InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Protein: JMJD6

Summary

InnateDB Protein

IDBP-234957.7

Last Modified

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

Gene Symbol

JMJD6

Protein Name

jumonji domain containing 6

Synonyms

PSR; PTDSR; PTDSR1;

Species

Homo sapiens

Ensembl Protein

ENSP00000380750

InnateDB Gene

IDBG-70010 (JMJD6)

Protein Structure

UniProt Annotation

Function

Dioxygenase that can both act as a histone arginine demethylase and a lysyl-hydroxylase. Acts as a lysyl-hydroxylase that catalyzes 5-hydroxylation on specific lysine residues of target proteins such as U2AF2/U2AF65 and LUC7L2. Acts as a regulator of RNA splicing by mediating 5-hydroxylation of U2AF2/U2AF65, affecting the pre-mRNA splicing activity of U2AF2/U2AF65. In addition to peptidyl-lysine 5-dioxygenase activity, may act as an RNA hydroxylase, as suggested by its ability to bind single strand RNA. Also acts as an arginine demethylase which demethylates histone H3 at 'Arg-2' (H3R2me) and histone H4 at 'Arg-3' (H4R3me), thereby playing a role in histone code. However, histone arginine demethylation may not constitute the primary activity in vivo. Has no histone lysine demethylase activity. Required for differentiation of multiple organs during embryogenesis. Acts as a key regulator of hematopoietic differentiation: required for angiogenic sprouting by regulating the pre-mRNA splicing activity of U2AF2/U2AF65. Seems to be necessary for the regulation of macrophage cytokine responses. {ECO:0000269PubMed:17947579, ECO:0000269PubMed:19574390, ECO:0000269PubMed:20684070, ECO:0000269PubMed:21060799}.

Subcellular Localization

Nucleus, nucleoplasm. Nucleus, nucleolus. Note=Mainly found throughout the nucleoplasm outside of regions containing heterochromatic DNA, with some localization in nucleolus. During mitosis, excluded from the nucleus and reappears in the telophase of the cell cycle.

Disease Associations

Tissue Specificity

Highly expressed in the heart, skeletal muscle and kidney. Expressed at moderate or low level in brain, placenta, lung, liver, pancreas, spleen, thymus, prostate, testis and ovary. Up-regulated in many patients with chronic pancreatitis. Expressed in nursing thymic epithelial cells. {ECO:0000269PubMed:15072554, ECO:0000269PubMed:15622002, ECO:0000269PubMed:9628581}.

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 93 experimentally validated interaction(s) in this database.

Experimentally validated
Total	93 [view]
Protein-Protein	88 [view]
Protein-DNA	4 [view]
Protein-RNA	1 [view]
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003723	RNA binding
GO:0003727	single-stranded RNA binding
GO:0005506	iron ion binding
GO:0005515	protein binding
GO:0033746	histone demethylase activity (H3-R2 specific)
GO:0033749	histone demethylase activity (H4-R3 specific)
GO:0042802	identical protein binding
GO:0070815	peptidyl-lysine 5-dioxygenase activity

Biological Process

GO:0002040	sprouting angiogenesis
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0006397	mRNA processing
GO:0008380	RNA splicing
GO:0018395	peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine
GO:0048024	regulation of mRNA splicing, via spliceosome
GO:0055114	oxidation-reduction process
GO:0070078	histone H3-R2 demethylation
GO:0070079	histone H4-R3 demethylation