Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 92.89 kDa 
• Atom Count: 6623 
• Residue Count: 775 
• Unique protein chains: 2

2Y1N

Structure of c-Cbl-ZAP-70 peptide complex

• DOI: 10.2210/pdb2Y1N/pdb

• Classification: LIGASE/TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-12-08 Released: 2012-01-18 
• Deposition Author(s): Dou, H., Sibbet, G.J., Huang, D.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.180 
• R-Value Work: 0.158 
• R-Value Observed: 0.159 

Literature

Structural Basis for Autoinhibition and Phosphorylation-Dependent Activation of C-Cbl.

Dou, H., Buetow, L., Hock, A., Sibbet, G.J., Vousden, K.H., Huang, D.T.

(2012) Nat Struct Mol Biol 19: 184

• PubMed: 22266821 
• DOI: 10.1038/nsmb.2231
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Cbls are RING ubiquitin ligases that attenuate receptor tyrosine kinase (RTK) signal transduction. Cbl ubiquitination activity is stimulated by phosphorylation of a linker helix region (LHR) tyrosine residue. To elucidate the mechanism of activation, we determined the structures of human CBL, a CBL-substrate peptide complex and a phosphorylated-Tyr371-CBL-E2-substrate peptide complex, and we compared them with the known structure of a CBL-E2-substrate peptide complex. Structural and biochemical analyses show that CBL adopts an autoinhibited RING conformation, where the RING's E2-binding surface associates with CBL to reduce E2 affinity. Tyr371 phosphorylation activates CBL by inducing LHR conformational changes that eliminate autoinhibition, flip the RING domain and E2 into proximity of the substrate-binding site and transform the RING domain into an enhanced E2-binding module. This activation is required for RTK ubiquitination. Our results present a mechanism for regulation of c-Cbl's activity by autoinhibition and phosphorylation-induced activation.

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Organizational Affiliation: 

The Beatson Institute for Cancer Research, Garscube Estate, Switchback Road, Glasgow, G61 1BD, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
E3 UBIQUITIN-PROTEIN LIGASE	A, C	389	Homo sapiens	Mutation(s): 0  Gene Names: CBL, CBL2, RNF55 EC: 6.3.2 (PDB Primary Data), 2.3.2.27 (UniProt)
Find proteins for P22681 (Homo sapiens) Explore P22681  Go to UniProtKB:  P22681
NIH Common Fund Data Resources
PHAROS  P22681 GTEx  ENSG00000110395

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
TYROSINE-PROTEIN KINASE ZAP-70 ZAP-70,70 KDA ZETA-ASSOCIATED PROTEIN, SYK-RELATED TYROSINE KINASE	B, D	12	Homo sapiens	Mutation(s): 0  Gene Names: ZAP70, SRK EC: 2.7.10.2
Find proteins for P43403 (Homo sapiens) Explore P43403  Go to UniProtKB:  P43403
NIH Common Fund Data Resources
PHAROS  P43403 GTEx  ENSG00000115085

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	A, C	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CA	A, C	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PTR	B,D	L-PEPTIDE LINKING	C9 H12 N O6 P		TYR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.180 
• R-Value Work: 0.158 
• R-Value Observed: 0.159 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.57	α = 90
b = 93.57	β = 90
c = 189.599	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-12-08 
• Released Date: 2012-01-18 
Deposition Author(s): Dou, H., Sibbet, G.J., Huang, D.T.

Revision History 

• Version 1.0: 2012-01-18
  Type: Initial release
  
• Version 1.1: 2012-01-25
  Changes: Other
• Version 1.2: 2012-02-15
  Changes: Other