[1]	NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2). TISSUE=Stomach cancer; Izawa M., Takahashi M.; "Identification of an alternative form of phosphatidylserine receptor."; Submitted (OCT-2001) to the EMBL/GenBank/DDBJ databases.
[2]	NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3), AND TISSUE SPECIFICITY. TISSUE=Brain; DOI=10.1093/dnares/5.1.31; PubMed=9628581 [NCBI, ExPASy, EBI, Israel, Japan] Nagase T., Ishikawa K., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.; "Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro."; DNA Res. 5:31-39(1998).
[3]	NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). TISSUE=Skin, and Uterus; DOI=10.1101/gr.2596504; PubMed=15489334 [NCBI, ExPASy, EBI, Israel, Japan] The MGC Project Team; "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."; Genome Res. 14:2121-2127(2004).
[4]	SUBCELLULAR LOCATION, AND NUCLEAR LOCALIZATION SIGNALS. DOI=10.1016/j.yexcr.2003.09.023; PubMed=14729065 [NCBI, ExPASy, EBI, Israel, Japan] Cui P., Qin B., Liu N., Pan G., Pei D.; "Nuclear localization of the phosphatidylserine receptor protein via multiple nuclear localization signals."; Exp. Cell Res. 293:154-163(2004).
[5]	TISSUE SPECIFICITY, AND INDUCTION. DOI=10.1677/jme.0.0320497; PubMed=15072554 [NCBI, ExPASy, EBI, Israel, Japan] Cao W.M., Murao K., Imachi H., Hiramine C., Abe H., Yu X., Dobashi H., Wong N.C.W., Takahara J., Ishida T.; "Phosphatidylserine receptor cooperates with high-density lipoprotein receptor in recognition of apoptotic cells by thymic nurse cells."; J. Mol. Endocrinol. 32:497-505(2004).
[6]	TISSUE SPECIFICITY. PubMed=15622002 [NCBI, ExPASy, EBI, Israel, Japan] Koeninger J., Balaz P., Wagner M., Shi X., Cima I., Zimmermann A., di Sebastiano P., Buechler M.W., Friess H.; "Phosphatidylserine receptor in chronic pancreatitis: evidence for a macrophage independent role."; Ann. Surg. 241:144-151(2005).
[7]	FUNCTION, AND MUTAGENESIS OF HIS-187; ASP-189 AND HIS-273. DOI=10.1126/science.1145801; PubMed=17947579 [NCBI, ExPASy, EBI, Israel, Japan] Chang B., Chen Y., Zhao Y., Bruick R.K.; "JMJD6 is a histone arginine demethylase."; Science 318:444-447(2007).
[8]	IDENTIFICATION [LARGE SCALE ANALYSIS], AND MASS SPECTROMETRY. Colinge J., Superti-Furga G., Bennett K.L.; Submitted (OCT-2008) to UniProtKB.

Comments

FUNCTION: Arginine demethylase which demethylates histone H3 at 'Arg-2' (H3R2me) and histone H4 at 'Arg-3' (H4R3me). Required for differentiation of multiple organs during embryogenesis. Probably acts as a key regulator of hematopoietic differentiation. Seems to be necessary for the regulation of macrophage cytokine responses.
SUBCELLULAR LOCATION: Nucleus.

ALTERNATIVE PRODUCTS: 3 named isoforms [FASTA] produced by alternative splicing.

Name	1
Synonyms	Alpha
Isoform ID	Q6NYC1-1
This is the isoform sequence displayed in this entry.

Name	2
Synonyms	Beta
Isoform ID	Q6NYC1-2
Features which should be applied to build the isoform sequence: VSP_014022, VSP_014023.

Name	3
Isoform ID	Q6NYC1-3
Features which should be applied to build the isoform sequence: VSP_014023.

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.
INDUCTION: Up-regulated upon cytokine treatment, but not upon TNF-alpha treatment.
DOMAIN: The nuclear localization signal motifs are necessary and sufficient to target it into the nucleus.
SIMILARITY: Belongs to the PTDSR family.
SIMILARITY: Contains 1 JmjC domain.
CAUTION: Was initially thought to constitute the phosphatidylserine receptor, a receptor that mediates recognition of phosphatidylserine, a specific marker only present at the surface of apoptotic cells. Phosphatidylserine receptor probably participates in apoptotic cell phagocytosis. This protein was identified using phage display expressing mAb 217, an antibody that specifically recognizes phosphatidylserine receptor. However, its nuclear localization and the fact that mAb 217 antibody still recognizes the phosphatidylserine receptor in mice lacking JMJD6, strongly suggest that it does not constitute the receptor for phosphatidylserine and is not involved in apoptotic cell removal.

Copyright

Copyrighted by the UniProt Consortium, see http://www.uniprot.org/terms. Distributed under the Creative Commons Attribution-NoDerivs License.

Cross-references

Sequence databases

EMBL

AB073711; BAC16755.1; -; mRNA.	[EMBL / GenBank / DDBJ] [CoDingSequence]
AB011157; BAA25511.1; ALT_INIT; mRNA.	[EMBL / GenBank / DDBJ] [CoDingSequence]
BC047003; AAH47003.1; ALT_INIT; mRNA.	[EMBL / GenBank / DDBJ] [CoDingSequence]
BC066654; AAH66654.1; -; mRNA.	[EMBL / GenBank / DDBJ] [CoDingSequence]

IPI

IPI00375496; -.
IPI00550958; -.
IPI00604598; -.

RefSeq

NP_001074930.1; -.
NP_055982.2; -.

UniGene

Hs.514505

3D structure databases

ModBase

Q6NYC1.

