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arbekacin   Click here for help

GtoPdb Ligand ID: 7345

Synonyms: arbekacin sulfate | habekacin | ME1100 | NPC-14
Approved drug PDB Ligand
arbekacin is an approved drug
Compound class: Synthetic organic
Comment: Arbekacin is a semisynthetic aminoglycoside antibacterial compound that was originally derived from dibekacin [1]. It has activity against both Gram-positive and Gram-negative bacteria [3].
2D Structure
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2D Structure

An image of the ligand's 2D structure. For small molecules with SMILES these are drawn using the NCI/CADD Chemical Identifier Resolver. Click on the image to access the chemical structure search tool with the ligand pre-loaded in the structure editor. For other types of ligands, e.g. longer nucleotides and peptides, a manually drawn representation of the molecule may be provided.

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Physico-chemical Properties
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Physico-chemical Properties

Calculated molecular properties are available for small molecules and natural products (not peptides). Properties were generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/). All properties were selected to enable the prediction of the Lipinski Rule-of-Five profile or ‘druglikeness’ for each ligand. For more info on each category see the help pages.

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Hydrogen bond acceptors 16
Hydrogen bond donors 11
Rotatable bonds 11
Topological polar surface area 297.27
Molecular weight 552.31
XLogP -5.86
No. Lipinski's rules broken 2

Generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/)
SMILES / InChI / InChIKey
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SMILES / InChI / InChIKey

SMILES (Simplified Molecular Input Line Entry Specification) A specification for unambiguously describing the structure of chemical molecules using short ASCII strings. Canonical SMILES specify a unique representation of the 2D structure without chiral or isotopic specifications. Isomeric SMILES include chiral specification and isotopes.

Standard InChI (IUPAC International Chemical Identifier) and InChIKey InChI is a non-proprietary, standard, textual identifier for chemical substances designed to facilitate linking of information and database searching. An InChIKey is a simplified version of a full InChI, designed for easier web searching.

Generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/)

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Canonical SMILES NCCC(C(=O)NC1CC(N)C(C(C1OC1OC(CO)C(C(C1O)N)O)O)OC1OC(CN)CCC1N)O
Isomeric SMILES NCC[C@@H](C(=O)N[C@@H]1C[C@H](N)[C@H]([C@@H]([C@H]1O[C@H]1O[C@H](CO)[C@H]([C@@H]([C@H]1O)N)O)O)O[C@H]1O[C@H](CN)CC[C@H]1N)O
InChI InChI=1S/C22H44N6O10/c23-4-3-12(30)20(34)28-11-5-10(26)18(37-21-9(25)2-1-8(6-24)35-21)17(33)19(11)38-22-16(32)14(27)15(31)13(7-29)36-22/h8-19,21-22,29-33H,1-7,23-27H2,(H,28,34)/t8-,9+,10-,11+,12-,13+,14-,15+,16+,17-,18+,19-,21+,22+/m0/s1
InChI Key MKKYBZZTJQGVCD-XTCKQBCOSA-N

Generated using the Chemistry Development Kit (CDK) (Willighagen EL et al. Journal of Cheminformatics vol. 9:33. 2017, doi:10.1186/s13321-017-0220-4; https://cdk.github.io/)
Classification Click here for help
Compound class Synthetic organic
Approved drug? Yes.
IUPAC Name Click here for help
(2S)-4-amino-N-[(1R,2S,3S,4R,5S)-5-amino-4-[(2R,3R,6S)-3-amino-6-(aminomethyl)oxan-2-yl]oxy-2-[(2S,3R,4S,5S,6R)-4-amino-3,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-3-hydroxycyclohexyl]-2-hydroxybutanamide
International Nonproprietary Names Click here for help
INN number INN
5914 arbekacin
Synonyms Click here for help
arbekacin sulfate | habekacin | ME1100 | NPC-14
Database Links Click here for help
Specialist databases
Antibiotic DB Antibiotic DB Database logo Arbekacin
Other databases
CAS Registry No. 51025-85-5 (source: Scifinder)
ChEBI CHEBI:37922
ChEMBL Ligand CHEMBL426926
DrugBank Ligand DB06696
DrugCentral Ligand 235
GtoPdb PubChem SID 178103917
PubChem CID 68682
RCSB PDB Ligand 84G
Search Google for chemical match using the InChIKey MKKYBZZTJQGVCD-XTCKQBCOSA-N
Search Google for chemicals with the same backbone MKKYBZZTJQGVCD
Search PubMed clinical trials arbekacin
Search PubMed titles arbekacin
Search PubMed titles/abstracts arbekacin
UniChem Compound Search for chemical match using the InChIKey MKKYBZZTJQGVCD-XTCKQBCOSA-N
UniChem Connectivity Search for chemical match using the InChIKey MKKYBZZTJQGVCD-XTCKQBCOSA-N
Wikipedia Arbekacin