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Tchem
KDM4D
Lysine-specific demethylase 4D

Protein Summary
Description
Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Demethylates both di- and trimethylated H3 'Lys-9' residue, while it has no activity on monomethylated residues. Demethylation of Lys residue generates formaldehyde and succinate.
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000335080
  • ENSP00000334181
  • ENSG00000186280
  • ENST00000536741
  • ENSP00000460897
  • ENST00000610872
  • ENSP00000482224

Symbol
  • JHDM3D
  • JMJD2D
  • JMJD2D
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
histone modification site profile
0.88
biological process
0.55
tissue sample
0.54
cell line
0.52
cell type or tissue
0.52


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: 131.37   (req: < 5)
Gene RIFs: 10   (req: <= 3)
Antibodies: 217   (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: 131.37   (req: >= 5)
Gene RIFs: 10   (req: > 3)
Antibodies: 217   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 17
Tchem

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

Active Ligands: 13
Tclin

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

Active Drug: 0
Expression Data (0 Tissues)
No expression data found
Protein Sequence and Structure
Residue Counts
Protein Sequence
ProtVista Viewer
Related Tools (4)
Target Illumination GWAS Analytics (TIGA)
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TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
Thumbnail image for GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
Thumbnail image for GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
Thumbnail image for ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
Approved Drugs (0)
No approved drugs found
Active Ligands (13)
CHEMBL3786952
Rendered image for CHEMBL3786952
CHEMBL4216044
Rendered image for CHEMBL4216044
CHEMBL3770740
Rendered image for CHEMBL3770740
CHEMBL3771180,CHEMBL3771198
Rendered image for CHEMBL3771180,CHEMBL3771198
CHEMBL3769724
Rendered image for CHEMBL3769724
3-(Benzylamino)isonicotinic Acid
Rendered image for 3-(Benzylamino)isonicotinic Acid
CHEMBL3769511
Rendered image for CHEMBL3769511
Protein-Protein Interactions (42)
TRPC4AP
Tbio
Novelty:  0.02170224
p_int:  0.936359
p_wrong:  0.063641
Score:  0.313
Data Source:  BioPlex,STRINGDB
UBAP1
Tbio
Novelty:  0.02276845
Score:  0.832
Data Source:  STRINGDB
KDM7A
Tchem
Family:  Epigenetic
Novelty:  0.04113733
Score:  0.698
Data Source:  STRINGDB
NSD1
Tbio
Family:  Epigenetic
Novelty:  0.00495576
Score:  0.695
Data Source:  STRINGDB
KDM6B
Tchem
Family:  Epigenetic
Novelty:  0.0048959
Score:  0.676
Data Source:  STRINGDB
PHF8
Tchem
Family:  Epigenetic
Novelty:  0.01946151
Score:  0.67
Data Source:  STRINGDB
KDM1A
Tchem
Family:  Epigenetic
Novelty:  0.00142673
Score:  0.668
Data Source:  STRINGDB
KDM2A
Tchem
Family:  Epigenetic
Novelty:  0.01990727
Score:  0.644
Data Source:  STRINGDB
JMJD1C
Tbio
Family:  Epigenetic
Novelty:  0.02919389
Score:  0.642
Data Source:  STRINGDB
PHF2
Tbio
Family:  Epigenetic
Novelty:  0.10427439
Score:  0.641
Data Source:  STRINGDB
Nearest Tclin Targets
Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.
Pathways (3)
Chromatin modifying enzymes (R-HSA-3247509)

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

Find Similar Targets
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
Viral Interactions (0)
No viral interactions found
Gene Ontology Terms (23)
Find Similar Targets
Items per page:
10
1 – 10 of 10
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Electronic Annotation (IEA)
Ensembl
Inferred from Electronic Annotation (IEA)
Ensembl
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Disease Associations (null)
No disease associations found
GWAS Traits (1)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mean platelet volume
2
2
2
93.3
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mean platelet volume
2
93.3
Find similar targets by:
IDG Resources
No IDG generated resources found
Orthologs (5)
1 – 5 of 5
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
lysine demethylase 4D
VGNC:11861
466754
Macaque
lysine-specific demethylase 4D
698455
Mouse
MGI:3606484
244694
Rat
RGD:1591045
689582
Dog
lysine demethylase 4D
485121
Species
Name
OMA
EggNOG
Inparanoid
Chimp
lysine demethylase 4D
Macaque
lysine-specific demethylase 4D
Mouse
Rat
Dog
lysine demethylase 4D
Publication Statistics
PubMed Score 131.37
PubMed score by year
PubTator Score 17.56
PubTator score by year
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Related Publications
Items per page:
0 of 0
PMID
Year
Title