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Crystal structure of the Jumonji domain of human Jumonji domain containing 1C protein
Biology and Chemistry Report
2YPD
  •   Structure Details   Hide

    Structure Keywords

    Keywords OXIDOREDUCTASE
    Text OXIDOREDUCTASE

    Polymeric Molecules

    Chain A,B
    Description PROBABLE JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROT EIN 2C 
    Fragment JUMONJI DOMAIN, RESIDUES 2157-2540 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 45191.1 
    Source Method genetically manipulated  
    Entity Name JUMONJI DOMAIN-CONTAINING PROTEIN 1C, THYROID RECEPTOR-INTERACTING PROTEIN 8, TR-INTERACTING PROTEIN 8, TRIP-8 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    NA  SODIUM ION  Na   22.99  View 
    T0M  Thiomersal  C9 H10 Hg O2 S   382.83  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B JHD2C_HUMAN A0T124     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  1.14.11      
     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Host Scientific Name Eschericia coli  
    Host Variant R3 Prare2
    Host Strain Bl21(de3)
    Host Vector Type Plasmid
    Host Plasmid Name PNIC-CTHF


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    10 10q21.3 221037     jumonji domain containing 1C JMJD1C    

    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
    rs199852180 LS-SNP   dbSNP   A 2184 E - > Q Helix 61% (Exposed) 10 64948948 T0M
    rs201993291 LS-SNP   dbSNP   A 2208 A - > V Helix 6% (Buried) 10 64946091
    rs199608318 LS-SNP   dbSNP   A 2308 V - > L Coil 35% (Intermediate) 10 64944407
    rs201653430 LS-SNP   dbSNP   A 2399 V - > I Helix 14% (Intermediate) 10 64937506
    rs34491125 LS-SNP   dbSNP   A 2400 D - > E Helix 66% (Exposed) 10 64937501
    rs144459930 LS-SNP   dbSNP   A 2458 I - > V Beta Ladder 0% (Buried) 10 64936086
    rs200914400 LS-SNP   dbSNP   A 2462 A - > V Turn 8% (Buried) 10 64936073