO asserts confers_resistance_to_antibiotic ARO:3000135 (edeine D); database assertion, not a primary citation.)
|
ANTIBIOTIC_TARGET_ALTERATION 1
ANTIBIOTIC_TARGET_ALTERATION
| Determinant | ARO ID | Organism | Gene families | Evidence |
|---|
| Escherichia coli 16S rRNA mutation conferring resistance to edeine |
ARO:3003223 |
not organism-specific |
— |
- ARO:3003223 (CARD/ARO asserts confers_resistance_to_antibiotic ARO:3000135 (edeine D); database assertion, not a primary citation.)
|
Curation history
-
SEEDED_FROM_SOURCES
2026-08-30 · seed_from_sources
Seeded from data/raw/ inventories (ARO)
-
RESEEDED_FROM_SOURCES
2026-08-30 · seed_from_sources
Re-seeded from updated data/raw/ inventories
-
RESEEDED_FROM_SOURCES
2026-08-30 · seed_from_sources
Re-seeded from updated data/raw/ inventories
-
RESEEDED_FROM_SOURCES
2026-08-31 · seed_from_sources
Re-seeded from updated data/raw/ inventories
Provenance
Seeded by scripts/seed_from_sources.py from the committed
inventories in data/raw/.
View the record.