8YVG image
Deposition Date 2024-03-28
Release Date 2024-07-31
Last Version Date 2024-10-16
Entry Detail
PDB ID:
8YVG
Keywords:
Title:
canine immunoproteasome 20S subunit in complex with compound 1
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-8
Gene (Uniprot):PSMB8
Chain IDs:H (auth: C), Z (auth: D)
Chain Length:204
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Chain IDs:S (auth: E), BA (auth: B)
Chain Length:234
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PSMB9
Chain IDs:R (auth: F), U (auth: A)
Chain Length:264
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:J (auth: G), W (auth: L)
Chain Length:263
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:O (auth: K), Y (auth: R)
Chain Length:246
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:A (auth: M), K (auth: H)
Chain Length:241
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:B (auth: N), X (auth: I)
Chain Length:248
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:C (auth: O), L (auth: Z)
Chain Length:261
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:D (auth: P), M (auth: b)
Chain Length:234
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Chain IDs:E (auth: Q), N (auth: J)
Chain Length:255
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Chain IDs:I (auth: S), AA (auth: X)
Chain Length:241
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Chain IDs:F (auth: T), P (auth: V)
Chain Length:201
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Chain IDs:G (auth: U), Q (auth: Y)
Chain Length:205
Number of Molecules:2
Biological Source:Canis lupus familiaris
Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Chain IDs:T (auth: W), V (auth: a)
Chain Length:264
Number of Molecules:2
Biological Source:Canis lupus familiaris
Ligand Molecules
Primary Citation
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.
Bioorg.Med.Chem. 109 117790 117790 (2024)
PMID: 38906067 DOI: 10.1016/j.bmc.2024.117790

Abstact

The immunoproteasome subunit LMP7 (β5i)/LMP2 (β1i) dual blockade has been reported to suppress B cell differentiation and activation, suggesting that the dual inhibition of LMP7/LMP2 is a promising approach for treating autoimmune diseases. In contrast, the inhibition of the constitutive proteasome subunit β5c correlates with cytotoxicity against non-immune cells. Therefore, LMP7/LMP2 dual inhibitors with high selectivity over β5c may be desirable for treating autoimmune diseases. In this study, we present the optimization and discovery of α-amido boronic acids using cryo-electron microscopy (cryo-EM). The exploitation of structural differences between the proteasome subunits led to the identification of a highly selective LMP7/LMP2 dual inhibitor 19. Molecular dynamics simulation based on cryo-EM structures of the proteasome subunits complexed with 19 explained the inhibitory activity profile. In mice immunized with 4-hydroxy-3-nitrophenylacetyl conjugated to ovalbumin, results indicate that 19 is orally bioavailable and shows promise as potential treatment for autoimmune diseases.

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Disease

Primary Citation of related structures