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Crystal structure of JmjC domain of human histone demethylase UTY
Biology and Chemistry Report
3ZLI
  •   Structure Details   Hide

    Structure Keywords

    Keywords OXIDOREDUCTASE
    Text OXIDOREDUCTASE

    Polymeric Molecules

    Chain A,B
    Description HISTONE DEMETHYLASE UTY 
    Fragment JMJC DOMAIN, RESIDUES 878-1347 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 55007.0 
    Source Method genetically manipulated  
    Entity Name UBIQUITOUSLY-TRANSCRIBED TPR PROTEIN ON THE Y CHROMOSOME, UBIQUITOUSLY-TRANSCRIBED Y CHROMOSOME TETRATRICOPEPTIDE REPEAT PROTEIN 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    AKG  2-OXOGLUTARIC ACID  C5 H6 O5   146.10  View 
    EDO  1,2-ETHANEDIOL  C2 H6 O2   62.07  View 
    FE2  FE (II) ION  Fe   55.85  View 
    ZN  ZINC ION  Zn   65.41  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B UTY_HUMAN O14607     

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  1.14.11      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    10468   Regulation of Gene Expression  Any Process That Modulates the Frequency Rate or Extent of Gene Expression. Gene Expression Is the Process in Which a Gene's Coding Sequence Is Converted Into a Mature Gene Product or Products (proteins or Rna). This Includes the Production of an RNA Transcript As Well As Any Processing to Produce a Mature RNA Product or an MRNA (for Protein Coding Genes) and the Translation of That MRNA Into Protein. Protein Maturation Is Included When Required to Form an Active Form of a Product From an Inactive Precursor Form. 
    71557   Histone H3 K27 Demethylation  The Modification of Histone H3 by the Removal of a Methyl Group From Lysine At Position 27 of the Histone. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 
    71558   Histone Demethylase Activity (h3 K27 Specific)  Catalysis of the Removal of a Methyl Group From Lysine At Position 27 of the Histone H3 Protein. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Host Common Name Fall Armyworm
    Host Scientific Name Spodoptera frugiperda  
    Host Cell Line Sf9
    Host Vector Type Baculovirus
    Host Plasmid Name PFB-CT10HF-LIC


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    Y Yq11 7404     ubiquitously transcribed tetratricopeptide repeat containing, Y-linked UTY    

    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
    rs200431840 LS-SNP   dbSNP   A 1065 L - > F Helix 1% (Buried) Y 15417360
    rs200677460 LS-SNP   dbSNP   A 1238 M - > I Helix 29% (Intermediate) Y 15409592