Structure of PDB 8gpd Chain A

Receptor sequence
>8gpdA (length=240) Species: 573 (Klebsiella pneumoniae) [Search protein sequence]
IRPTIGQQMETGDQRFGDLVFRQLAPNVWQHTSYLDMPGFGAVASNGLIV
RDGGRVLVVDTAWTDDQTAQILNWIKQEINLPVALAVVTHAHQDKMGGMD
ALHAAGIATYANALSNQLAPQEGMVAAQHSLTFAANGWVEPATAPNFGPL
KVFYPGPGHTSDNITVGIDGTDIAFGGCLIKDSKAKSLGNLGDADTEHYA
ASARAFGAAFPKASMIVMSHSAPDSRAAITHTARMADKLR
3D structure
PDB8gpd Crystal structure of NDM-1 at pH5.5 (Succinate) in complex with hydrolyzed penicillin V
ChainA
Resolution1.4 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.5.2.6: beta-lactamase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 ZN A H120 H122 H189 H90 H92 H159
BS02 ZN A D124 C208 H250 D94 C178 H220
BS03 JXF A M67 W93 H122 Q123 D124 H189 C208 K211 N220 H250 M37 W63 H92 Q93 D94 H159 C178 K181 N190 H220
BS04 JXF A G69 F70 G39 F40
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

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Molecular Function
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Biological Process
External links
PDB RCSB:8gpd, PDBe:8gpd, PDBj:8gpd
PDBsum8gpd
PubMed38336327
UniProtE9NWK5

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