3UNE

Mouse constitutive 20S proteasome


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.222 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Immuno- and constitutive proteasome crystal structures reveal differences in substrate and inhibitor specificity.

Huber, E.M.Basler, M.Schwab, R.Heinemeyer, W.Kirk, C.J.Groettrup, M.Groll, M.

(2012) Cell 148: 727-738

  • DOI: https://doi.org/10.1016/j.cell.2011.12.030
  • Primary Citation of Related Structures:  
    3UN4, 3UN8, 3UNB, 3UNE, 3UNF, 3UNH

  • PubMed Abstract: 

    Constitutive proteasomes and immunoproteasomes shape the peptide repertoire presented by major histocompatibility complex class I (MHC-I) molecules by harboring different sets of catalytically active subunits. Here, we present the crystal structures of constitutive proteasomes and immunoproteasomes from mouse in the presence and absence of the epoxyketone inhibitor PR-957 (ONX 0914) at 2.9 Å resolution. Based on our X-ray data, we propose a unique catalytic feature for the immunoproteasome subunit β5i/LMP7. Comparison of ligand-free and ligand-bound proteasomes reveals conformational changes in the S1 pocket of β5c/X but not β5i, thereby explaining the selectivity of PR-957 for β5i. Time-resolved structures of yeast proteasome:PR-957 complexes indicate that ligand docking to the active site occurs only via the reactive head group and the P1 side chain. Together, our results support structure-guided design of inhibitory lead structures selective for immunoproteasomes that are linked to cytokine production and diseases like cancer and autoimmune disorders.


  • Organizational Affiliation

    Center for Integrated Protein Science at the Department Chemie, Lehrstuhl für Biochemie, Technische Universität München, Garching D-85747, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-2A,
CA [auth c],
O,
QA [auth q]
234Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for P49722 (Mus musculus)
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-4B,
DA [auth d],
P,
RA [auth r]
261Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for Q9R1P0 (Mus musculus)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-7C,
EA [auth e],
Q,
SA [auth s]
248Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for Q9Z2U0 (Mus musculus)
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-5D,
FA [auth f],
R,
TA [auth t]
241Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-1E,
GA [auth g],
S,
UA [auth u]
263Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for Q9R1P4 (Mus musculus)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-3F,
HA [auth h],
T,
VA [auth v]
255Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for O70435 (Mus musculus)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type-6G,
IA [auth i],
U,
WA [auth w]
246Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for Q9QUM9 (Mus musculus)
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-7H,
JA [auth j],
V,
XA [auth x]
234Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for P70195 (Mus musculus)
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-3I,
KA [auth k],
W,
YA [auth y]
205Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-2J,
LA [auth l],
X,
ZA [auth z]
201Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for Q9R1P3 (Mus musculus)
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-5AB [auth 1],
K,
MA [auth m],
Y
205Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for O55234 (Mus musculus)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-1BB [auth 2],
L,
NA [auth n],
Z
213Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for O09061 (Mus musculus)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-4AA [auth a],
CB [auth 3],
M,
OA [auth o]
219Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for P99026 (Mus musculus)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta type-6BA [auth b],
DB [auth 4],
N,
PA [auth p]
205Mus musculusMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for Q60692 (Mus musculus)
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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.222 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 170.97α = 90
b = 201.3β = 108.07
c = 226.01γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
PHASERphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-02-29
    Type: Initial release
  • Version 1.1: 2012-03-28
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Refinement description