Biological Assembly 1  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - AB 

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

Macromolecule Content

• Total Structure Weight: 80261.54 
• Atom Count: 4889 
• Residue Count: 722 
• Unique protein chains: 2

2X11

Crystal structure of the complete EphA2 ectodomain in complex with ephrin A5 receptor binding domain

• DOI: 10.2210/pdb2X11/pdb

• Classification: RECEPTOR/SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens


• Deposited: 2009-12-21 Released: 2010-03-16 
• Deposition Author(s): Seiradake, E., Harlos, K., Sutton, G., Aricescu, A.R., Jones, E.Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.83 Å
• R-Value Free: 0.314 
• R-Value Work: 0.312 

Literature

An Extracellular Steric Seeding Mechanism for Eph-Ephrin Signalling Platform Assembly

Seiradake, E., Harlos, K., Sutton, G., Aricescu, A.R., Jones, E.Y.

(2010) Nat.Struct.Mol.Biol. 17: 398

• PubMed: 20228801 
• DOI: 10.1038/nsmb.1782
• Primary Citation of Related Structures:  
  2X10


• PubMed Abstract: 
  

Erythropoetin-producing hepatoma (Eph) receptors are cell-surface protein tyrosine kinases mediating cell-cell communication. Upon activation, they form signaling clusters. We report crystal structures of the full ectodomain of human EphA2 (eEphA2) both alone and in complex with the receptor-binding domain of the ligand ephrinA5 (ephrinA5 RBD). Unliganded eEphA2 forms linear arrays of staggered parallel receptors involving two patches of residues conserved across A-class Ephs. eEphA2-ephrinA5 RBD forms a more elaborate assembly, whose interfaces include the same conserved regions on eEphA2, but rearranged to accommodate ephrinA5 RBD. Cell-surface expression of mutant EphA2s showed that these interfaces are critical for localization at cell-cell contacts and activation-dependent degradation. Our results suggest a 'nucleation' mechanism whereby a limited number of ligand-receptor interactions 'seed' an arrangement of receptors which can propagate into extended signaling arrays.

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Organizational Affiliation: 

Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
EPHRIN TYPE-A RECEPTOR 2	A	545	Homo sapiens	Mutation(s): 0  Gene Names: EPHA2 (ECK) EC: 2.7.10.1
Find proteins for P29317 (Homo sapiens) Go to Gene View: EPHA2 Go to UniProtKB:  P29317

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
EPHRIN-A5	B	177	Homo sapiens	Mutation(s): 0  Gene Names: EFNA5 (EPLG7, LERK7)
Find proteins for P52803 (Homo sapiens) Go to Gene View: EFNA5 Go to UniProtKB:  P52803

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.83 Å
• R-Value Free: 0.314 
• R-Value Work: 0.312 
• Space Group: P 2 2 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 173.630	α = 90.00
b = 59.630	β = 90.00
c = 112.160	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-12-21 
• Released Date: 2010-03-16 
• Deposition Author(s): Seiradake, E., Harlos, K., Sutton, G., Aricescu, A.R., Jones, E.Y.

Revision History 

• Version 1.0: 2010-03-16
  Type: Initial release
• Version 1.1: 2011-08-31
  Type: Database references, Derived calculations, Refinement description, Version format compliance
• Version 1.2: 2018-02-28
  Type: Source and taxonomy