Structure of PDB 6bc3 Chain A Binding Site BS02

Receptor Information
>6bc3 Chain A (length=268) Species: 550 (Enterobacter cloacae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TPWSKSELVRQLRDLGVRSGDMVMPHVSLRAVGPLADGPQTLVDALIEAV
GPTGNILAFVSWRDSPYEQTLGHDAPPAAIAQSWPAFDPDHAPAYPGFGA
INEFIRTYPGCRRTAHPDASMAAIGPDAAWLVAPHEMGAAYGPRSPIARF
LAHAGKILSIGAGPDAVTALHYAEAVARIEGKRRVTYSMPLLREGKRVWV
TTSDWDSNGILDEYAAPDGPDAVERIARDYLARTRVAQGPVGGAQSRLID
AADIVSFGIEWLEARHAA
Ligand information
Ligand IDSIS
InChIInChI=1S/C19H37N5O7/c1-19(27)7-28-18(13(26)16(19)24-2)31-15-11(23)5-10(22)14(12(15)25)30-17-9(21)4-3-8(6-20)29-17/h3,9-18,24-27H,4-7,20-23H2,1-2H3/t9-,10+,11-,12+,13-,14-,15+,16-,17-,18-,19+/m1/s1
InChIKeyURWAJWIAIPFPJE-YFMIWBNJSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6C[C@@]1(CO[C@@H]([C@@H]([C@H]1NC)O)O[C@H]2[C@@H](C[C@@H]([C@H]([C@@H]2O)O[C@@H]3[C@@H](CC=C(O3)CN)N)N)N)O
OpenEye OEToolkits 1.7.6CC1(COC(C(C1NC)O)OC2C(CC(C(C2O)OC3C(CC=C(O3)CN)N)N)N)O
CACTVS 3.370CN[C@@H]1[C@@H](O)[C@H](OC[C@]1(C)O)O[C@H]2[C@H](N)C[C@H](N)[C@@H](O[C@H]3OC(=CC[C@H]3N)CN)[C@@H]2O
ACDLabs 12.01O(C2C(O)C(OC1OC(=CCC1N)CN)C(N)CC2N)C3OCC(O)(C(NC)C3O)C
CACTVS 3.370CN[CH]1[CH](O)[CH](OC[C]1(C)O)O[CH]2[CH](N)C[CH](N)[CH](O[CH]3OC(=CC[CH]3N)CN)[CH]2O
FormulaC19 H37 N5 O7
Name(1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside;
Sisomicin
ChEMBLCHEMBL221886
DrugBankDB12604
ZINCZINC000056870809
PDB chain6bc3 Chain A Residue 302 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6bc3 A low-barrier hydrogen bond mediates antibiotic resistance in a noncanonical catalytic triad.
Resolution2.047 Å
Binding residue
(original residue number in PDB)
Y85 E86 Y113 D136 D183 H189 S225 N226
Binding residue
(residue number reindexed from 1)
Y67 E68 Y95 D118 D165 H171 S207 N208
Annotation score1
Enzymatic activity
Enzyme Commision number 2.3.1.81: aminoglycoside N(3)-acetyltransferase.
Gene Ontology
Molecular Function
GO:0008080 N-acetyltransferase activity
GO:0016746 acyltransferase activity
GO:0046353 aminoglycoside 3-N-acetyltransferase activity
GO:0046872 metal ion binding
Biological Process
GO:0046677 response to antibiotic

View graph for
Molecular Function

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Biological Process
External links
PDB RCSB:6bc3, PDBe:6bc3, PDBj:6bc3
PDBsum6bc3
PubMed29632894
UniProtQ47030

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