| Tag | Content |
|---|---|
| Uniprot ID | Q9ERI5; A2AA26; A8Y5I2; Q80TX1; |
| Entrez ID | 107817 |
| Genbank protein ID | AAG27719.1; AAH56629.1; BAC65599.1; |
| Genbank nucleotide ID | NM_033398.2 |
| Ensembl protein ID | ENSMUSP00000047570 |
| Ensembl nucleotide ID | ENSMUSG00000056962 |
| Gene name | Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6 |
| Gene symbol | Jmjd6 |
| Organism | Mus musculus |
| NCBI taxa ID | 10090 |
| Cleft type | CPO |
| Developmental stage | |
| Data sources | Manually collected |
| Reference | 15345036 |
| Functional description | Dioxygenase that can both act as a 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. Regulates RNA splicing by mediating 5-hydroxylation of U2AF2/U2AF65, affecting the pre-mRNA splicing activity of U2AF2/U2AF65. Hydroxylates its own N-terminus, which is required for homooligomerization. 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 preferentially demethylates asymmetric dimethylation. Demethylates histone H3 at 'Arg-2' (H3R2me) and histone H4 at 'Arg-3' (H4R3me), including mono-, symmetric di- and asymmetric dimethylated forms, thereby playing a role in histone code. However, histone arginine demethylation may not constitute the primary activity in vivo. In collaboration with BRD4, interacts with the positive transcription elongation factor b (P-TEFb) complex in its active form to regulate polymerase II promoter-proximal pause release for transcriptional activation of a large cohort of genes. On distal enhancers, so called anti-pause enhancers, demethylates both histone H4R3me2 and the methyl cap of 7SKsnRNA leading to the dismissal of the 7SKsnRNA:HEXIM1 inhibitor complex. After removal of repressive marks, the complex BRD4:JMJD6 attract and retain the P-TEFb complex on chromatin, leading to its activation, promoter-proximal polymerase II pause release, and transcriptional activation. Demethylates other arginine methylated-proteins such as ESR1. Has no histone lysine demethylase activity (By similarity). Required for differentiation of multiple organs during embryogenesis (PubMed:15345036). Acts as a key regulator of hematopoietic differentiation: required for angiogenic sprouting by regulating the pre-mRNA splicing activity of U2AF2/U2AF65 (PubMed:21300889). Seems to be necessary for the regulation of macrophage cytokine responses (By similarity). |
| Sequence | MNHKSKKRIR EAKRSARPEL KDSLDWTRHN YYESYPLNPA AVPDNVERAD ALQLSVKEFV 60 ERYERPYKPV VLLNAQEGWS AQEKWTLERL KRKYRNQKFK CGEDNDGYSV KMKMKYYIEY 120 MESTRDDSPL YIFDSSYGEH PKRRKLLEDY KVPKFFTDDL FQYAGEKRRP PYRWFVMGPP 180 RSGTGIHIDP LGTSAWNALV QGHKRWCLFP TNTPRELIKV TREEGGNQQD EAITWFNVIY 240 PRTQLPTWPP EFKPLEILQK PGETVFVPGG WWHVVLNLDT TIAITQNFAS STNFPVVWHK 300 TVRGRPKLSR KWYRILKQEH PELAVLADAV DLQESTGIAS DSSSDSSSSS SSSSSDSDSE 360 CESGSEGDGT THRRKKRRTC SMVGNGDTTS QDDCVSKERS SSR 403 |
Abbreviation :
CLO : cleft lip only. CPO : cleft palate only.
CLP : cleft lip and palate. CL/P : cleft lip with/without cleft palate.
For humans: CL/P, CLO, CPO, and CLP. For mice: CLO, CLP, and CPO.
