4GOK

The Crystal structure of Arl2GppNHp in complex with UNC119a


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.248 

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This is version 1.2 of the entry. See complete history


Literature

Structural basis for Arl3-specific release of myristoylated ciliary cargo from UNC119.

Ismail, S.A.Chen, Y.X.Miertzschke, M.Vetter, I.R.Koerner, C.Wittinghofer, A.

(2012) EMBO J 31: 4085-4094

  • DOI: https://doi.org/10.1038/emboj.2012.257
  • Primary Citation of Related Structures:  
    4GOJ, 4GOK

  • PubMed Abstract: 

    Access to the ciliary membrane for trans-membrane or membrane-associated proteins is a regulated process. Previously, we have shown that the closely homologous small G proteins Arl2 and Arl3 allosterically regulate prenylated cargo release from PDEδ. UNC119/HRG4 is responsible for ciliary delivery of myristoylated cargo. Here, we show that although Arl3 and Arl2 bind UNC119 with similar affinities, only Arl3 allosterically displaces cargo by accelerating its release by three orders of magnitude. Crystal structures of Arl3 and Arl2 in complex with UNC119a reveal the molecular basis of specificity. Contrary to previous structures of GTP-bound Arf subfamily proteins, the N-terminal amphipathic helix of Arl3·GppNHp is not displaced by the interswitch toggle but remains bound on the surface of the protein. Opposite to the mechanism of cargo release on PDEδ, this induces a widening of the myristoyl binding pocket. This leads us to propose that ciliary targeting of myristoylated proteins is not only dependent on nucleotide status but also on the cellular localization of Arl3.


  • Organizational Affiliation

    Structural Biology Group, Max Planck Institut für Molekulare Physiologie, Dortmund, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ADP-ribosylation factor-like protein 2A [auth B],
C [auth A]
169Mus musculusMutation(s): 1 
Gene Names: Arl2
UniProt
Find proteins for Q9D0J4 (Mus musculus)
Explore Q9D0J4 
Go to UniProtKB:  Q9D0J4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9D0J4
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protein unc-119 homolog AB [auth G],
D [auth C]
240Homo sapiensMutation(s): 0 
Gene Names: UNC119RG4
UniProt & NIH Common Fund Data Resources
Find proteins for Q13432 (Homo sapiens)
Explore Q13432 
Go to UniProtKB:  Q13432
GTEx:  ENSG00000109103 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13432
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.245 
  • R-Value Observed: 0.248 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 101.45α = 90
b = 61.08β = 101.33
c = 143.62γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
MOLREPphasing
REFMACrefinement
XDSdata reduction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-09-19
    Type: Initial release
  • Version 1.1: 2012-10-31
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description