PTM databases

PhosphoSite

Q6NYC1; -.

Organism-specific databases

GC17M072221; -.

HIX0014203; -.

HGNC:19355; JMJD6.

CAB004548; -.

604914; gene. [NCBI / EBI]

HUGE

KIAA0585.

Gene expression databases

Q6NYC1; -.

Q6NYC1; -.

HS_JMJD6; -.

ENSG00000070495; Homo sapiens.

Ontologies

GO:0005634;	Cellular component: nucleus (inferred from direct assay from UniProtKB).
GO:0033746;	Molecular function: histone demethylase activity (H3-R2 specific) (inferred from direct assay from UniProtKB).
GO:0033749;	Molecular function: histone demethylase activity (H4-R3 specific) (inferred from direct assay from UniProtKB).
GO:0042802;	Molecular function: identical protein binding (inferred from direct assay from UniProtKB).
GO:0016702;	Molecular function: oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen (inferred from electronic annotation from UniProtKB-KW).
GO:0070078;	Biological process: histone H3-R2 demethylation (inferred from direct assay from UniProtKB).
GO:0070079;	Biological process: histone H4-R3 demethylation (inferred from direct assay from UniProtKB).
GO:0055114;	Biological process: oxidation reduction (inferred from electronic annotation from UniProtKB-KW).
QuickGo view.

Family and domain databases

InterPro

IPR013129; TF_JmjC.
IPR003347; TF_JmjC_AAH.
Graphical view of domain structure.

Pfam

PF02373; JmjC; 1.
Pfam graphical view of domain structure.

SMART

SM00558; JmjC; 1.
SMART graphical view of domain structure.

PROSITE

PS51184; JMJC; 1.
PROSITE graphical view of domain structure (profiles).

Proteomic databases

PRIDE

Q6NYC1; -.

Genome annotation databases

Ensembl

ENSG00000070495; Homo sapiens. [Contig view]

GeneID

23210; -.

KEGG

hsa:23210; -.

Phylogenomic databases

HOVERGEN

Q6NYC1; -.

OMA

Q6NYC1; MHRRKKR.

Other

44753; -.

JMJD6; Homo sapiens.

View cluster of proteins with at least 50% / 90% / 100% identity.

Keywords

Alternative splicing; Developmental protein; Differentiation; Dioxygenase; Nucleus; Oxidoreductase.

Features

Feature table viewer

Feature aligner

`Key`	`From To`	`Length`	`Description`	`FTId`
`CHAIN`	`1 403`	`403`	`Histone arginine demethylase JMJD6.`	`PRO_0000129369`
`DOMAIN`	`141 305`	`165`	`JmjC.`
`MOTIF`	`6 10`	`5`	`Nuclear localization signal 1.`
`MOTIF`	`91 95`	`5`	`Nuclear localization signal 2.`
`MOTIF`	`141 145`	`5`	`Nuclear localization signal 3.`
`MOTIF`	`167 170`	`4`	`Nuclear localization signal 4.`
`MOTIF`	`373 378`	`6`	`Nuclear localization signal 5.`
`COMPBIAS`	`340 365`	`26`	`Ser-rich.`
`VAR_SEQ`	`361 402`		`Missing (in isoform 2).`	`VSP_014022`
`VAR_SEQ`	`403 403`		`R -> RIRDTCGGRAHP (in isoform 2 and isoform 3).`	`VSP_014023`
`MUTAGEN`	`187 187`		`H->A: Loss of catalytic activity; when associated with A-189 and A-273.`
`MUTAGEN`	`189 189`		`D->A: Loss of catalytic activity; when associated with A-187 and A-273.`
`MUTAGEN`	`273 273`		`H->A: Loss of catalytic activity; when associated with A-187 and A-189.`

Sequence information

Length: 403 AA [This is the length of the unprocessed precursor]

Molecular weight: 46462 Da [This is the MW of the unprocessed precursor]

CRC64: 9C9AADA98B24B035 [This is a checksum on the sequence]

        10         20         30         40         50         60 
MNHKSKKRIR EAKRSARPEL KDSLDWTRHN YYESFSLSPA AVADNVERAD ALQLSVEEFV 

        70         80         90        100        110        120 
ERYERPYKPV VLLNAQEGWS AQEKWTLERL KRKYRNQKFK CGEDNDGYSV KMKMKYYIEY 

       130        140        150        160        170        180 
MESTRDDSPL YIFDSSYGEH PKRRKLLEDY KVPKFFTDDL FQYAGEKRRP PYRWFVMGPP 

       190        200        210        220        230        240 
RSGTGIHIDP LGTSAWNALV QGHKRWCLFP TSTPRELIKV TRDEGGNQQD EAITWFNVIY 

       250        260        270        280        290        300 
PRTQLPTWPP EFKPLEILQK PGETVFVPGG WWHVVLNLDT TIAITQNFAS STNFPVVWHK 

       310        320        330        340        350        360 
TVRGRPKLSR KWYRILKQEH PELAVLADSV DLQESTGIAS DSSSDSSSSS SSSSSDSDSE 

       370        380        390        400 
CESGSEGDGT VHRRKKRRTC SMVGNGDTTS QDDCVSKERS SSR

Q6NYC1 in FASTA format

View entry in raw text format (no links)
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	BLAST submission on ExPASy/SIB or at NCBI (USA)		Sequence analysis tools: ProtParam, ProtScale, Compute pI/Mw, PeptideMass, PeptideCutter, Dotlet (Java)
	ScanProsite, MotifScan		Submit a homology modeling request to SWISS-MODEL
	NPSA Sequence analysis tools