TF Info Page for KDM2A (CxxC)


Assessment Binding Mode Motif Status Notes Comments
Likely to be sequence specific TF 1 Monomer or homomultimer No motif Has a CXXC zinc finger that recognizes CGs (PMID: 22083960)


Description: lysine demethylase 2A [Source:HGNC Symbol;Acc:HGNC:13606]
Entrez Summary This gene encodes a member of the F-box protein family which is characterized by an approximately 40 amino acid motif, the F-box. The F-box proteins constitute one of the four subunits of ubiquitin protein ligase complex called SCFs (SKP1-cullin-F-box), which function in phosphorylation-dependent ubiquitination. The F-box proteins are divided into 3 classes: Fbws containing WD-40 domains, Fbls containing leucine-rich repeats, and Fbxs containing either different protein-protein interaction modules or no recognizable motifs. The protein encoded by this gene belongs to the Fbls class and, in addition to an F-box, contains at least six highly degenerated leucine-rich repeats. This family member plays a role in epigenetic silencing. It nucleates at CpG islands and specifically demethylates both mono- and di-methylated lysine-36 of histone H3. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2012]
Ensembl ID: ENSG00000173120
External Link: CisBP
Interpro IPR001810; IPR001965; IPR002857; IPR003347; IPR006553; IPR011011; IPR019786; IPR019787;
Protein Domain: ENSP00000309302
Protein Domain: ENSP00000381640
Protein Domain: ENSP00000432786
Protein Domain: ENSP00000435776
Protein: ENSP00000309302DBD: CxxCOther: Cupin_8, F-box, F-box-like, JmjC, LRR_6, PHD_4
Protein: ENSP00000381640DBD: CxxCOther: Cupin_8, JmjC, PHD_4
Protein: ENSP00000432786DBD: CxxCOther: Cupin_8, F-box, F-box-like, JmjC, LRR_6, PHD_4
Protein: ENSP00000435776DBD: CxxCOther: F-box, F-box-like, LRR_6, PHD_4

Previous Annotations

Source Annotation
TF-CAT classification No
Vaquerizas 2009 TF classification
"a" Has direct evidence of TF function;
"b" Has evidence for an orthologous TF;
"c" contains likely DBDs, but has no functional evidence;
"x" is an unlikely TF such as predicted gene, genes with likely non-specific DBDs or that have function outside transcription;
"other" category contains proteins without clear DBDs they curated from external sources.
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" No
Initial Assessment
1a1 Protein has a high confidence PWM (HT-SELEX, PBM or B1H model) or there is a crystal structure that supports sequence specific DNA binding;
1a2 There is high confidence data for a close ortholog (as defined in CisBP);
2a1 There is lower confidence direct evidence, such as a Jaspar, Hocomoco or Transfac model;
2a2 There is lower confidence evidence for an close ortholog;
3a There is decent circumstantial evidence for its role as a TF or not;
4a Two or more datasets predict it as a TF;
5a One of the source datasets predicts is as a TF
5a, one of the source datasets predicts is as a TF
TF has conditional DNA-binding requirements Chromatin_Modifier_etc


Published Motif Data

Source Annotation Motif Evidence


Structure PDB Not_Covered

Experimental History

Method Constructs
Tried in PBM?
(Whether the protein was tried in PBM or not)
Tried in HT-SELEX
(Whether the protein was tried in HT-SELEX or not, and if so, then what kind of clones were tested)
Other Information?
(Tried with another method and failed?)

External Contribution