2W9R

Structural basis of N-end rule substrate recognition in Escherichia coli by the ClpAP adaptor protein ClpS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Basis of N-End Rule Substrate Recognition in Escherichia Coli by the Clpap Adaptor Protein Clps.

Schuenemann, V.J.Kralik, S.M.Albrecht, R.Spall, S.K.Truscott, K.N.Dougan, D.A.Zeth, K.

(2009) Embo Rep. 10: 508

  • DOI: 10.1038/embor.2009.62
  • Primary Citation of Related Structures:  
  • Also Cited By: 3O2O, 3O2H, 3O2B

  • PubMed Abstract: 
  • In Escherichia coli, the ClpAP protease, together with the adaptor protein ClpS, is responsible for the degradation of proteins bearing an amino-terminal destabilizing amino acid (N-degron). Here, we determined the three-dimensional structures of Clp ...

    In Escherichia coli, the ClpAP protease, together with the adaptor protein ClpS, is responsible for the degradation of proteins bearing an amino-terminal destabilizing amino acid (N-degron). Here, we determined the three-dimensional structures of ClpS in complex with three peptides, each having a different destabilizing residue--Leu, Phe or Trp--at its N terminus. All peptides, regardless of the identity of their N-terminal residue, are bound in a surface pocket on ClpS in a stereo-specific manner. Several highly conserved residues in this binding pocket interact directly with the backbone of the N-degron peptide and hence are crucial for the binding of all N-degrons. By contrast, two hydrophobic residues define the volume of the binding pocket and influence the specificity of ClpS. Taken together, our data suggest that ClpS has been optimized for the binding and delivery of N-degrons containing an N-terminal Phe or Leu.


    Organizational Affiliation

    Department of Protein Evolution, Max Planck Institute for Developmental Biology, Spemannstrasse 35, Tübingen D-72076, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ATP-DEPENDENT CLP PROTEASE ADAPTER PROTEIN CLPS
A
108Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: clpS (yljA)
Find proteins for P0A8Q6 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A8Q6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
DNA PROTECTION DURING STARVATION PROTEIN
B
11Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: dps (pexB, vtm)
EC: 1.16.-.-
Find proteins for P0ABT2 (Escherichia coli (strain K12))
Go to UniProtKB:  P0ABT2
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.226 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 28.080α = 97.44
b = 28.230β = 106.45
c = 38.910γ = 92.39
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-04-28
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance