2Z5C

Crystal Structure of a Novel Chaperone Complex for Yeast 20S Proteasome Assembly


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.250 
  • R-Value Observed: 0.251 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of a chaperone complex that contributes to the assembly of yeast 20S proteasomes

Yashiroda, H.Mizushima, T.Okamoto, K.Kameyama, T.Hayashi, H.Kishimoto, T.Niwa, S.Kasahara, M.Kurimoto, E.Sakata, E.Takagi, K.Suzuki, A.Hirano, Y.Murata, S.Kato, K.Yamane, T.Tanaka, K.

(2008) Nat Struct Mol Biol 15: 228-236

  • DOI: 10.1038/nsmb.1386
  • Primary Citation of Related Structures:  
    2Z5B, 2Z5C, 2Z5E

  • PubMed Abstract: 
  • Eukaryotic 20S proteasomes are composed of two alpha-rings and two beta-rings, which form an alphabetabetaalpha stacked structure. Here we describe a proteasome-specific chaperone complex, designated Dmp1-Dmp2, in budding yeast. Dmp1-Dmp2 directly bound to the alpha5 subunit to facilitate alpha-ring formation ...

    Eukaryotic 20S proteasomes are composed of two alpha-rings and two beta-rings, which form an alphabetabetaalpha stacked structure. Here we describe a proteasome-specific chaperone complex, designated Dmp1-Dmp2, in budding yeast. Dmp1-Dmp2 directly bound to the alpha5 subunit to facilitate alpha-ring formation. In Deltadmp1 cells, alpha-rings lacking alpha4 and decreased formation of 20S proteasomes were observed. Dmp1-Dmp2 interacted with proteasome precursors early during proteasome assembly and dissociated from the precursors before the formation of half-proteasomes. Notably, the crystallographic structures of Dmp1 and Dmp2 closely resemble that of PAC3-a mammalian proteasome-assembling chaperone; nonetheless, neither Dmp1 nor Dmp2 showed obvious sequence similarity to PAC3. The structure of the Dmp1-Dmp2-alpha5 complex reveals how this chaperone functions in proteasome assembly and why it dissociates from proteasome precursors before the beta-rings are assembled.


    Organizational Affiliation

    Laboratory of Frontier Science, Core Technology and Research Center, Tokyo Metropolitan Institute of Medical Science, Bunkyo-ku, Tokyo 113-8613, Japan.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein YPL144WA, D151Saccharomyces cerevisiaeMutation(s): 0 
UniProt
Find proteins for Q12245 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  Q12245
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UniProt GroupQ12245
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Uncharacterized protein YLR021WB, E149Saccharomyces cerevisiaeMutation(s): 0 
UniProt
Find proteins for Q07951 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  Q07951
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UniProt GroupQ07951
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Proteasome component PUP2C, F262Saccharomyces cerevisiaeMutation(s): 0 
EC: 3.4.25.1
UniProt
Find proteins for P32379 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32379 
Go to UniProtKB:  P32379
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UniProt GroupP32379
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.250 
  • R-Value Observed: 0.251 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 158.687α = 90
b = 159.181β = 90
c = 65.035γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-01-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-08-09
    Changes: Data collection, Source and taxonomy