2QQQ

Crystal Structure of Novel Immune-Type Receptor 11 Extracellular Fragment from Ictalurus punctatus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.202 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

A bony fish immunological receptor of the NITR multigene family mediates allogeneic recognition.

Cannon, J.P.Haire, R.N.Magis, A.T.Eason, D.D.Winfrey, K.N.Hernandez Prada, J.A.Bailey, K.M.Jakoncic, J.Litman, G.W.Ostrov, D.A.

(2008) Immunity 29: 228-237

  • DOI: https://doi.org/10.1016/j.immuni.2008.05.018
  • Primary Citation of Related Structures:  
    2QHL, 2QJD, 2QQQ, 2QTE, 3B5T, 3BDB

  • PubMed Abstract: 

    Novel immune-type receptors (NITRs) comprise an exceptionally large, diversified family of activating and inhibitory receptors that has been identified in bony fish. Here, we characterized the structure of an activating NITR that is expressed by a cytotoxic natural killer (NK)-like cell line and that specifically binds an allogeneic B cell target. A single amino acid residue within the NITR immunoglobulin variable (V)-type domain accounts for specificity of the interaction. Structures solved by X-ray crystallography revealed that the V-type domains of NITRs form homodimers resembling rearranging antigen-binding receptor heterodimers. CDR1 elements of both subunits of NITR dimers form ligand-binding surfaces that determine specificity for the nonself target. In the evolution of immune function, it appears that a specific NK type of innate recognition may be mediated by a complex germline multigene family of V structures resembling those that are somatically diversified in adaptive immunological responses.


  • Organizational Affiliation

    Department of Pediatrics, University of South Florida College of Medicine, St. Petersburg, FL 33701, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Novel immune-type receptor 11
A, B, C, D
111Ictalurus punctatusMutation(s): 0 
UniProt
Find proteins for Q8UWK4 (Ictalurus punctatus)
Explore Q8UWK4 
Go to UniProtKB:  Q8UWK4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8UWK4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.202 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.446α = 90
b = 68.57β = 90
c = 99.129γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
SHELXSphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-06-10
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-10-25
    Changes: Refinement description
  • Version 1.3: 2024-10-16
    Changes: Data collection, Database references, Structure summary