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Tbio
PHF2
Lysine-specific demethylase PHF2

Protein Summary
Description
Lysine demethylase that demethylates both histones and non-histone proteins. Enzymatically inactive by itself, and becomes active following phosphorylation by PKA: forms a complex with ARID5B and mediates demethylation of methylated ARID5B. Demethylation of ARID5B leads to target the PHF2-ARID5B complex to target promoters, where PHF2 mediates demethylation of dimethylated 'Lys-9' of histone H3 (H3K9me2), followed by transcription activation of target genes. The PHF2-ARID5B complex acts as a coactivator of HNF4A in liver. PHF2 is recruited to trimethylated 'Lys-4' of histone H3 (H3K4me3) at rDNA promoters and promotes expression of rDNA. This gene encodes a protein which contains a zinc finger-like PHD (plant homeodomain) finger, distinct from other classes of zinc finger motifs, and a hydrophobic and highly conserved domain. The PHD finger shows the typical Cys4-His-Cys3 arrangement. PHD finger genes are thought to belong to a diverse group of transcriptional regulators possibly affec ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000359246
  • ENSP00000352185
  • ENSG00000197724

Symbol
  • CENP-35
  • KIAA0662
  • GRC5
  • KDM7C
  • JHDM1E
  • CENP-35
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
protein domain
0.85
disease perturbation
0.83
co-expressed gene
0.82
biological process
0.73
molecular function
0.73


IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 6.61   (req: < 5)
Gene RIFs: 9   (req: <= 3)
Antibodies: 86   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 6.61   (req: >= 5)
Gene RIFs: 9   (req: > 3)
Antibodies: 86   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 9
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
GWAS Traits (12)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mathematical ability
4
2
4
96.9
heel bone mineral density
3
3
6
95.7
self reported educational attainment
1
1
1
89.9
insomnia measurement
3
3
0
1
84.1
loneliness measurement
4
3
3
6.4
82.7
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mathematical ability
4
96.9
heel bone mineral density
6
95.7
self reported educational attainment
1
89.9
insomnia measurement
0
1
84.1
loneliness measurement
3
6.4
82.7
Protein Data Bank (6)
1 – 5 of 6
PDB Structure Id
Ligand
Method
Resolution (Å)
M.W. (kDa)
Pub Year
Title
PDB Structure Id
M.W.
Resolution
Pub Year
Pathways (3)
Chromatin modifying enzymes (R-HSA-3247509)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 3 of 3
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Chromatin modifying enzymes
Reactome
Chromatin organization
Reactome
HDMs demethylate histones
Name
Explore in Pharos
Explore in Source
Chromatin modifying enzymes
Chromatin organization
HDMs demethylate histones
Gene Ontology Terms (14)
Items per page:
10
1 – 6 of 6
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Traceable Author Statement (TAS)
Reactome
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Protein-Protein Interactions (49)
1 – 10 of 49
ARID5B
Tbio
Family: TF
Novelty: 0.01201607
Score: 0.956
Data Source: Reactome,STRINGDB
SKP1
Tbio
Family: Enzyme
Novelty: 0.00149739
Score: 0.748
Data Source: STRINGDB
KDM5C
Tchem
Family: TF; Epigenetic
Novelty: 0.00701855
Score: 0.643
Data Source: STRINGDB
KDM4D
Tchem
Family: Epigenetic
Novelty: 0.00429542
Score: 0.641
Data Source: STRINGDB
HFE
Tbio
Novelty: 0.00042077
Score: 0.64
Data Source: STRINGDB
JMJD4
Tbio
Novelty: 0.09951585
Score: 0.622
Data Source: STRINGDB
KDM4E
Tchem
Family: Epigenetic
Novelty: 0.09675441
Score: 0.61
Data Source: STRINGDB
KDM4A
Tchem
Family: Epigenetic
Novelty: 0.00643043
Score: 0.603
Data Source: STRINGDB
EZH2
Tclin
Family: Epigenetic
Novelty: 0.00052816
Score: 0.599
Data Source: STRINGDB
KDM4B
Tchem
Family: Epigenetic
Novelty: 0.01615072
Score: 0.588
Data Source: STRINGDB
Publication Statistics
PubMed Score  6.61

PubMed score by year
PubTator Score  16.87

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
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