2YHF

1.9 Angstrom Crystal Structure of CLEC5A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.219 

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
  • Primary Citation of Related Structures:  
    2YHF

  • 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 have crystallized an informative ensemble of CLEC5A structural conformers at 1 ...

    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:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
C-TYPE LECTIN DOMAIN FAMILY 5 MEMBER A
A, B, C, D, E, F, G, H
A, B, C, D, E, F, G, H, I
118Homo sapiensMutation(s): 1 
Gene Names: CLEC5ACLECSF5MDL1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NY25 (Homo sapiens)
Explore Q9NY25 
Go to UniProtKB:  Q9NY25
PHAROS:  Q9NY25
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.219 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 109.109α = 90
b = 109.109β = 90
c = 84.879γ = 120
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling
BALBESphasing
MOLREPphasing
REFMACrefinement

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

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