Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 52.05 kDa 
• Atom Count: 2175 
• Modelled Residue Count: 264 
• Deposited Residue Count: 454 
• Unique protein chains: 2

5FPI

Mu2 adaptin subunit of the AP2 adaptor (C-terminal domain) complexed with Integrin alpha4 internalisation peptide QYKSILQE

• DOI: 10.2210/pdb5FPI/pdb

• Classification: ENDOCYTOSIS
• Organism(s): Rattus norvegicus, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-11-30 Released: 2016-01-20 
• Deposition Author(s): Owen, D.J., Evans, P.R., Ivaska, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.77 Å
• R-Value Free: 0.224 
• R-Value Work: 0.174 
• R-Value Observed: 0.177 

Literature

Selective Integrin Endocytosis is Driven by Alpha Chain:Ap2 Interactions

De Franceschi, N., Arjonen, A., Elkhatib, N., Denessiouk, K., Wrobel, A.G., Wilson, T.A., Pouwels, J., Montagnac, G., Owen, D.J., Ivaska, J.

(2016) Nat Struct Mol Biol 23: 172

• PubMed: 26779610 
• DOI: 10.1038/nsmb.3161
• Primary Citation of Related Structures:  
  5FPI


• PubMed Abstract: 
  

Integrins are heterodimeric cell-surface adhesion molecules comprising one of 18 possible α-chains and one of eight possible β-chains. They control a range of cell functions in a matrix- and ligand-specific manner. Integrins can be internalized by clathrin-mediated endocytosis (CME) through β subunit-based motifs found in all integrin heterodimers. However, whether specific integrin heterodimers can be selectively endocytosed was unknown. Here, we found that a subset of α subunits contain an evolutionarily conserved and functional YxxΦ motif directing integrins to selective internalization by the most abundant endocytic clathrin adaptor, AP2. We determined the structure of the human integrin α4-tail motif in complex with the AP2 C-μ2 subunit and confirmed the interaction by isothermal titration calorimetry. Mutagenesis of the motif impaired selective heterodimer endocytosis and attenuated integrin-mediated cell migration. We propose that integrins evolved to enable selective integrin-receptor turnover in response to changing matrix conditions.

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Organizational Affiliation: 

Department of Biochemistry and Food Chemistry, University of Turku, Turku, Finland.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AP-2 COMPLEX SUBUNIT MU	A	446	Rattus norvegicus	Mutation(s): 0  Gene Names: Ap2m1
UniProt
Find proteins for P84092 (Rattus norvegicus) Explore P84092  Go to UniProtKB:  P84092

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
INTEGRIN ALPHA-4 SUBUNIT	B	8	Homo sapiens	Mutation(s): 0  Gene Names: ITGA4, CD49D
UniProt & NIH Common Fund Data Resources
Find proteins for P13612 (Homo sapiens) Explore P13612  Go to UniProtKB:  P13612
PHAROS:  P13612 GTEx:  ENSG00000115232

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.77 Å
• R-Value Free: 0.224 
• R-Value Work: 0.174 
• R-Value Observed: 0.177 
• Space Group: P 6₄

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 125.65	α = 90
b = 125.65	β = 90
c = 74.41	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-11-30 
• Released Date: 2016-01-20 
Deposition Author(s): Owen, D.J., Evans, P.R., Ivaska, J.

Revision History  

• Version 1.0: 2016-01-20
  Type: Initial release
  
• Version 1.1: 2016-01-27
  Changes: Database references
• Version 1.2: 2016-03-02
  Changes: Database references