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MHC CLASS I H-2DB COMPLEXED WITH GLYCOPEPTIDE K3G
Biology and Chemistry Report
1QLF
  •   Structure Details   Hide

    Structure Keywords

    Keywords IMMUNE SYSTEM/PEPTIDE
    Text IMMUNE SYSTEM/PEPTIDE, MURINE CLASS I MHC-PEPTIDE COMPLEX, MHC, GLYCOPEPTIDE, ANTIGEN, HISTOCOMPATIBILITY, IMMUNOLOGY, IMMUNE SYSTEM-PEPTIDE complex

    Polymeric Molecules

    Chain A
    Description MHC CLASS I H-2DB HEAVY CHAIN 
    Fragment EXTRACELLULAR DOMAINS 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 32088.0 
    Source Method genetically manipulated  
    Entity Name DB, H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, D-B ALPHA CHAIN, (H-2D(B)) 
    Chain B
    Description HUMAN BETA-2-MICROGLOBULIN 
    Fragment MHC ASSOCIATED LIGHT CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 11748.3 
    Source Method genetically manipulated  
    Entity Name B2M 
    Chain C
    Description SYNTHETIC GLYCOPEPTIDE 
    Fragment H-2DB-BOUND GLYCOPEPTIDE FROM NUCLEOCAPSID PROTEIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 979.1 
    Source Method synthetic  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    GOL  GLYCEROL  C3 H8 O3   92.09  View 
    NAG  N-ACETYL-D-GLUCOSAMINE  C8 H15 N O6   221.21  View 
    SO4  SULFATE ION  O4 S   96.06  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A HA11_MOUSE P01899     
    B B2MG_HUMAN P61769     
    C NCAP_SENDE P04857     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    Immune Epitopes (B-cell and T-Cell)

    Immune Epitope Database (IEDB)
    Epitope ID 15255    
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain B
    GO ID   Ontology GO Term Definition
    2376   Immune System Process  Any Process Involved in the Development or Functioning of the Immune System an Organismal System For Calibrated Responses to Potential Internal or Invasive Threats. 
    2474   Antigen Processing and Presentation of Peptide Antigen Via Mhc Class I  The Process in Which an Antigen Presenting Cell Expresses a Peptide Antigen On Its Cell Surface in Association with an Mhc Class I Protein Complex. Class I Here Refers to Classical Class I Molecules. 
    5576   Extracellular Region  The Space External to the Outermost Structure of a Cell. For Cells Without External Protective or External Encapsulating Structures This Refers to Space Outside of the Plasma Membrane. This Term Covers the Host Cell Environment Outside an Intracellular Parasite. 
    42612   Mhc Class I Protein Complex  A Transmembrane Protein Complex Composed of a Mhc Class I Alpha Chain and an Invariant Beta2 Microglobin Chain and with or Without a Bound Peptide Antigen. Class I Here Refers to Classical Class I Molecules. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    42802   Identical Protein Binding  Interacting Selectively and Non Covalently with an Identical Protein or Proteins. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain B
    Common Name Human
    Scientific Name Homo sapiens  
    Cell Type Most Nucleated Cells
    Subcellular Location Cell Surface
    Host Scientific Name Cricetulus griseus  
    Host Cell Type Cho K1 Cells


    Chain A
    Common Name Mouse
    Scientific Name Mus musculus  
    Cell Type Most Nucleated Cells
    Subcellular Location Cell Surface
    Host Scientific Name Cricetulus griseus  
    Host Cell Type Cho K1 Cells


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    17 17 B1|17 18.61 cM 14964     histocompatibility 2, D region locus 1 H2-D1    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs11553032 LS-SNP   dbSNP   B 12 R - > C Bend 15% (Intermediate) 15 45007647
    rs11553035 LS-SNP   dbSNP   B 14 P - > S Coil 74% (Exposed) 15 45007653
    rs11553038 LS-SNP   dbSNP   B 22 F - > L Beta Ladder 29% (Intermediate) 15 45007677
    rs148494241 LS-SNP   dbSNP   B 34 D - > N Coil 83% (Exposed) 15 45007713
    rs11553042 LS-SNP   dbSNP   B 36 E - > K Beta Ladder 54% (Exposed) 15 45007719
    rs11553049 LS-SNP   dbSNP   B 41 K - > R Beta Ladder 44% (Exposed) 15 45007735
    rs11553037 LS-SNP   dbSNP   B 53 D - > N Coil 35% (Intermediate) 15 45007770
    rs11553045 LS-SNP   dbSNP   B 72 P - > H Coil 0% (Buried) 15 45007828
    rs147708131 LS-SNP   dbSNP   B 99 M - > L Coil 32% (Intermediate) 15 45008535