Structure of PDB 5za2 Chain A Binding Site BS01

Receptor Information
>5za2 Chain A (length=354) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LTATVDGIIQPMLKAYRIPGMAVAVLKDGKAHYFNYGVANRESGQRVSEQ
TLFEIGSVSKTLTATLGAYAAVKGGFELDDKVSQHAPWLKGSAFDGVTMA
ELATYSAGGLPLQFPDEVDSNDKMQTYYRSWSPVYPAGTHRQYSNPSIGL
FGHLAANSLGQPFEQLMSQTLLPKLGLHHTYIQVPESAMANYAYGYSKED
KPIRATPGVLAAEAYGIKTGSADLLKFVEANMGYQGDAALKSAIALTHTG
FHSVGEMTQGLGWESYDYPVTEQVLLAGNSPAVSFQANPVTRFAVPKAMG
EQRLYNKTGSTGGFGAYVAFVPARGIAIVMLANRNYPIEARVKAAHAILS
QLAE
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 chain5za2 Chain A Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB5za2 Probing the Mechanism of Inactivation of the FOX-4 Cephamycinase by Avibactam
Resolution1.503 Å
Binding residue
(original residue number in PDB)
S64 L119 Y150 T315 G316 S317
Binding residue
(residue number reindexed from 1)
S57 L112 Y143 T308 G309 S310
Annotation score1
Binding affinityMOAD: Kd=1700nM
PDBbind-CN: -logKd/Ki=5.77,Kd=1.7uM
Enzymatic activity
Catalytic site (original residue number in PDB) S64 K67 Y150 E271 K314 S317
Catalytic site (residue number reindexed from 1) S57 K60 Y143 E264 K307 S310
Enzyme Commision number 3.5.2.6: beta-lactamase.
Gene Ontology
Molecular Function
GO:0008800 beta-lactamase activity
GO:0016787 hydrolase activity
GO:0046872 metal ion binding
Biological Process
GO:0017001 antibiotic catabolic process
GO:0046677 response to antibiotic
Cellular Component
GO:0030288 outer membrane-bounded periplasmic space

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:5za2, PDBe:5za2, PDBj:5za2
PDBsum5za2
PubMed29439972
UniProtQ9L387

[Back to BioLiP]