2CF4

Pyrococcus horikoshii TET1 peptidase can assemble into a tetrahedron or a large octahedral shell


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.08 Å
  • R-Value Free: 0.332 
  • R-Value Work: 0.256 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

An Archaeal Peptidase Assembles Into Two Different Quaternary Structures: A Tetrahedron and a Giant Octahedron.

Schoehn, G.Vellieux, F.M.D.Dura, M.A.Receveur-Brechot, V.Fabry, C.M.S.Ruigrok, R.W.H.Ebel, C.Roussel, A.Franzetti, B.

(2006) J.Biol.Chem. 281: 36327

  • DOI: 10.1074/jbc.M604417200
  • Also Cited By: 2WZN, 2WYR

  • PubMed Abstract: 
  • Cellular proteolysis involves large oligomeric peptidases that play key roles in the regulation of many cellular processes. The cobalt-activated peptidase TET1 from the hyperthermophilic Archaea Pyrococcus horikoshii (PhTET1) was found to assemble as ...

    Cellular proteolysis involves large oligomeric peptidases that play key roles in the regulation of many cellular processes. The cobalt-activated peptidase TET1 from the hyperthermophilic Archaea Pyrococcus horikoshii (PhTET1) was found to assemble as a 12-subunit tetrahedron and as a 24-subunit octahedral particle. Both quaternary structures were solved by combining x-ray crystallography and cryoelectron microscopy data. The internal organization of the PhTET1 particles reveals highly self-compartmentalized systems made of networks of access channels extended by vast catalytic chambers. The two edifices display aminopeptidase activity, and their organizations indicate substrate navigation mechanisms different from those described in other large peptidase complexes. Compared with the tetrahedron, the octahedron forms a more expanded hollow structure, representing a new type of giant peptidase complex. PhTET1 assembles into two different quaternary structures because of quasi-equivalent contacts that previously have only been identified in viral capsids.


    Related Citations: 
    • Tetrahedral Aminopeptidase: A Novel Large Protease Complex from Archaea
      Franzetti, B.,Schoehn, G.,Hernandez, J.F.,Jaquinod, M.,Ruigrok, R.W.,Zaccai, G.
      (2002) Embo J. 21: 2132


    Organizational Affiliation

    Laboratoire de Virologie Mol├ęculaire et Structurale c/o EMBL, FRE 2854 CNRS-UJF, 38042 Grenoble, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN PH0519
A
332Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)Mutation(s): 0 
Find proteins for O58255 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3))
Go to UniProtKB:  O58255
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CO
Query on CO

Download SDF File 
Download CCD File 
A
COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.08 Å
  • R-Value Free: 0.332 
  • R-Value Work: 0.256 
  • Space Group: F 41 3 2
Unit Cell:
Length (Å)Angle (°)
a = 221.880α = 90.00
b = 221.880β = 90.00
c = 221.880γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHASERphasing
KBAPLYdata scaling
SELDATdata scaling
SCALKB2data scaling
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-09-14
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance