2YHF

1.9 Angstrom Crystal Structure of CLEC5A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Flexibility of the Macrophage Dengue Virus Receptor Clec5A: Implications for Ligand Binding and Signaling.

Watson, A.A.Lebedev, A.A.Hall, B.A.Fenton-May, A.E.Vagin, A.A.Dejnirattisai, W.Felce, J.Mongkolsapaya, J.Palma, A.S.Liu, Y.Feizi, T.Screaton, G.R.Murshudov, G.N.O'Callaghan, C.A.

(2011) J.Biol.Chem. 286: 24208

  • DOI: 10.1074/jbc.M111.226142

  • PubMed Abstract: 
  • The human C-type lectin-like molecule CLEC5A is a critical macrophage receptor for dengue virus. The binding of dengue virus to CLEC5A triggers signaling through the associated adapter molecule DAP12, stimulating proinflammatory cytokine release. We ...

    The human C-type lectin-like molecule CLEC5A is a critical macrophage receptor for dengue virus. The binding of dengue virus to CLEC5A triggers signaling through the associated adapter molecule DAP12, stimulating proinflammatory cytokine release. We have crystallized an informative ensemble of CLEC5A structural conformers at 1.9-Å resolution and demonstrate how an on-off extension to a β-sheet acts as a binary switch regulating the flexibility of the molecule. This structural information together with molecular dynamics simulations suggests a mechanism whereby extracellular events may be transmitted through the membrane and influence DAP12 signaling. We demonstrate that CLEC5A is homodimeric at the cell surface and binds to dengue virus serotypes 1-4. We used blotting experiments, surface analyses, glycan microarray, and docking studies to investigate the ligand binding potential of CLEC5A with particular respect to dengue virus. This study provides a rational foundation for understanding the dengue virus-macrophage interaction and the role of CLEC5A in dengue virus-induced lethal disease.


    Organizational Affiliation

    Henry Wellcome Building for Molecular Physiology, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
C-TYPE LECTIN DOMAIN FAMILY 5 MEMBER A
A, B, C, D, E, F, G, H, I
118Homo sapiensMutation(s): 1 
Gene Names: CLEC5A (CLECSF5, MDL1)
Find proteins for Q9NY25 (Homo sapiens)
Go to Gene View: CLEC5A
Go to UniProtKB:  Q9NY25
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.216 
  • Space Group: P 31
Unit Cell:
Length (Å)Angle (°)
a = 109.109α = 90.00
b = 109.109β = 90.00
c = 84.879γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
REFMACrefinement
BALBESphasing
MOLREPphasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-05-11
    Type: Initial release
  • Version 1.1: 2011-07-07
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance