Structure of PDB 8yvp Chain S Binding Site BS01

Receptor Information
>8yvp Chain S (length=212) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
FSPYAFNGGTVLAIAGEDFSIVASDTRLSEGFSIHTRDSPKCYKLTDKTV
IGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRF
FPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDN
QVGFKNMQNVEHVPLTLDRAMRLVKDVFISAAERDVYTGDALRICIVTKE
GIREETVPLRKD
Ligand information
Ligand IDA1L0D
InChIInChI=1S/C20H38BN5O5/c1-14(17(22)13-27)31-21(29,30)19(15-8-4-2-5-9-15)23-20(28)18-12-26(25-24-18)16-10-6-3-7-11-16/h12,14-17,19,27,29H,2-11,13,22,30H2,1H3,(H,23,28)/t14-,17-,19+/m1/s1
InChIKeyFHUGSJNRJRMQPB-BJZITVGISA-N
SMILES
SoftwareSMILES
CACTVS 3.385C[CH](O[B-](O)([OH2+])[CH](NC(=O)c1cn(nn1)C2CCCCC2)C3CCCCC3)[CH](N)CO
CACTVS 3.385C[C@@H](O[B-](O)([OH2+])[C@@H](NC(=O)c1cn(nn1)C2CCCCC2)C3CCCCC3)[C@H](N)CO
OpenEye OEToolkits 2.0.7B(C(C1CCCCC1)NC(=O)c2cn(nn2)C3CCCCC3)([OH2])(O)OC(C)C(CO)N
OpenEye OEToolkits 2.0.7B([C@H](C1CCCCC1)NC(=O)c2cn(nn2)C3CCCCC3)([OH2])(O)O[C@H](C)[C@@H](CO)N
FormulaC20 H38 B N5 O5
Name[(2~{R},3~{R})-3-azanyl-4-oxidanyl-butan-2-yl]oxy-[(~{R})-cyclohexyl-[(1-cyclohexyl-1,2,3-triazol-4-yl)carbonylamino]methyl]-$l^{3}-oxidanyl-oxidanyl-boron
ChEMBL
DrugBank
ZINC
PDB chain8yvp Chain D Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8yvp Optimization of alpha-amido boronic acids via cryo-electron microscopy analysis: Discovery of a novel highly selective immunoproteasome subunit LMP7 ( beta 5i)/LMP2 ( beta 1i) dual inhibitor.
Resolution2.5 Å
Binding residue
(original residue number in PDB)
Y97 F101
Binding residue
(residue number reindexed from 1)
Y96 F100
Annotation score1
Gene Ontology
Cellular Component
GO:0000502 proteasome complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005839 proteasome core complex
GO:0019774 proteasome core complex, beta-subunit complex

View graph for
Cellular Component
External links
PDB RCSB:8yvp, PDBe:8yvp, PDBj:8yvp
PDBsum8yvp
PubMed38906067
UniProtO09061|PSB1_MOUSE Proteasome subunit beta type-1 (Gene Name=Psmb1)

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