Structure of PDB 8r04 Chain E Binding Site BS01

Receptor Information
>8r04 Chain E (length=179) Species: 63363 (Aquifex aeolicus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VPIVYDIYSRLLQDRIVLLGSPIDDHVANLIVAQLLFLESQDPDKDIYLY
INSPGGSVTAGLAIYDTMQYIKPDVVTICMGQAASMGAILLAAGAPGKRY
ALPHSRIMIHQPLGGIQGQATDIIIHAEEIKRIKEMLIDILAKHTGQPKD
KIANDIERDYFMSPYEAKDYGLIDKVIEK
Ligand information
Ligand IDVSZ
InChIInChI=1S/C18H32N2O6/c1-7-11(6)14(18(25)26)20-16(23)13(10(4)5)19-17(24)15(22)12(8-21)9(2)3/h8-15,22H,7H2,1-6H3,(H,19,24)(H,20,23)(H,25,26)/t11-,12-,13-,14-,15+/m0/s1
InChIKeyNPCIMWWVLQVJPA-YYFQZIEXSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7CCC(C)C(C(=O)O)NC(=O)C(C(C)C)NC(=O)C(C(C=O)C(C)C)O
CACTVS 3.385CC[CH](C)[CH](NC(=O)[CH](NC(=O)[CH](O)[CH](C=O)C(C)C)C(C)C)C(O)=O
OpenEye OEToolkits 2.0.7CC[C@H](C)[C@@H](C(=O)O)NC(=O)[C@H](C(C)C)NC(=O)[C@@H]([C@@H](C=O)C(C)C)O
CACTVS 3.385CC[C@H](C)[C@H](NC(=O)[C@@H](NC(=O)[C@H](O)[C@@H](C=O)C(C)C)C(C)C)C(O)=O
FormulaC18 H32 N2 O6
NameCystargolide A (bound);
(2S,3S)-2-[[(2S)-2-[[(2R,3S)-3-methanoyl-4-methyl-2-oxidanyl-pentanoyl]amino]-3-methyl-butanoyl]amino]-3-methyl-pentanoic acid
ChEMBL
DrugBank
ZINC
PDB chain8r04 Chain E Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8r04 Structure of Staphylococcus aureus ClpP Bound to the Covalent Active Site Inhibitor Cystargolide A
Resolution2.1 Å
Binding residue
(original residue number in PDB)
G76 V78 S105 M106 H130 P132 L133 I153
Binding residue
(residue number reindexed from 1)
G56 V58 S85 M86 H110 P112 L113 I133
Annotation score1
Enzymatic activity
Enzyme Commision number 3.4.21.92: endopeptidase Clp.
Gene Ontology
Molecular Function
GO:0004176 ATP-dependent peptidase activity
GO:0004252 serine-type endopeptidase activity
GO:0008236 serine-type peptidase activity
GO:0051117 ATPase binding
Biological Process
GO:0006508 proteolysis
GO:0006515 protein quality control for misfolded or incompletely synthesized proteins
Cellular Component
GO:0005737 cytoplasm
GO:0009368 endopeptidase Clp complex

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Cellular Component
External links
PDB RCSB:8r04, PDBe:8r04, PDBj:8r04
PDBsum8r04
PubMed38029352
UniProtO67357|CLPP_AQUAE ATP-dependent Clp protease proteolytic subunit (Gene Name=clpP)

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