Structure of PDB 5gwa Chain A Binding Site BS01

Receptor Information
>5gwa Chain A (length=275) Species: 615 (Serratia marcescens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GTDSLKNSIEKYLKDKKAKVGVAVLGIEDNFKLNVNEKHHYPMQSTYKFH
LALAVLDKLDKENISVDKKLFVKKSDLQPNTWSPLKDKYPNGNLELSFSE
IIKSTVSHSDNNGCDILFRFVGGTNKVHNFISKLGVKNISIKATEEEMHK
AWNVQYTNWTTPDATVQLLKKFYKNEILSKNSYDFLLNTMIETTTGPKRL
KGLLPDGTVVAHKTGSSDTNNKGITAATNDIGIITLPNGKHFAIAVYVSD
SSEKSDVNEKIIAEICKSVWDYLVK
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 chain5gwa Chain A Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5gwa Structural Insights into the TLA-3 Extended-Spectrum beta-Lactamase and Its Inhibition by Avibactam and OP0595.
Resolution1.59 Å
Binding residue
(original residue number in PDB)
S56 W93 S120 N122 T225 G226 S227
Binding residue
(residue number reindexed from 1)
S45 W82 S109 N111 T214 G215 S216
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=5.77,Ki=1.71uM
Enzymatic activity
Catalytic site (original residue number in PDB) S56 K59 S120 E156 K224 S227
Catalytic site (residue number reindexed from 1) S45 K48 S109 E145 K213 S216
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:0030655 beta-lactam antibiotic catabolic process
GO:0046677 response to antibiotic

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:5gwa, PDBe:5gwa, PDBj:5gwa
PDBsum5gwa
PubMed28739781
UniProtA0A0B6VPP7

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