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 6Z46 | pdb_00006z46

Structure of the S. acidocaldarius 20S proteasome (Saci0613/Saci0662)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.70 Å
  • R-Value Free: 
    0.334 (Depositor), 0.337 (DCC) 
  • R-Value Work: 
    0.287 (Depositor), 0.289 (DCC) 
  • R-Value Observed: 
    0.290 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 6Z46

This is version 1.3 of the entry. See complete history. 

Literature

The proteasome controls ESCRT-III-mediated cell division in an archaeon.

Tarrason Risa, G., Hurtig, F., Bray, S., Hafner, A.E., Harker-Kirschneck, L., Faull, P., Davis, C., Papatziamou, D., Mutavchiev, D.R., Fan, C., Meneguello, L., Arashiro Pulschen, A., Dey, G., Culley, S., Kilkenny, M., Souza, D.P., Pellegrini, L., de Bruin, R.A.M., Henriques, R., Snijders, A.P., Saric, A., Lindas, A.C., Robinson, N.P., Baum, B.

(2020) Science 369

  • DOI: https://doi.org/10.1126/science.aaz2532
  • Primary Citation Related Structures: 
    6Z46

  • PubMed Abstract: 

    Sulfolobus acidocaldarius is the closest experimentally tractable archaeal relative of eukaryotes and, despite lacking obvious cyclin-dependent kinase and cyclin homologs, has an ordered eukaryote-like cell cycle with distinct phases of DNA replication and division. Here, in exploring the mechanism of cell division in S. acidocaldarius , we identify a role for the archaeal proteasome in regulating the transition from the end of one cell cycle to the beginning of the next. Further, we identify the archaeal ESCRT-III homolog, CdvB, as a key target of the proteasome and show that its degradation triggers division by allowing constriction of the CdvB1:CdvB2 ESCRT-III division ring. These findings offer a minimal mechanism for ESCRT-III-mediated membrane remodeling and point to a conserved role for the proteasome in eukaryotic and archaeal cell cycle control.


  • Organizational Affiliation: 
    • MRC-Laboratory for Molecular Cell Biology, University College London (UCL), London, UK.

Macromolecule Content 

  • Total Structure Weight: 677.88 kDa 
  • Atom Count: 41,436 
  • Modeled Residue Count: 5,391 
  • Deposited Residue Count: 6,160 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Proteasome subunit alpha242Sulfolobus acidocaldariusMutation(s): 0 
Gene Names: psmA, ATY89_03330, ATZ20_06355
EC: 3.4.25.1
UniProt
Find proteins for Q4JB24 (Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770))
Explore Q4JB24 
Go to UniProtKB:  Q4JB24
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4JB24
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Proteasome subunit beta198Sulfolobus acidocaldariusMutation(s): 0 
Gene Names: psmB, ATY89_03090, ATZ20_06115
EC: 3.4.25.1
UniProt
Find proteins for Q4JAY3 (Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770))
Explore Q4JAY3 
Go to UniProtKB:  Q4JAY3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4JAY3
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.70 Å
  • R-Value Free:  0.334 (Depositor), 0.337 (DCC) 
  • R-Value Work:  0.287 (Depositor), 0.289 (DCC) 
  • R-Value Observed: 0.290 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 108.287α = 90
b = 193.654β = 90
c = 323.671γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
PHENIXmodel building
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Isaac Newton TrustUnited Kingdom--
Biotechnology and Biological Sciences Research Council (BBSRC)United Kingdom--

Revision History  (Full details and data files)

  • Version 1.0: 2020-08-05
    Type: Initial release
  • Version 1.1: 2020-08-12
    Changes: Author supporting evidence, Database references
  • Version 1.2: 2020-08-19
    Changes: Database references
  • Version 1.3: 2024-01-24
    Changes: Data collection, Database references, Refinement description