Structure of PDB 6dpz Chain B Binding Site BS01

Receptor Information
>6dpz Chain B (length=358) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
APQQINDIVHRTITPLIEQQKIPGMAVAVIYQGKPYYFTWGYADIAKKQP
VTQQTLFELGSVSKTFTGVLGGDAIARGEIKLSDPTTKYWPELTAKQWNG
ITLLHLATYTAGGLPLQVPDEVKSSSDLLRFYQNWQPAWAPGTQRLYANS
SIGLFGALAVKPSGLSFEQAMQTRVFQPLKLNHTWINVPPAEEKNYAWGY
REGKAVHVSPGALDAEAYGVKSTIEDMARWVQSNLKPLDINEKTLQQGIQ
LAQSRYWQTGDMYQGLGWEMLDWPVNPDSIINGSDNKIALAARPVKAITP
PTPAVRASWVHKTGATGGFGSYVAFIPEKELGIVMLANKNYPNPARVDAA
WQILNALQ
Ligand information
Ligand IDH7D
InChIInChI=1S/C13H24N2O4S/c16-13(17)11-7-3-1-2-4-8-12(11)14-20(18,19)15-9-5-6-10-15/h11-12,14H,1-10H2,(H,16,17)/t11-,12+/m1/s1
InChIKeySEHSQFUMMWGJHC-NEPJUHHUSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01N(C1C(C(O)=O)CCCCCC1)S(N2CCCC2)(=O)=O
CACTVS 3.385OC(=O)[C@@H]1CCCCCC[C@@H]1N[S](=O)(=O)N2CCCC2
OpenEye OEToolkits 2.0.6C1CCCC(C(CC1)C(=O)O)NS(=O)(=O)N2CCCC2
OpenEye OEToolkits 2.0.6C1CCC[C@@H]([C@@H](CC1)C(=O)O)NS(=O)(=O)N2CCCC2
CACTVS 3.385OC(=O)[CH]1CCCCCC[CH]1N[S](=O)(=O)N2CCCC2
FormulaC13 H24 N2 O4 S
Name(1R,2S)-2-{[(pyrrolidin-1-yl)sulfonyl]amino}cyclooctane-1-carboxylic acid
ChEMBL
DrugBank
ZINC
PDB chain6dpz Chain B Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6dpz Ultra-large library docking for discovering new chemotypes.
Resolution1.5 Å
Binding residue
(original residue number in PDB)
S64 L119 Q120 N152 Y221 G317 A318
Binding residue
(residue number reindexed from 1)
S61 L116 Q117 N149 Y218 G314 A315
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) S64 K67 Y150 E272 K315 A318
Catalytic site (residue number reindexed from 1) S61 K64 Y147 E269 K312 A315
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
GO:0042597 periplasmic space

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:6dpz, PDBe:6dpz, PDBj:6dpz
PDBsum6dpz
PubMed30728502
UniProtP00811|AMPC_ECOLI Beta-lactamase (Gene Name=ampC)

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