4F3J

Crystal Structure of Trimeric gC1q Domain of Human C1QTNF5 associated with Late-onset Retinal Macular Degeneration


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.337 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.136 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of the globular domain of C1QTNF5: Implications for late-onset retinal macular degeneration.

Tu, X.Palczewski, K.

(2012) J.Struct.Biol. 180: 439-446

  • DOI: 10.1016/j.jsb.2012.07.011

  • PubMed Abstract: 
  • Autosomal dominant late-onset retinal macular degeneration (L-ORMD) is caused by a single S163R mutation in the C1q and tumor necrosis factor-related protein 5 (C1QTNF5) gene. The C1QTNF5 gene encodes a secreted and membrane-associated protein involv ...

    Autosomal dominant late-onset retinal macular degeneration (L-ORMD) is caused by a single S163R mutation in the C1q and tumor necrosis factor-related protein 5 (C1QTNF5) gene. The C1QTNF5 gene encodes a secreted and membrane-associated protein involved in adhesion of retinal pigmented epithelial cells (RPE) to Bruch's membrane. The crystal structure of the trimeric globular domain of human C1QTNF5 at 1.34Å resolution reveals unique features of this novel C1q family member. It lacks a Ca²⁺-binding site, displays a remarkable non-uniform distribution of surface electrostatic potentials and possesses a unique sequence (F₁₈₁F₁₈₂G₁₈₃G₁₈₄W₁₈₅P₁₈₆) that forms a hydrophobic plateau surrounded by Lys and Arg residues with a solvent cavity underneath. S₁₆₃ forms a hydrogen bond with F₁₈₂ in a hydrophobic area extending to the hydrophobic plateau. The pathogenic mutation S163R disrupts this hydrogen bonding and positively charges these hydrophobic areas. Thus, our analysis provides insights into the structural basis of the L-ORMD disease mechanism.


    Organizational Affiliation

    Department of Pharmacology, School of Medicine, Case Western Reserve University, OH, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Complement C1q tumor necrosis factor-related protein 5
A
148Homo sapiensMutation(s): 0 
Gene Names: C1QTNF5 (CTRP5)
Find proteins for Q9BXJ0 (Homo sapiens)
Go to Gene View: C1QTNF5
Go to UniProtKB:  Q9BXJ0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.337 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.136 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 46.621α = 90.00
b = 46.621β = 90.00
c = 138.830γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
PHASERphasing
XSCALEdata scaling
SCALAdata scaling
ADSCdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-05-09 
  • Released Date: 2012-11-07 
  • Deposition Author(s): Tu, X., Palczewski, K.

Revision History 

  • Version 1.0: 2012-11-07
    Type: Initial release
  • Version 1.1: 2012-12-12
    Type: Database references