3ACP

Crystal Structure of Yeast Rpn14, a Chaperone of the 19S Regulatory Particle of the Proteasome


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.203 

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This is version 1.1 of the entry. See complete history


Literature

Crystal structure of yeast Rpn14, a chaperone of the 19S regulatory particle of the proteasome

Kim, S.Saeki, Y.Fukunaga, K.Suzuki, A.Takagi, K.Yamane, T.Tanaka, K.Mizushima, T.Kato, K.

(2010) J Biol Chem 285: 15159-15166

  • DOI: https://doi.org/10.1074/jbc.M110.104042
  • Primary Citation of Related Structures:  
    3ACP

  • PubMed Abstract: 

    The ubiquitin-proteasome pathway is a major proteolytic system in eukaryotic cells and regulates various cellular processes. The 26 S proteasome, the central enzyme of this pathway, consists of a proteolytic core particle and two 19 S regulatory particles (RPs) composed of ATPase (Rpt) and non-ATPase (Rpn) subunits. Growing evidence indicates that proteasome assembly is assisted by a variety of chaperones. In particular, it has been reported recently that Nas2, Nas6, Rpn14, and Hsm3 bind specific Rpt subunits, thereby contributing to the formation of 19 S RP. Rpn14 transiently binds to the C-terminal domain of the Rpt6 subunit (Rpt6-C) during maturation of the ATPase ring of 19 S RP. In this study, we determined the crystal structure of yeast Rpn14 at 2.0 A resolution, which revealed that this chaperone consists of a unique N-terminal domain with unknown function and a C-terminal domain assuming a canonical seven-bladed beta-propeller fold. The Rpt6-binding site on Rpn14 was predicted based on structural comparison with the complex formed between Nas6 and Rpt3-C. The top face of Rpn14 exhibits a highly acidic surface area, whereas the putative interacting surface of Rpt6-C is basic. By inspection of structural data along with genetic and biochemical data, we determined the specific residues of Rpn14 and Rpt6 for complementary charge interactions that are required for 19 S RP assembly.


  • Organizational Affiliation

    Graduate School of Pharmaceutical Sciences, Nagoya City University, 3-1 Tanabe-dori, Mizuho-ku, Nagoya 467-8603.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
WD repeat-containing protein YGL004C417Saccharomyces cerevisiaeMutation(s): 0 
UniProt
Find proteins for P53196 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P53196 
Go to UniProtKB:  P53196
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP53196
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.203 
  • Space Group: P 64
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.581α = 90
b = 78.581β = 90
c = 110.122γ = 120
Software Package:
Software NamePurpose
SCALAdata scaling
SHELXphasing
DMphasing
REFMACrefinement
PDB_EXTRACTdata extraction
DENZOdata reduction
MOSFLMdata reduction
SHARPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-03-16
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance