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complex structure of nectin-4 bound to MV-H
Biology and Chemistry Report
4GJT
  •   Structure Details   Hide

    Structure Keywords

    Keywords MEMBRANE PROTEIN/VIRAL PROTEIN
    Text six-bladed -propeller, IgV-like fold, viral entry, MV-H, nectin-4, beta4/beta5 groove, MEMBRANE PROTEIN-VIRAL PROTEIN complex

    Polymeric Molecules

    Chain A
    Description Hemagglutinin glycoprotein 
    Fragment MV-H fragment, 156-617 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 52517.3 
    Source Method genetically manipulated  
    Chain B,C
    Description Poliovirus receptor-related protein 4 
    Fragment nectin-4 fragment, 32-145 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 13566.2 
    Source Method genetically manipulated  
    Entity Name Ig superfamily receptor LNIR, Nectin-4, Processed poliovirus receptor-related protein 4 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    NAG  N-ACETYL-D-GLUCOSAMINE  C8 H15 N O6   221.21  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A HEMA_MEASC Q786F2     
    B,C PVRL4_HUMAN Q96NY8     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

     
  •   Gene Details   Hide

    Genetic Source

    Chain B,C
    Common Name Human
    Scientific Name Homo sapiens  
    Gene lnir, nectin-4, prr4, pvrl4
    Host Scientific Name Escherichia coli  
    Host Strain Bl21
    Host Vector Type Plasmid
    Host Plasmid Name pET-21a


    Chain A
    Common Name Mev
    Scientific Name Measles virus  
    Strain ICHINOSE-B95A
    Gene h, hemagglutinin
    Host Scientific Name Trichoplusia ni  
    Host Cell Line Hifive Insect Cells
    Host Vector Type Baculovirus
    Host Plasmid Name pFast-bac1


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    1 1q22-q23.2 81607     poliovirus receptor-related 4 PVRL4    

    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
    rs150247524 LS-SNP   dbSNP   B 7 D - > E Bend 90% (Exposed) 1 161049705
    rs3737786 LS-SNP   dbSNP   B 22 F - > L Beta Ladder 19% (Intermediate) 1 161049662
    rs200474573 LS-SNP   dbSNP   B 24 R - > Q Coil 55% (Exposed) 1 161049655
    rs142201196 LS-SNP   dbSNP   B 28 G - > D Turn 10% (Intermediate) 1 161049643
    rs143991457 LS-SNP   dbSNP   B 37 A - > S Beta Ladder 7% (Buried) 1 161049617
    rs139707654 LS-SNP   dbSNP   B 37 A - > D Beta Ladder 7% (Buried) 1 161049616
    rs142765500 LS-SNP   dbSNP   B 54 K - > R Bend 40% (Exposed) 1 161049565
    rs35434391 LS-SNP   dbSNP   B 73 P - > T Bend 97% (Exposed) 1 161049509
    rs78105657 LS-SNP   dbSNP   B 76 P - > L Turn 58% (Exposed) 1 161049499