1Q5Q

The Rhodococcus 20S proteasome


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.246 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structures of the Rhodococcus proteasome with and without its pro-peptides: implications for the role of the pro-peptide in proteasome assembly.

Kwon, Y.D.Nagy, I.Adams, P.D.Baumeister, W.Jap, B.K.

(2004) J.Mol.Biol. 335: 233-245

  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • To understand the role of the pro-peptide in proteasome assembly, we have determined structures of the Rhodococcus proteasome and a mutant form that prevents the autocatalytic removal of its pro-peptides. The structures reveal that the pro-peptide ac ...

    To understand the role of the pro-peptide in proteasome assembly, we have determined structures of the Rhodococcus proteasome and a mutant form that prevents the autocatalytic removal of its pro-peptides. The structures reveal that the pro-peptide acts as an assembly-promoting factor by linking its own beta-subunit to two adjacent alpha-subunits, thereby providing a molecular explanation for the observed kinetics of proteasome assembly. The Rhodococcus proteasome has been found to have a substantially smaller contact region between alpha-subunits compared to those regions in the proteasomes of Thermoplasma, yeast, and mammalian cells, suggesting that a smaller contact area between alpha-subunits is likely the structural basis for the Rhodococcus alpha-subunits not assembling into alpha-rings when expressed alone. Analysis of all available beta-subunit structures shows that the contact area between beta-subunits within a beta-ring is not sufficient for beta-ring self-assembly without the additional contact provided by the alpha-ring. This appears to be a fail-safe mechanism ensuring that the active sites on the beta-subunits are activated only after proteasome assembly is complete.


    Organizational Affiliation

    Graduate Group in Comparative Biochemistry, University of California, Berkeley, CA 94720, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
proteasome alpha-type subunit 1
A, B, C, D, E, F, G
259Rhodococcus erythropolisMutation(s): 0 
Gene Names: prcA1
EC: 3.4.25.1
Find proteins for Q53080 (Rhodococcus erythropolis)
Go to UniProtKB:  Q53080
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
proteasome beta-type subunit 1
H, I, J, K, L, M, N
235Rhodococcus erythropolisMutation(s): 0 
Gene Names: prcB1
EC: 3.4.25.1
Find proteins for Q53079 (Rhodococcus erythropolis)
Go to UniProtKB:  Q53079
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.246 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 150.112α = 90.00
b = 215.307β = 90.00
c = 251.051γ = 90.00
Software Package:
Software NamePurpose
CNSphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-12-16
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance