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)

Macromolecule Content

• Total Structure Weight: 44.80 kDa 
• Atom Count: 3027 
• Modelled Residue Count: 348 
• Deposited Residue Count: 385 
• Unique protein chains: 2

3O71

Crystal structure of ERK2/DCC peptide complex

• DOI: 10.2210/pdb3O71/pdb

• Classification: TRANSFERASE/PROTEIN BINDING
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-07-30 Released: 2011-06-15 
• Deposition Author(s): Ma, W.F., Shang, Y., Wei, Z.Y., Wen, W.Y., Wang, W.N., Zhang, M.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.240 
• R-Value Work: 0.199 
• R-Value Observed: 0.201 

Literature

Phosphorylation of DCC by ERK2 is facilitated by direct docking of the receptor P1 domain to the kinase

Ma, W., Shang, Y., Wei, Z., Wen, W., Wang, W., Zhang, M.

(2010) Structure 18: 1502-1511

• PubMed: 21070949 
• DOI: 10.1016/j.str.2010.08.011
• Primary Citation of Related Structures:  
  3O71


• PubMed Abstract: 
  

Netrin receptor DCC plays critical roles in many cellular processes, including axonal outgrowth and migration, angiogenesis, and apoptosis, but the molecular basis of DCC-mediated signaling is largely unclear. ERK2, a member of the MAPK family, is one of the few proteins known to be involved in DCC-mediated signaling. Here, we report that ERK2 directly interacts with DCC, and the ERK2-binding region was mapped to the conserved intracellular P1 domain of the receptor. The structure of ERK2 in complex with the P1 domain of DCC reveals that DCC contains a MAPK docking motif. The docking of the P1 domain onto ERK2 physically positions several phosphorylation sites of DCC in the vicinity of the kinase active site. We further show that the docking interaction between the P1 domain and ERK2 is essential for the ERK2-mediated phosphorylation of DCC. We conclude that DCC signaling is directly coupled with MAPK signaling cascades.

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Organizational Affiliation: 

Department of Chemistry, Fudan University, Shanghai, P.R. China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 1	A	358	Rattus norvegicus	Mutation(s): 0  Gene Names: Mapk1, Erk2, Mapk, Prkm1 EC: 2.7.11.24
UniProt
Find proteins for P63086 (Rattus norvegicus) Explore P63086  Go to UniProtKB:  P63086

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptide of Deleted in Colorectal Cancer	B	27	N/A	Mutation(s): 0
UniProt
Find proteins for Q63155 (Rattus norvegicus) Explore Q63155  Go to UniProtKB:  Q63155

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SCN	C [auth A], D [auth A]	THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.240 
• R-Value Work: 0.199 
• R-Value Observed: 0.201 
• Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.178	α = 90
b = 87.178	β = 90
c = 94.459	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-07-30 
• Released Date: 2011-06-15 
Deposition Author(s): Ma, W.F., Shang, Y., Wei, Z.Y., Wen, W.Y., Wang, W.N., Zhang, M.J.

Revision History  

• Version 1.0: 2011-06-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance