4JHN

The crystal structure of the RPGR RCC1-like domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The interplay between RPGR, PDE-delta and Arl2/3 regulate the ciliary targeting of farnesylated cargo.

Watzlich, D.Vetter, I.Gotthardt, K.Miertzschke, M.Chen, Y.X.Wittinghofer, A.Ismail, S.

(2013) Embo Rep. 14: 465-472

  • DOI: 10.1038/embor.2013.37
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Defects in primary cilia result in human diseases known as ciliopathies. The retinitis pigmentosa GTPase regulator (RPGR), mutated in the most severe form of the eye disease, is located at the transition zone of the ciliary organelle. The RPGR-intera ...

    Defects in primary cilia result in human diseases known as ciliopathies. The retinitis pigmentosa GTPase regulator (RPGR), mutated in the most severe form of the eye disease, is located at the transition zone of the ciliary organelle. The RPGR-interacting partner PDEδ is involved in trafficking of farnesylated ciliary cargo, but the significance of this interaction is unknown. The crystal structure of the propeller domain of RPGR shows the location of patient mutations and how they perturb the structure. The RPGR·PDEδ complex structure shows PDEδ on a highly conserved surface patch of RPGR. Biochemical experiments and structural considerations show that RPGR can bind with high affinity to cargo-loaded PDEδ and exposes the Arl2/Arl3-binding site on PDEδ. On the basis of these results, we propose a model where RPGR is acting as a scaffold protein recruiting cargo-loaded PDEδ and Arl3 to release lipidated cargo into cilia.


    Organizational Affiliation

    Structural Biology Group, Max Planck Institute for Molecular Physiology, Otto-Hahn-Strasse 11, Dortmund 44227, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
X-linked retinitis pigmentosa GTPase regulator
A, B, C, D
421Homo sapiensMutation(s): 0 
Gene Names: RPGR (RP3, XLRP3)
Find proteins for Q92834 (Homo sapiens)
Go to Gene View: RPGR
Go to UniProtKB:  Q92834
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.185 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 57.490α = 90.00
b = 118.730β = 101.54
c = 92.630γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
REFMACrefinement
ProDCdata collection
PHASERphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-04-17
    Type: Initial release
  • Version 1.1: 2013-06-19
    Type: Database references
  • Version 1.2: 2013-09-18
    Type: Derived calculations
  • Version 1.3: 2017-11-15
    Type: Refinement description