2X11

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.83 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.312 
  • R-Value Observed: 0.313 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


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

  • DOI: 10.1038/nsmb.1782
  • Primary Citation of Related Structures:  
    2X10, 2X11

  • 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 ...

    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.


    Organizational Affiliation

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



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
EPHRIN TYPE-A RECEPTOR 2 A545Homo sapiensMutation(s): 0 
Gene Names: EPHA2ECK
EC: 2.7.10.1
Find proteins for P29317 (Homo sapiens)
Explore P29317 
Go to UniProtKB:  P29317
NIH Common Fund Data Resources
PHAROS:  P29317
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
EPHRIN-A5 B177Homo sapiensMutation(s): 0 
Gene Names: EFNA5EPLG7LERK7
Find proteins for P52803 (Homo sapiens)
Explore P52803 
Go to UniProtKB:  P52803
NIH Common Fund Data Resources
PHAROS:  P52803
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.83 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.312 
  • R-Value Observed: 0.313 
  • Space Group: P 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 173.63α = 90
b = 59.63β = 90
c = 112.16γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

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