| GO ID | GO Term | Evidence |
|---|---|---|
| GO:0003713 | transcription coactivator activity | ISS |
| GO:0003713 | transcription coactivator activity | ISO |
| GO:0003723 | RNA binding | IDA |
| GO:0003727 | single-stranded RNA binding | ISS |
| GO:0003727 | single-stranded RNA binding | ISO |
| GO:0005506 | iron ion binding | ISO |
| GO:0005515 | protein binding | IPI |
| GO:0032451 | demethylase activity | ISS |
| GO:0032451 | demethylase activity | ISO |
| GO:0032452 | histone demethylase activity | ISS |
| GO:0032452 | histone demethylase activity | ISO |
| GO:0033746 | histone demethylase activity (H3-R2 specific) | ISS |
| GO:0033746 | histone demethylase activity (H3-R2 specific) | ISO |
| GO:0033749 | histone demethylase activity (H4-R3 specific) | ISS |
| GO:0033749 | histone demethylase activity (H4-R3 specific) | ISO |
| GO:0035515 | oxidative RNA demethylase activity | ISS |
| GO:0035515 | oxidative RNA demethylase activity | ISO |
| GO:0038023 | signaling receptor activity | IDA |
| GO:0042802 | identical protein binding | ISO |
| GO:0042802 | identical protein binding | IDA |
| GO:0070815 | peptidyl-lysine 5-dioxygenase activity | ISS |
| GO:0070815 | peptidyl-lysine 5-dioxygenase activity | ISO |
| GO:0106140 | P-TEFb complex binding | ISO |
| GO ID | GO Term | Evidence |
|---|---|---|
| GO:0001568 | blood vessel development | IMP |
| GO:0001822 | kidney development | IMP |
| GO:0002040 | sprouting angiogenesis | IMP |
| GO:0006397 | mRNA processing | IEA |
| GO:0006482 | protein demethylation | ISS |
| GO:0006482 | protein demethylation | ISO |
| GO:0007166 | cell surface receptor signaling pathway | IDA |
| GO:0007507 | heart development | IMP |
| GO:0008380 | RNA splicing | IEA |
| GO:0018395 | peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine | ISS |
| GO:0018395 | peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine | ISO |
| GO:0030324 | lung development | IMP |
| GO:0033077 | T cell differentiation in thymus | IMP |
| GO:0035513 | oxidative RNA demethylation | ISS |
| GO:0035513 | oxidative RNA demethylation | ISO |
| GO:0042116 | macrophage activation | IMP |
| GO:0043277 | apoptotic cell clearance | IMP |
| GO:0043654 | recognition of apoptotic cell | IDA |
| GO:0043654 | recognition of apoptotic cell | IMP |
| GO:0045893 | positive regulation of transcription, DNA-templated | ISS |
| GO:0045893 | positive regulation of transcription, DNA-templated | ISO |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | ISS |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | ISO |
| GO:0048024 | regulation of mRNA splicing, via spliceosome | ISO |
| GO:0048024 | regulation of mRNA splicing, via spliceosome | IMP |
| GO:0048821 | erythrocyte development | IMP |
| GO:0051260 | protein homooligomerization | ISS |
| GO:0051260 | protein homooligomerization | ISO |
| GO:0060041 | retina development in camera-type eye | IMP |
| GO:0070078 | histone H3-R2 demethylation | IEA |
| GO:0070079 | histone H4-R3 demethylation | ISS |
| GO ID | GO Term | Evidence |
|---|---|---|
| GO:0005634 | nucleus | ISO |
| GO:0005634 | nucleus | IDA |
| GO:0005654 | nucleoplasm | ISS |
| GO:0005654 | nucleoplasm | ISO |
| GO:0005654 | nucleoplasm | IDA |
| GO:0005730 | nucleolus | ISS |
| GO:0005730 | nucleolus | ISO |
| GO:0005730 | nucleolus | IDA |
| GO:0005737 | cytoplasm | ISO |
| GO:0005829 | cytosol | IDA |
| GO:0005886 | plasma membrane | IDA |
| GO:1990904 | ribonucleoprotein complex | IDA |
| Reactome ID | Reactome Term | Evidence |
|---|---|---|
| R-MMU-3214842 | HDMs demethylate histones | IEA |
| R-MMU-3247509 | Chromatin modifying enzymes | IEA |
| R-MMU-4839726 | Chromatin organization | IEA |
| Keyword ID | Keyword Term |
|---|---|
| KW-0025 | Alternative splicing |
| KW-0156 | Chromatin regulator |
| KW-0963 | Cytoplasm |
| KW-0217 | Developmental protein |
| KW-0221 | Differentiation |
| KW-0223 | Dioxygenase |
| KW-0408 | Iron |
| KW-0479 | Metal-binding |
| KW-0507 | mRNA processing |
| KW-0508 | mRNA splicing |
| KW-0539 | Nucleus |
| KW-0560 | Oxidoreductase |
| KW-1185 | Reference proteome |
| KW-0694 | RNA-binding |
| KW-0804 | Transcription |
| KW-0805 | Transcription regulation |
| InterPro ID | InterPro Term |
|---|---|
| IPR003347 | JmjC_dom |
| PROSITE ID | PROSITE Term |
|---|---|
| PS51184 | JMJC |
| Pfam ID | Pfam Term |
|---|---|
| PF02373 | JmjC |