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Crystal Structure of the MHC Class II Molecule HLA-DR1 in Complex with the Fluorogenic Peptide, AcPKXVKQNTLKLAT (X=3-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl]-L-alanine) and the Superantigen, SEC3 Variant 3B2
2IPK
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Immune System
    Structure Weight: 72849.55
    Molecule: HLA class II histocompatibility antigen, DR alpha chain
    Polymer: 1 Type: protein Length: 183
    Chains: A
    Fragment: Extracellular domain, residues 26-207
    Organism: Homo sapiens
    Gene Names: Gene View for HLA-DRA HLA-DRA1
    UniProtKB: Protein Feature View | Search PDB | P01903  
    Molecule: HLA class II histocompatibility antigen, DRB1-1 beta chain
    Polymer: 2 Type: protein Length: 190
    Chains: B
    Fragment: Extracellular domain, residues 30-219
    Organism: Homo sapiens
    Gene Name: Gene View for HLA-DRB1
    UniProtKB: Protein Feature View | Search PDB | P04229  
    Molecule: HA related Fluorogenic Peptide, AcPKXVKQNTLKLAT (X=3-[5-(dimethylamino)-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl]-L-alanine)
    Polymer: 3 Type: protein Length: 14
    Chains: C
    Organism: Influenza A virus (A/mallard/Sweden/S90391/2005(H3N8))
    UniProtKB: Protein Feature View | Search PDB | A8CDU0  
    Molecule: Enterotoxin type C-3
    Polymer: 4 Type: protein Length: 240
    Chains: D
    Fragment: Residues 28-266
    Mutation: K70S, L72F, A73K, H74W
    Organism: Staphylococcus aureus subsp. aureus Mu50
    Gene Name: entC3
    UniProtKB: Protein Feature View | Search PDB | P0A0L5  
     
  •   Structure Validation Hide

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  • 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 bl21(de3)  
    Polymer: 2
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli bl21(de3)  
    Polymer: 3
    Scientific Name: Synthetic construct (Influenza A virus (A/mallard/Sweden/S90391/2005(H3N8)))   Taxonomy    
    Polymer: 4
    Scientific Name: Staphylococcus aureus subsp. aureus mu50   Taxonomy   Expression System: Escherichia coli  
     
  •   Related PDB Entries Hide
    Identifier Details
    1DLH  Crystal structure of the human class II MHC protein HLA-DR1 complexed with an influenza virus peptide (HA peptide) 
    1JWU  Crystal Structure of the Complex of the MHC Class II Molecule HLA-DR1 (HA peptide 306-318) with the Superantigen SEC3 Variant 3B1 
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    ACE
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    ACE C2 H4 O nonPolymer
    4DP
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    4DP C13 H15 N3 O4 TRP lPeptideLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 assigned by authors
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