2WO1

Crystal Structure of the EphA4 Ligand Binding Domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structural Plasticity of Eph-Receptor A4 Facilitates Cross-Class Ephrin Signalling

Bowden, T.A.Aricescu, A.R.Nettleship, J.E.Siebold, C.Rahman-Huq, N.Owens, R.J.Stuart, D.I.Jones, E.Y.

(2009) Structure 17: 1386

  • DOI: 10.1016/j.str.2009.07.018
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The EphA4 tyrosine kinase cell surface receptor regulates an array of physiological processes and is the only currently known class A Eph receptor that binds both A and B class ephrins with high affinity. We have solved the crystal structure of the E ...

    The EphA4 tyrosine kinase cell surface receptor regulates an array of physiological processes and is the only currently known class A Eph receptor that binds both A and B class ephrins with high affinity. We have solved the crystal structure of the EphA4 ligand binding domain alone and in complex with (1) ephrinB2 and (2) ephrinA2. This set of structures shows that EphA4 has significant conformational plasticity in its ligand binding face. In vitro binding data demonstrate that it has a higher affinity for class A than class B ligands. Structural analyses, drawing on previously reported Eph receptor structures, show that EphA4 in isolation and in complex with ephrinA2 resembles other class A Eph receptors but on binding ephrinB2 assumes structural hallmarks of the class B Eph receptors. This interactive plasticity reveals EphA4 as a structural chameleon, able to adopt both A and B class Eph receptor conformations, and thus provides a molecular basis for EphA-type cross-class reactivity.


    Organizational Affiliation

    Division of Structural Biology, University of Oxford, Henry Wellcome Building of Genomic Medicine, Roosevelt Drive, Oxford, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
EPHRIN TYPE-A RECEPTOR
A, B
185Homo sapiensMutation(s): 0 
Gene Names: EPHA4 (HEK8, SEK, TYRO1)
EC: 2.7.10.1
Find proteins for P54764 (Homo sapiens)
Go to Gene View: EPHA4
Go to UniProtKB:  P54764
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
POL
Query on POL

Download SDF File 
Download CCD File 
A, B
N-PROPANOL
1-PROPONOL
C3 H8 O
BDERNNFJNOPAEC-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.187 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 48.736α = 90.00
b = 73.228β = 98.35
c = 54.420γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data reduction
SCALEPACKdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-10-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 1.2: 2011-11-23
    Type: Database references
  • Version 1.3: 2018-02-28
    Type: Source and taxonomy