Crystal structure of a complete ternary complex between TCR, superantigen, and peptide-MHC class II molecule
2ICW
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Immune System
    Structure Weight: 188403.44
    Molecule: HLA class II histocompatibility antigen, DR alpha chain
    Polymer: 1 Type: protein Length: 179
    Chains: A, D
    Fragment: residues 28-206
    Organism: Homo sapiens
    Gene Names: HLA-DRA1 Gene View for HLA-DRA
    UniProtKB: Search PDB | P01903   Protein Feature View
    Molecule: HLA class II histocompatibility antigen, DRB1-1 beta chain
    Polymer: 2 Type: protein Length: 190
    Chains: B, E
    Fragment: residues 30-219
    Organism: Homo sapiens
    Gene Name: Gene View for HLA-DRB1
    UniProtKB: Search PDB | P04229   Protein Feature View
    Molecule: haemagglutinin peptide
    Polymer: 3 Type: protein Length: 13
    Chains: C, F
    Fragment: residues 306-318
    Molecule: Mycoplasma arthritidis mitogen
    Polymer: 4 Type: protein Length: 213
    Chains: G, H
    Fragment: residues 26-238
    Organism: Mycoplasma arthritidis
    UniProtKB: Search PDB | Q48898   Protein Feature View
    Molecule: T-cell receptor alpha chain V
    Polymer: 5 Type: protein Length: 110
    Chains: I, K
    Fragment: residues 21-131
    Mutation: W82R, L43P
    Organism: Mus musculus
    UniProtKB: Search PDB | P01738   Protein Feature View
    Molecule: T-cell receptor beta chain V
    Polymer: 6 Type: protein Length: 113
    Chains: J, L
    Mutation: G17E, G42E, L80S
    Organism: Mus musculus
    UniProtKB: Search PDB | A2NTY6   Protein Feature View
     
  •   Structure Validation Hide

    View the full validation report  

     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli  
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 4
    Scientific Name: Mycoplasma arthritidis   Taxonomy   Expression System: Escherichia coli bl21(de3)  
    Polymer: 5
    Scientific Name: Mus musculus   Taxonomy   Common Name: House mouse Expression System: Escherichia coli bl21(de3)  
    Polymer: 6
    Scientific Name: Mus musculus   Taxonomy   Common Name: House mouse Expression System: Escherichia coli bl21(de3)  
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    MSE
    Search 
    MSE C5 H11 N O2 Se MET lPeptideLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly 1       
Biological assembly 1 assigned by authors
Downloadable viewers:
 
 
 
  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Wang, L.,  Zhao, Y.,  Li, H.

    Deposition:   2006-09-13
    Release:   2007-03-20
    Last Modified (REVDAT):   2009-02-24
     
  •   Revision History    Hide
    Mouse over text for details
    2011-07-13
    Version format compliance
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.41
    R-Value: 0.242 (obs.)
    R-Free: 0.288
    Space Group: P 1
    Unit Cell:
      Length [Å] Angles [°]
    a = 61.52 α = 110.27 
    b = 86.82 β = 92.32 
    c = 116.98 γ = 107.87