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Tbio Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6

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.

This gene encodes a nuclear protein with a JmjC domain. JmjC domain-containing proteins are predicted to function as protein hydroxylases or histone demethylases. This protein was first identified as a putative phosphatidylserine receptor involved in phagocytosis of apoptotic cells; however, subsequent studies have indicated that it does not directly function in the clearance of apoptotic cells, and questioned whether it is a true phosphatidylserine receptor. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

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Property Summary

NCBI Gene PubMed Count 46
PubMed Score 671.45
PubTator Score 101.74

Knowledge Summary

Patent

No data available

TINX Plot

  Disease (3)

Disease Target Count Z-score Confidence
Carcinoma 11493 0.0 0.7

Expression

  Differential Expression (12)

Disease log2 FC p
acute myeloid leukemia 1.300 4.0e-02
adult high grade glioma -1.200 5.2e-03
atypical teratoid / rhabdoid tumor -1.600 1.8e-04
ependymoma -1.100 3.8e-02
glioblastoma 1.400 2.2e-03
group 3 medulloblastoma 1.300 6.1e-03
lung cancer -1.400 1.5e-02
medulloblastoma, large-cell -1.100 1.5e-02
non primary Sjogren syndrome sicca 1.200 2.3e-02
osteosarcoma -1.578 5.8e-04
ovarian cancer 1.500 1.3e-05
psoriasis -1.200 2.3e-08

Synonym

Accession Q6NYC1 B3KMN8 B4DGX1 Q86VY0 Q8IUM5 Q9Y4E2
Symbols PSR
PTDSR
PTDSR1

Gene

JMJD6

PANTHER Protein Class (1)

PDB

3K2O   3LD8   3LDB  

  Ortholog (1)

Species Source Disease
Chimp OMA EggNOG

 UniProt Keyword (18)

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 GO Function (10)

 GO Component (6)

 GO Process (18)

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 Compartment GO Term (23)

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 IMPC Phenotype (4)

 MGI Phenotype (18)

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 HCA RNA Cell Line (56)

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Pathway (3)

Protein-protein Interaction (62)

U2SURP   SFSWAP   CAAP1   PHRF1   TFIP11   ZNF24   DKC1   CDCA2   RPS7   PUF60   RBM27   RBM26   RBM25   NSRP1   RSRC2   DDX46   RBM23   RBM39   NUDT21   PAXBP1   U2AF2   SCAF1   CDK11B   LUC7L3   CPSF7   WDR48   PRPF38A   PPIG   SCAF8   SCAF4   RBMX2   WDR33   CPSF4   SCAF11   DIDO1   SREK1   RNPC3   UAP1   PPIL4   CHERP   DHX40   RABL6   SRSF11   CACTIN   CPSF6   ZMYM1   BRD4   SETD2   PRPF38B   ARGLU1   USP42   NFKBIL1   CLK4   HBS1L   ZC3H4   DHX38   GTF2F1   CCNL2   ZRSR2P1   RNF138   TAF7   CCNL1  

Gene RIF (29)

AA Sequence 

MNHKSKKRIREAKRSARPELKDSLDWTRHNYYESFSLSPAAVADNVERADALQLSVEEFVERYERPYKPV      1 - 70
VLLNAQEGWSAQEKWTLERLKRKYRNQKFKCGEDNDGYSVKMKMKYYIEYMESTRDDSPLYIFDSSYGEH     71 - 140
PKRRKLLEDYKVPKFFTDDLFQYAGEKRRPPYRWFVMGPPRSGTGIHIDPLGTSAWNALVQGHKRWCLFP    141 - 210
TSTPRELIKVTRDEGGNQQDEAITWFNVIYPRTQLPTWPPEFKPLEILQKPGETVFVPGGWWHVVLNLDT    211 - 280
TIAITQNFASSTNFPVVWHKTVRGRPKLSRKWYRILKQEHPELAVLADSVDLQESTGIASDSSSDSSSSS    281 - 350
SSSSSDSDSECESGSEGDGTVHRRKKRRTCSMVGNGDTTSQDDCVSKERSSSR                     351 - 403
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Text Mined References (50)

PMID Year Title