4RR0

re-refined 1vcw, CRYSTAL STRUCTURE OF DEGS AFTER BACKSOAKING THE ACTIVATING PEPTIDE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.054 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 

  • 1VCW - determined by Wilken, C., Kitzing, K., Kurzbauer, R., Ehrmann, M., Clausen, T.  

Literature

A Conserved Activation Cluster Is Required for Allosteric Communication in HtrA-Family Proteases.

de Regt, A.K.Kim, S.Sohn, J.Grant, R.A.Baker, T.A.Sauer, R.T.

(2015) Structure 23: 517-526

  • DOI: 10.1016/j.str.2015.01.012
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • In E. coli, outer-membrane stress causes a transcriptional response through a signaling cascade initiated by DegS cleavage of a transmembrane antisigma factor. Each subunit of DegS, an HtrA-family protease, contains a protease domain and a PDZ domain ...

    In E. coli, outer-membrane stress causes a transcriptional response through a signaling cascade initiated by DegS cleavage of a transmembrane antisigma factor. Each subunit of DegS, an HtrA-family protease, contains a protease domain and a PDZ domain. The trimeric protease domain is autoinhibited by the unliganded PDZ domains. Allosteric activation requires binding of unassembled outer-membrane proteins (OMPs) to the PDZ domains and protein substrate binding. Here, we identify a set of DegS residues that cluster together at subunit-subunit interfaces in the trimer, link the active sites and substrate binding sites, and are crucial for stabilizing the active enzyme conformation in response to OMP signaling. These residues are conserved across the HtrA-protease family, including orthologs linked to human disease, supporting a common mechanism of allosteric activation. Indeed, mutation of residues at homologous positions in the DegP quality-control protease also eliminates allosteric activation.


    Related Citations: 
    • Crystal structure of the DegS stress sensor: How a PDZ domain recognizes misfolded protein and activates a protease.
      Wilken, C.,Kitzing, K.,Kurzbauer, R.,Ehrmann, M.,Clausen, T.
      (2004) Cell 117: 483


    Organizational Affiliation

    Department of Biology, Massachusetts Institute of Technology, 31 Ames Street, Cambridge, MA 02139, USA.,Department of Biology, Massachusetts Institute of Technology, 31 Ames Street, Cambridge, MA 02139, USA. Electronic address: bobsauer@mit.edu.,Department of Biology, Massachusetts Institute of Technology, 31 Ames Street, Cambridge, MA 02139, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, 31 Ames Street, Cambridge, MA 02139, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protease degS
A, B, C
314Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: degS (hhoB, htrH)
EC: 3.4.21.107
Find proteins for P0AEE3 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AEE3
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.054 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.226 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 206.990α = 90.00
b = 142.733β = 90.09
c = 41.231γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-03-11
    Type: Initial release
  • Version 1.1: 2015-03-18
    Type: Database references