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Crystal structure of CD4M47, a scorpion-toxin mimic of CD4, in complex with HIV-1 YU2 GP120 envelope glycoprotein and anti-HIV-1 antibody 17B
Biology and Chemistry Report
2I5Y
  •   Structure Details   Hide

    Structure Keywords

    Keywords VIRAL PROTEIN/IMMUNE SYSTEM
    Text HIV-1, GP120, YU2, SCORPION TOXIN, CD4 MIMIC, CD4M47, ANTIBODY, VIRAL PROTEIN-IMMUNE SYSTEM COMPLEX

    Polymeric Molecules

    Chain G,P
    Description Exterior membrane glycoprotein(GP120) 
    Fragment CORE 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 34839.0 
    Source Method genetically manipulated  
    Entity Name HIV-1 YU2 GP120 
    Chain L,Q
    Description Antibody 17B Light chain 
    Fragment ANTIGEN-BINDING FRAGMENT, FAB 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 23400.1 
    Source Method genetically manipulated  
    Chain H,R
    Description Antibody 17B Heavy chain 
    Fragment ANTIGEN-BINDING FRAGMENT, FAB 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 24457.6 
    Source Method genetically manipulated  
    Chain M,S
    Description CD4M47, SCORPION-TOXIN MIMIC OF CD4 
    Nonstandard Linkage no 
    Nonstandard Monomers yes 
    Polymer Type polypeptide(L) 
    Formula Weight 3021.7 
    Source Method synthetic  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    NAG  N-ACETYL-D-GLUCOSAMINE  C8 H15 N O6   221.21  View 
    NDG  2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE  C8 H15 N O6   221.21  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    G,P ENV_HV1Y2 P35961     
    H,R Q5EBM2_HUMAN Q5EBM2     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    Immune Epitopes (B-cell and T-Cell)

    Immune Epitope Database (IEDB)
    Epitope ID 164067    
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain G,P
    GO ID   Ontology GO Term Definition
    19031   Viral Envelope  The Lipid Bilayer of a Virion That Surrounds the Protein Capsid. May Also Contain Glycoproteins. 
    Chain M,S
    GO ID   Ontology GO Term Definition
    6952   Defense Response  Reactions Triggered in Response to the Presence of a Foreign Body or the Occurrence of an Injury Which Result in Restriction of Damage to the Organism Attacked or Prevention/recovery From the Infection Caused by the Attack. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain H,R
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Host Common Name Epstein Barr Virus
    Host Scientific Name Human herpesvirus 4  
    Host Genus Lymphocryptovirus


    Chain L,Q
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Host Common Name Epstein Barr Virus
    Host Scientific Name Human herpesvirus 4  
    Host Genus Lymphocryptovirus


    Chain G,P
    Scientific Name Human immunodeficiency virus  
    Genus Lentivirus
    Strain YU2
    Gene env
    Host Common Name Fruit Fly
    Host Scientific Name Drosophila melanogaster  
    Host Genus Drosophila