beta PIX-SH3 complexed with a Cbl-b peptide

Experimental Data Snapshot

  • Resolution: 1.85 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.227 
  • R-Value Observed: 0.220 

wwPDB Validation   3D Report Full Report

This is version 2.0 of the entry. See complete history


Cbl promotes clustering of endocytic adaptor proteins.

Jozic, D.Cardenes, N.Deribe, Y.L.Moncalian, G.Hoeller, D.Groemping, Y.Dikic, I.Rittinger, K.Bravo, J.

(2005) Nat Struct Mol Biol 12: 972-979

  • DOI: https://doi.org/10.1038/nsmb1000
  • Primary Citation of Related Structures:  
    2AK5, 2BZ8

  • PubMed Abstract: 

    The ubiquitin ligases c-Cbl and Cbl-b play a crucial role in receptor downregulation by mediating multiple monoubiquitination of receptors and promoting their sorting for lysosomal degradation. Their function is modulated through interactions with regulatory proteins including CIN85 and PIX, which recognize a proline-arginine motif in Cbl and thus promote or inhibit receptor endocytosis. We report the structures of SH3 domains of CIN85 and beta-PIX in complex with a proline-arginine peptide from Cbl-b. Both structures reveal a heterotrimeric complex containing two SH3 domains held together by a single peptide. Trimerization also occurs in solution and is facilitated by the pseudo-symmetrical peptide sequence. Moreover, ternary complexes of CIN85 and Cbl are formed in vivo and are important for the ability of Cbl to promote epidermal growth factor receptor (EGFR) downregulation. These results provide molecular explanations for a novel mechanism by which Cbl controls receptor downregulation.

  • Organizational Affiliation

    Division of Protein Structure, National Institute for Medical Research, The Ridgeway, London NW7 1AA, UK.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Rho guanine nucleotide exchange factor 7
A, B
64Rattus norvegicusMutation(s): 0 
Gene Names: Arhgef7Pak3bpPixb
Find proteins for O55043 (Rattus norvegicus)
Explore O55043 
Go to UniProtKB:  O55043
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO55043
Sequence Annotations
  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
8-residue peptide from a signal transduction protein CBL-BC [auth D]8N/AMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q13191 (Homo sapiens)
Explore Q13191 
Go to UniProtKB:  Q13191
PHAROS:  Q13191
Entity Groups  
UniProt GroupQ13191
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.85 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.227 
  • R-Value Observed: 0.220 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 69.338α = 90
b = 69.338β = 90
c = 58.113γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-10-11
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2023-08-23
    Changes: Atomic model, Data collection, Database references, Refinement description