4BKF image
Deposition Date 2013-04-24
Release Date 2013-07-03
Last Version Date 2024-10-23
Entry Detail
PDB ID:
4BKF
Keywords:
Title:
crystal structure of the human EphA4 ectodomain in complex with human ephrinB3
Biological Source:
Source Organism:
HOMO SAPIENS (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
4.65 Å
R-Value Free:
0.35
R-Value Work:
0.32
R-Value Observed:
0.32
Space Group:
P 43 3 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:EPHRIN TYPE-A RECEPTOR 4
Gene (Uniprot):EPHA4
Chain IDs:A, B
Chain Length:568
Number of Molecules:2
Biological Source:HOMO SAPIENS
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:EPHRIN-B3
Gene (Uniprot):EFNB3
Chain IDs:C, D
Chain Length:183
Number of Molecules:2
Biological Source:HOMO SAPIENS
Ligand Molecules
Primary Citation
Structurally Encoded Intraclass Differences in Epha Clusters Drive Distinct Cell Responses
Nat.Struct.Mol.Biol. 20 958 ? (2013)
PMID: 23812375 DOI: 10.1038/NSMB.2617

Abstact

Functional outcomes of ephrin binding to Eph receptors (Ephs) range from cell repulsion to adhesion. Here we used cell collapse and stripe assays, showing contrasting effects of human ephrinA5 binding to EphA2 and EphA4. Despite equivalent ligand binding affinities, EphA4 triggered greater cell collapse, whereas EphA2-expressing cells adhered better to ephrinA5-coated surfaces. Chimeric receptors showed that the ectodomain is a major determinant of cell response. We report crystal structures of EphA4 ectodomain alone and in complexes with ephrinB3 and ephrinA5. These revealed closed clusters with a dimeric or circular arrangement in the crystal lattice, contrasting with extended arrays previously observed for EphA2 ectodomain. Localization microscopy showed that ligand-stimulated EphA4 induces smaller clusters than does EphA2. Mutant Ephs link these characteristics to interactions observed in the crystal lattices, suggesting a mechanism by which distinctive ectodomain surfaces determine clustering, and thereby signaling, properties.

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Primary Citation of related structures