Structure of PDB 6lc8 Chain A Binding Site BS01

Receptor Information
>6lc8 Chain A (length=357) Species: 550 (Enterobacter cloacae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PMSEKQLADVVERTVTPLMKAQAIPGMAVAVIYQGQPHYFTFGKADVAAN
KPVTPQTLFELGSVSKTFTGVLGGDAIARKEISLADPVTKYWPELTGKQW
QGIRLLDLATYTAGGLPLQVPDNVTDNASLLRFYQSWQPKWAPGTTRLYA
NTSIGLFGSLAVKPSGMRFEQAMAERVFKPLKLNHTWINVPHAEESHYAW
GYREGKAVHVSPGMLDAEAYGVKSNVKDMASWVMANMAPETLPPSTLQQG
IALAQSRYWRVGAMYQGLGWEMLNWPVDVKTVVDGSDNKVALVPVAEVNP
PAPPVKASWVHKTGSTGGFGSYVAFIPEKQIGIVMLANKSYPNPVRVETA
YRILETL
Ligand information
Ligand IDNXL
InChIInChI=1S/C7H13N3O6S/c8-7(12)6-2-1-5(3-10(6)4-11)9-16-17(13,14)15/h4-6,9H,1-3H2,(H2,8,12)(H,13,14,15)/t5-,6+/m1/s1
InChIKeyWJDGWXPPFHLLNL-RITPCOANSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01O=CN1C(C(N)=O)CCC(C1)NOS(=O)(O)=O
OpenEye OEToolkits 1.7.6C1CC(N(CC1NOS(=O)(=O)O)C=O)C(=O)N
CACTVS 3.385NC(=O)[CH]1CC[CH](CN1C=O)NO[S](O)(=O)=O
OpenEye OEToolkits 1.7.6C1C[C@H](N(C[C@@H]1NOS(=O)(=O)O)C=O)C(=O)N
CACTVS 3.385NC(=O)[C@@H]1CC[C@H](CN1C=O)NO[S](O)(=O)=O
FormulaC7 H13 N3 O6 S
Name(2S,5R)-1-formyl-5-[(sulfooxy)amino]piperidine-2-carboxamide;
avibactam, bound form;
NXL104, bound form
ChEMBL
DrugBank
ZINCZINC000098209247
PDB chain6lc8 Chain A Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6lc8 Structural Basis of Reduced Susceptibility to Ceftazidime-Avibactam and Cefiderocol inEnterobacter cloacaeDue to AmpC R2 Loop Deletion.
Resolution1.6 Å
Binding residue
(original residue number in PDB)
S64 Q120 Y150 N152 N289 T314 G315 S316 N344
Binding residue
(residue number reindexed from 1)
S63 Q119 Y149 N151 N288 T313 G314 S315 N343
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) S64 K67 Y150 E272 K313 S316
Catalytic site (residue number reindexed from 1) S63 K66 Y149 E271 K312 S315
Enzyme Commision number 3.5.2.6: beta-lactamase.
Gene Ontology
Molecular Function
GO:0008800 beta-lactamase activity
GO:0016787 hydrolase activity
Biological Process
GO:0017001 antibiotic catabolic process
GO:0046677 response to antibiotic
Cellular Component
GO:0030288 outer membrane-bounded periplasmic space

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Molecular Function

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Cellular Component
External links
PDB RCSB:6lc8, PDBe:6lc8, PDBj:6lc8
PDBsum6lc8
PubMed32284381
UniProtA0A0A0Q7Z8

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