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 9PUE | pdb_00009pue

Structure of Alpha Appendage of AP2 bound to the FxDxF motif derived of CCDC32


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free: 
    0.230 (Depositor), 0.230 (DCC) 
  • R-Value Work: 
    0.182 (Depositor), 0.182 (DCC) 
  • R-Value Observed: 
    0.187 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 9PUE

This is version 1.1 of the entry. See complete history. 

Literature

CCDC32 collaborates with the membrane to assemble the AP-2 clathrin adaptor complex.

Sloan, D.E., Matthews, A.E., Yanagisawa, H., Tedamrongwanish, T., Cannon, K., Simmons, J., Chappell, G., Nicely, N.I., Berlow, R., Kikkawa, M., Baker, R.W.

(2026) Sci Adv 12: eaeb2377-eaeb2377

  • DOI: https://doi.org/10.1126/sciadv.aeb2377
  • Primary Citation Related Structures: 
    9PPP, 9PUE, 9PWA, 9PWB, 9PWC

  • PubMed Abstract: 

    Assembly of adaptor protein complex 2 (AP-2), the primary cargo adaptor in clathrin-mediated endocytosis, is regulated by the chaperones alpha- and gamma-adaptin binding protein (AAGAB) and coiled-coil domain-containing protein 32 (CCDC32), whose deletion causes loss of all AP-2 subunits in vivo. Here, we describe the molecular mechanism of CCDC32-mediated AP-2 assembly. CCDC32 interacts with the appendage domain of the AP-2 α subunit with high affinity, using the same binding site as canonical endocytic regulators in addition to a previously unidentified, yet highly conserved pocket on α. CCDC32 contains cargo sorting motifs normally found in transmembrane cargo and binds to AP-2 heterodimers using canonical cargo-binding sites. In addition, two amphipathic helices in CCDC32 bind to the α/σ2 heterodimer. Unexpectedly, in solution, CCDC32 prevents complex assembly and actively disassembles AP-2 tetramers. Inhibition requires the amphipathic helices of CCDC32, which also mediate binding to phosphatidylinositol 4,5-bisphosphate (PIP 2 )-containing membranes. The presence of PIP 2 -containing membrane stabilizes the final stages of assembly. We propose that the membrane acts as a molecular switch to release inhibitory interactions, allowing for full complex assembly to proceed.


  • Organizational Affiliation: 
    • Department of Biochemistry and Biophysics, UNC Chapel Hill School of Medicine, Chapel Hill, NC 27599, USA.

Macromolecule Content 

  • Total Structure Weight: 28.54 kDa 
  • Atom Count: 2,212 
  • Modeled Residue Count: 253 
  • Deposited Residue Count: 253 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
AP-2 complex subunit alpha-2244Mus musculusMutation(s): 0 
Gene Names: Ap2a2, Adtab
UniProt & NIH Common Fund Data Resources
Find proteins for P17427 (Mus musculus)
Explore P17427 
Go to UniProtKB:  P17427
IMPC:  MGI:101920
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP17427
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Coiled-coil domain-containing protein 32B [auth P]9Mus musculusMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q8BS39 (Mus musculus)
Explore Q8BS39 
Go to UniProtKB:  Q8BS39
IMPC:  MGI:2685477
Entity Groups
UniProt GroupQ8BS39
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.91 Å
  • R-Value Free:  0.230 (Depositor), 0.230 (DCC) 
  • R-Value Work:  0.182 (Depositor), 0.182 (DCC) 
  • R-Value Observed: 0.187 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.807α = 90
b = 72.465β = 99.092
c = 42.053γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
SAINTdata reduction
SADABSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM150960

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-08
    Type: Initial release
  • Version 1.1: 2026-10-21
    Changes: Database references