Selected-GenAtlas references SOURCE GeneCards NCBI Gene Swiss-Prot Ensembl
HGNC UniGene Nucleotide OMIM UCSC
Home Page
FLASH GENE
Symbol KDM2A contributors: mct - updated : 01-06-2017
HGNC name lysine (K)-specific demethylase 2A
HGNC id 13606
Location 11q12.2      Physical location : 66.886.739 - 67.025.542
Synonym name
  • F-box protein FBL11
  • jumonji C domain-containing histone demethylase 1A
  • CXXC-type zinc finger protein 8
  • F-box protein Lilina
  • F-box and leucine-rich repeat protein 11
  • F-box protein FBL7
    • Synonym symbol(s) FBL11, FBXL11, LILINA, KIAA1004, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
    EC.number 1.14.11.27
    DNA
    TYPE functioning gene
    STRUCTURE 138.87 kb     21 Exon(s)
    MAPPING cloned Y linked N status provisional
    RNA
    TRANSCRIPTS type messenger
    identificationnb exonstypebpproduct
    ProteinkDaAAspecific expressionYearPubmed
    10 - 5379 - 723 . more abundant than the long isoform at DNA, mRNA, and protein levels in a subset of breast cancers . localized in nucleoli and bound to the rRNA gene promoter in breast cancer cells 2017 28350064
  • SF-KDM2A or short-form KDM2A
  • lacking the N-terminal JmjC domain but contains all other motifs
  • has oncogenic potential and functions as an oncogenic isoform in a subset of breast cancers
  • has no demethylase activity
    • 21 - 7393 133 1162 - 2017 28350064
  • long isoform comprised of a JmjC domain, CXXC-zinc finger, PHD zinc finger, F-box, and the AMN1 protein domain
    		•
    EXPRESSION
    Type ubiquitous
       expressed in (based on citations)
    organ(s)
    SystemOrgan level 1Organ level 2Organ level 3Organ level 4LevelPubmedSpeciesStageRna symbol
    Endocrinepancreas   lowly
    Nervousbrainhindbraincerebellum  
     brainbasal nuclei   
    Reproductivefemale systemovary   
     male systemtestis   
    Respiratorylung    
    tissue
    SystemTissueTissue level 1Tissue level 2LevelPubmedSpeciesStageRna symbol
    Epithelialsecretoryglandularendocrine 
    Epithelialsecretoryglandularexocrine 
    cell lineage
    cell lines
    fluid/secretion
    at STAGE
    physiological period embryo
    cell cycle     cell cycle, checkpoint, G1S
    Text neural tube
    PROTEIN
    PHYSICAL PROPERTIES
    STRUCTURE
    motifs/domains
  • 40 AA F-box motif
  • a JmjC-domain, a novel demethylase signature motif
  • a nucleosome interaction module within KDM2A consisting of a CXXC type zinc finger, a PHD domain and a newly identified Heterochromatin Protein 1 (CBX5) interaction motif that mediates direct binding between KDM2A and CBX5
  • three leucine-rich repeats
  • six highly degenerated leucine-rich (LRR) repeats at the C terminus
    • HOMOLOGY
    Homologene
    FAMILY
  • F-box protein family
    • CATEGORY adaptor
    SUBCELLULAR LOCALIZATION     intracellular
    intracellular,cytoplasm,cytosolic
    intracellular,nucleus,chromatin/chromosome,centromere
    text associates with centromeres and represses transcription of small non-coding RNAs that are encoded by the clusters of satellite repeats at the centromere
    basic FUNCTION
  • phosphorylation dependent ubiquination
  • substrate recognition subunit of SCF ubiquitin protein ligase complex
  • demethylates H3-methyl-K36 and generates formaldehyde and succinate
  • required to maintain the heterochromatic state, and playing a role in epigenetic silencing
  • required to sustain centromeric integrity and genomic stability, particularly during mitosis
  • histone H3K36 demethylase, and a negative regulator of NFkappaB
  • its expression is driven by NF-kappaB, revealing a negative regulatory feedback loop
  • regulator of rRNA transcription in response to starvation
  • H3K36 demethylase that also contains a CXXC domain, and enriched in the CGI fraction
  • its demethylase activity is known to reduce expression of genes and eventually inhibit proliferation of cells
  • KDM2A transcriptionally represses the HDAC3 gene by removing methyl groups from dimethylated H3K36 at the HDAC3 promoter in KDM2A-overexpressing non-small cell lung cancer (NSCLC) cells
  • is a histone demethylase that selectively removes mono- and di-methylation from histone H3K36
  • plays an essential role in embryonic development and homeostasis by regulating cell proliferation and survival
  • likely a direct role for KDM2A in chromatin silencing
    • CELLULAR PROCESS protein, ubiquitin dependent proteolysis
    PHYSIOLOGICAL PROCESS
    PATHWAY
    metabolism
    signaling
    a component one of the four subunits of the E3 ubiquitin protein ligase complex (SCF) with SKP1, CUL1, RBX1, Fbox protein bringing ubiquitin conjugating enzymes to substrates recruited by F-box
    INTERACTION
    DNA
    RNA
    small molecule
    protein
  • various target proteins
  • EREG, was a downstream target of KDM2A, and EREG mediated KDM2A regulation of MSC differentiation
  • is a H3K4 demethylase that regulates cell proliferation through CDKN2B and CDKN1B in stem cells from apical papilla (SCAPs)
  • likely a regulatory role for KDM2A in breast cancer cell invasion and migration, through the regulation of E2F1 function
  • silencing KDM2A, a histone demethylase and BCL6 co-repressor, derepressed SFRP2 transcription by increasing histone H3K4 and H3K36 methylation at the SFRP2 promoter
    • cell & other
    REGULATION
    Other activity is stimulated by starvation to reduce ribosomal RNA transcription
    ASSOCIATED DISORDERS
    corresponding disease(s)
    Other morbid association(s)
    TypeGene ModificationChromosome rearrangementProtein expressionProtein Function
    constitutional     --over  
    greatly decreased NFkappaB activity
    Susceptibility
    Variant & Polymorphism
    Candidate gene
    Marker
    Therapy target
    ANIMAL & CELL MODELS