InnateDB: Systems Biology of the Innate Immune Response

Mus musculus Gene: Kdm4a

Summary

InnateDB Gene

IDBG-180637.6

Last Modified

2014-10-13 [Report errors or provide feedback]

Gene Symbol

Kdm4a

Gene Name

lysine (K)-specific demethylase 4A

Synonyms

Species

Mus musculus

Ensembl Gene

ENSMUSG00000033326

Encoded Proteins

IDBP-180639

lysine (K)-specific demethylase 4A

IDBP-180641

lysine (K)-specific demethylase 4A

IDBP-268846

lysine (K)-specific demethylase 4A

IDBP-268848

lysine (K)-specific demethylase 4A

Protein Structure

Useful resources

Stemformatics EHFPI ImmGen

InnateDB Annotation

Summary

PMID 24656046

The noncanonical NFκB pathway regulates histone modifications at the Ifnb1 promoter resulting in attenuated recruitment of Rela and histone demethylase, Kdm4a, to the Ifnb1 promoter. This provides a mechanism for regulating the induction of type I interferons .

Entrez Gene

Summary

This gene does not have any Entrez summary - the following is the summary from its human ortholog ENSG00000066135:
This gene is a member of the Jumonji domain 2 (JMJD2) family and encodes a protein containing a JmjN domain, a JmjC domain, a JD2H domain, two TUDOR domains, and two PHD-type zinc fingers. This nuclear protein functions as a trimethylation-specific demethylase, converting specific trimethylated histone residues to the dimethylated form, and as a transcriptional repressor. [provided by RefSeq, Apr 2009]

Gene Information

Type

Protein coding

Genomic Location

Chromosome 4:118136957-118180043

Strand

Reverse strand

Band

D2.1

Transcripts

ENSMUST00000097911	ENSMUSP00000095524
ENSMUST00000050288	ENSMUSP00000062910
ENSMUST00000106406	ENSMUSP00000102014
ENSMUST00000106403	ENSMUSP00000102011
ENSMUST00000152808
ENSMUST00000164821

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 6 experimentally validated interaction(s) in this database.
They are also associated with 11 interaction(s) predicted by orthology.

Experimentally validated
Total	6 [view]
Protein-Protein	5 [view]
Protein-DNA	1 [view]
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	11 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0005515	protein binding
GO:0008270	zinc ion binding
GO:0031625	ubiquitin protein ligase binding
GO:0035064	methylated histone binding
GO:0051864	histone demethylase activity (H3-K36 specific)

Biological Process

GO:0006351	transcription, DNA-templated
GO:0014898	cardiac muscle hypertrophy in response to stress
GO:0016577	histone demethylation
GO:0045087	innate immune response (InnateDB)
GO:0045892	negative regulation of transcription, DNA-templated
GO:0055114	oxidation-reduction process
GO:0070544	histone H3-K36 demethylation

Cellular Component

GO:0005634	nucleus
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005813	centrosome

Orthologs

Species

Homo sapiens

Bos taurus

Gene ID

Gene Order

ENSG00000066135

View Gene Order

ENSBTAG00000002078

Not yet available

Pathways

NETPATH

REACTOME

REACT_218274

Chromatin organization pathway

REACT_256030

HDMs demethylate histones pathway

REACT_202766

Chromatin modifying enzymes pathway

KEGG

INOH

PID NCI

Pathway Predictions based on Human Orthology Data

NETPATH

REACTOME

REACT_228178

HDMs demethylate histones pathway

REACT_172623

Chromatin organization pathway

REACT_172633

Chromatin modifying enzymes pathway

KEGG

INOH

PID NCI

Cross-References

SwissProt

TrEMBL

UniProt Splice Variant

Entrez Gene

UniGene

Mm.234234

RefSeq

NM_001161823 NM_172382 XM_006503010 XM_006503011

OMIM

CCDS

CCDS18545 CCDS51282

HPRD

IMGT

MGI ID

MGI Symbol

EMBL

GenPept

RNA Seq Atlas