6QH6

AP2 clathrin adaptor core with two cargo peptides in open+ conformation


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.00 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.259 
  • R-Value Observed: 0.260 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Temporal Ordering in Endocytic Clathrin-Coated Vesicle Formation via AP2 Phosphorylation.

Wrobel, A.G.Kadlecova, Z.Kamenicky, J.Yang, J.C.Herrmann, T.Kelly, B.T.McCoy, A.J.Evans, P.R.Martin, S.Muller, S.Sroubek, F.Neuhaus, D.Honing, S.Owen, D.J.

(2019) Dev Cell 50: 494-508.e11

  • DOI: 10.1016/j.devcel.2019.07.017
  • Primary Citation of Related Structures:  
    6QH5, 6QH6, 6QH7, 6RH5, 6RH6

  • PubMed Abstract: 
  • Clathrin-mediated endocytosis (CME) is key to maintaining the transmembrane protein composition of cells' limiting membranes. During mammalian CME, a reversible phosphorylation event occurs on Thr156 of the μ2 subunit of the main endocytic clathrin adaptor, AP2 ...

    Clathrin-mediated endocytosis (CME) is key to maintaining the transmembrane protein composition of cells' limiting membranes. During mammalian CME, a reversible phosphorylation event occurs on Thr156 of the μ2 subunit of the main endocytic clathrin adaptor, AP2. We show that this phosphorylation event starts during clathrin-coated pit (CCP) initiation and increases throughout CCP lifetime. μ2Thr156 phosphorylation favors a new, cargo-bound conformation of AP2 and simultaneously creates a binding platform for the endocytic NECAP proteins but without significantly altering AP2's cargo affinity in vitro. We describe the structural bases of both. NECAP arrival at CCPs parallels that of clathrin and increases with μ2Thr156 phosphorylation. In turn, NECAP recruits drivers of late stages of CCP formation, including SNX9, via a site distinct from where NECAP binds AP2. Disruption of the different modules of this phosphorylation-based temporal regulatory system results in CCP maturation being delayed and/or stalled, hence impairing global rates of CME.


    Organizational Affiliation

    CIMR, WT/MRC Building, Hills Road, Cambridge CB2 0QQ, UK.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
AP-2 complex subunit alphaA621Rattus norvegicusMutation(s): 0 
Gene Names: Ap2a2Adtab
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Find proteins for P18484 (Rattus norvegicus)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
AP-2 complex subunit betaB592Homo sapiensMutation(s): 0 
Gene Names: AP2B1ADTB2CLAPB1
UniProt & NIH Common Fund Data Resources
Find proteins for P63010 (Homo sapiens)
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PHAROS:  P63010
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
AP-2 complex subunit muC [auth M]446Bos taurusMutation(s): 0 
Gene Names: AP2M1
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Find proteins for Q3ZC13 (Bos taurus)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
AP-2 complex subunit muD [auth N]446Rattus norvegicusMutation(s): 0 
Gene Names: Ap2m1
UniProt
Find proteins for P84092 (Rattus norvegicus)
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
TGN38 CARGO PEPTIDEE [auth P]6Homo sapiensMutation(s): 0 
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
CD4 CARGO PEPTIDEF [auth Q]10Homo sapiensMutation(s): 0 
Gene Names: CD4
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PHAROS:  P01730
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
AP-2 complex subunit sigmaG [auth S]142Mus musculusMutation(s): 0 
Gene Names: Ap2s1Ap17Claps2
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Find proteins for P62743 (Mus musculus)
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Go to UniProtKB:  P62743
IMPC:  MGI:2141861
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  • Reference Sequence
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
TPO
Query on TPO
C [auth M]L-PEPTIDE LINKINGC4 H10 N O6 PTHR
SEP
Query on SEP
F [auth Q]L-PEPTIDE LINKINGC3 H8 N O6 PSER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.00 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.259 
  • R-Value Observed: 0.260 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 180.5α = 90
b = 180.5β = 90
c = 210.06γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom090909/Z/09/Z
Wellcome TrustUnited Kingdom097040/Z/11/Z

Revision History  (Full details and data files)

  • Version 1.0: 2019-09-04
    Type: Initial release