Structure of PDB 3dy4 Chain V Binding Site BS01

Receptor Information
>3dy4 Chain V (length=222) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAA
DTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIV
AGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEE
AIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQ
KSYKFPRGTTAVLKESIVNICD
Ligand information
Ligand IDSLA
InChIInChI=1S/C10H17NO4/c1-5(2)7(13)10(4-12)8(14)6(3)9(15)11-10/h4-8,13-14H,1-3H3,(H,11,15)/t6-,7+,8+,10-/m1/s1
InChIKeyNREVXJAQSWMFJZ-CHIQAWFVSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6C[C@@H]1[C@@H]([C@@](NC1=O)(C=O)[C@H](C(C)C)O)O
CACTVS 3.385CC(C)[C@H](O)[C@]1(NC(=O)[C@H](C)[C@@H]1O)C=O
OpenEye OEToolkits 1.7.6CC1C(C(NC1=O)(C=O)C(C(C)C)O)O
CACTVS 3.385CC(C)[CH](O)[C]1(NC(=O)[CH](C)[CH]1O)C=O
ACDLabs 12.01O=CC1(NC(=O)C(C1O)C)C(O)C(C)C
FormulaC10 H17 N O4
NameOmuralide, open form;
(2R,3S,4R)-3-hydroxy-2-[(1S)-1-hydroxy-2-methylpropyl]-4-methyl-5-oxopyrrolidine-2-carbaldehyde
ChEMBL
DrugBank
ZINCZINC000098209411
PDB chain3dy4 Chain V Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3dy4 Structural analysis of spiro beta-lactone proteasome inhibitors.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		T1 T21 A46 G47 A49
Binding residue
(residue number reindexed from 1)		T1 T21 A46 G47 A49
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) T1 D17 R19 K33 G47 S129 D166 S169
Catalytic site (residue number reindexed from 1) T1 D17 R19 K33 G47 S129 D166 S169
Enzyme Commision number 3.4.25.1: proteasome endopeptidase complex.
Gene Ontology
Molecular Function
GO:0004298 threonine-type endopeptidase activity
Biological Process
GO:0051603 proteolysis involved in protein catabolic process
Cellular Component
GO:0005839 proteasome core complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3dy4, PDBe:3dy4, PDBj:3dy4
PDBsum3dy4
PubMed18928262
UniProtP25043|PSB2_YEAST Proteasome subunit beta type-2 (Gene Name=PUP1)

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