1EIS

UDA UNCOMPLEXED FORM. CRYSTAL STRUCTURE OF URTICA DIOICA AGGLUTININ, A SUPERANTIGEN PRESENTED BY MHC MOLECULES OF CLASS I AND CLASS II

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.207 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history. 


Literature

Crystal structure of Urtica dioica agglutinin, a superantigen presented by MHC molecules of class I and class II.

Saul, F.A., Rovira, P., Boulot, G., Damme, E.J., Peumans, W.J., Truffa-Bachi, P., Bentley, G.A.

(2000) Structure 8: 593-603

  • DOI: 10.1016/s0969-2126(00)00142-8
  • Primary Citation of Related Structures:  
    1EIS, 1EN2, 1ENM

  • PubMed Abstract: 

    • Urtica dioica agglutinin (UDA), a monomeric lectin extracted from stinging nettle rhizomes, is specific for saccharides containing N-acetylglucosamine (GlcNAc). The lectin behaves as a superantigen for murine T cells, inducing the exclusive proliferation of Vbeta8 ...

    Urtica dioica agglutinin (UDA), a monomeric lectin extracted from stinging nettle rhizomes, is specific for saccharides containing N-acetylglucosamine (GlcNAc). The lectin behaves as a superantigen for murine T cells, inducing the exclusive proliferation of Vbeta8.3(+) lymphocytes. UDA is unique among known T cell superantigens because it can be presented by major histocompatibility complex (MHC) molecules of both class I and II.

    Related Citations: 
    • Characterisation of Urtica dioica Agglutinin Isolectins and the Encoding Gene Family
      Does, M.P., Ng, D.K., Dekker, H.L., Peumans, W.J., Houterman, P.M., Van Damme, E.J., Cornelissen, B.J.C.
      (1999) Plant Mol Biol 39: 335
    Organizational Affiliation: 

    Unité d'Immunologie Structurale (CNRS URA 2185), Institut Pasteur, Paris, France.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (AGGLUTININ ISOLECTIN VI/AGGLUTININ ISOLECTIN V)A89Urtica dioicaMutation(s): 1 
Gene Names: chia5.6.1
UniProt
Find proteins for Q9SYR5 (Urtica dioica)
Explore Q9SYR5 
Go to UniProtKB:  Q9SYR5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9SYR5
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PCA
Query on PCA		A L-PEPTIDE LINKINGC5 H7 N O3GLN
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.207 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 31.3α = 90
b = 41.6β = 90
c = 77.1γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MLPHAREphasing
DMmodel building
REFMACrefinement
DMphasing

Structure Validation

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View more in-depth experimental data
Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-06-21
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2019-12-25
    Changes: Advisory, Database references, Derived calculations, Polymer sequence