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Protein

JmjC domain-containing protein 4

Gene

JMJD4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Names & Taxonomyi

Protein namesi
Recommended name:
JmjC domain-containing protein 4
Alternative name(s):
Jumonji domain-containing protein 4
Gene namesi
Name:JMJD4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:25724. JMJD4.

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142671643.

Polymorphism and mutation databases

BioMutaiJMJD4.
DMDMi150383500.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 463463JmjC domain-containing protein 4PRO_0000291959Add
BLAST

Proteomic databases

MaxQBiQ9H9V9.
PaxDbiQ9H9V9.
PRIDEiQ9H9V9.

PTM databases

PhosphoSiteiQ9H9V9.

Expressioni

Gene expression databases

BgeeiQ9H9V9.
CleanExiHS_JMJD4.
ExpressionAtlasiQ9H9V9. baseline and differential.
GenevisibleiQ9H9V9. HS.

Organism-specific databases

HPAiHPA027260.
HPA052861.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
HIST2H4BP628053EBI-2866290,EBI-302023

Protein-protein interaction databases

BioGridi122393. 11 interactions.
IntActiQ9H9V9. 3 interactions.
MINTiMINT-6781888.
STRINGi9606.ENSP00000355720.

Structurei

3D structure databases

ProteinModelPortaliQ9H9V9.
SMRiQ9H9V9. Positions 226-330.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini188 – 347160JmjCPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 JmjC domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG291944.
GeneTreeiENSGT00530000063579.
HOGENOMiHOG000039078.
HOVERGENiHBG097429.
InParanoidiQ9H9V9.
OMAiACSTAFF.
OrthoDBiEOG7992Q8.
PhylomeDBiQ9H9V9.
TreeFamiTF105936.

Family and domain databases

InterProiIPR003347. JmjC_dom.
[Graphical view]
SMARTiSM00558. JmjC. 1 hit.
[Graphical view]
PROSITEiPS51184. JMJC. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9H9V9-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MRAGPEPQAL AGQKRGALRL LVPRLVLTVS APAEVRRRVL RPVLSWMDRE
60 70 80 90 100
TRALADSHFR GLGVDVPGVG QAPGRVAFVS EPGAFSYADF VRGFLLPNLP
110 120 130 140 150
CVFSSAFTQG WGSRRRWVTP AGRPDFDHLL RTYGDVVVPV ANCGVQEYNS
160 170 180 190 200
NPKEHMTLRD YITYWKEYIQ AGYSSPRGCL YLKDWHLCRD FPVEDVFTLP
210 220 230 240 250
VYFSSDWLNE FWDALDVDDY RFVYAGPAGS WSPFHADIFR SFSWSVNVCG
260 270 280 290 300
RKKWLLFPPG QEEALRDRHG NLPYDVTSPA LCDTHLHPRN QLAGPPLEIT
310 320 330 340 350
QEAGEMVFVP SGWHHQVHNL DDTISINHNW VNGFNLANMW RFLQQELCAV
360 370 380 390 400
QEEVSEWRDS MPDWHHHCQV IMRSCSGINF EEFYHFLKVI AEKRLLVLRE
410 420 430 440 450
AAAEDGAGLG FEQAAFDVGR ITEVLASLVA HPDFQRVDTS AFSPQPKELL
460
QQLREAVDAA AAP
Length:463
Mass (Da):52,493
Last modified:June 26, 2007 - v2
Checksum:iCD79490AB06E8652
GO
Isoform 2 (identifier: Q9H9V9-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     354-369: Missing.

Show »
Length:447
Mass (Da):50,461
Checksum:i22F00AC7D86D1A0E
GO

Sequence cautioni

The sequence BAB14366.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence CAI23067.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti244 – 2441W → R in BAB14366 (PubMed:14702039).Curated
Sequence conflicti445 – 4451Q → R in BAB14366 (PubMed:14702039).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti11 – 111A → V.1 Publication
Corresponds to variant rs7419238 [ dbSNP | Ensembl ].
VAR_032898
Natural varianti16 – 161G → C.
Corresponds to variant rs34560898 [ dbSNP | Ensembl ].
VAR_032899
Natural varianti65 – 651D → E.
Corresponds to variant rs2295994 [ dbSNP | Ensembl ].
VAR_032900
Natural varianti461 – 4611A → V.
Corresponds to variant rs3087908 [ dbSNP | Ensembl ].
VAR_032901

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei354 – 36916Missing in isoform 2. 1 PublicationVSP_026324Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK022579 mRNA. Translation: BAB14109.1.
AK023030 mRNA. Translation: BAB14366.1. Different initiation.
AL136378 Genomic DNA. Translation: CAI23067.1. Different initiation.
AL136378 Genomic DNA. Translation: CAI23068.1.
CCDSiCCDS1561.1. [Q9H9V9-1]
CCDS59203.1. [Q9H9V9-2]
RefSeqiNP_001154937.1. NM_001161465.1. [Q9H9V9-2]
NP_075383.2. NM_023007.2. [Q9H9V9-1]
UniGeneiHs.555974.
Hs.745334.

Genome annotation databases

EnsembliENST00000366758; ENSP00000355720; ENSG00000081692. [Q9H9V9-1]
ENST00000438896; ENSP00000387830; ENSG00000081692. [Q9H9V9-2]
ENST00000615711; ENSP00000484088; ENSG00000081692. [Q9H9V9-1]
GeneIDi65094.
KEGGihsa:65094.
UCSCiuc001hrb.3. human. [Q9H9V9-1]
uc001hrc.3. human. [Q9H9V9-2]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK022579 mRNA. Translation: BAB14109.1.
AK023030 mRNA. Translation: BAB14366.1. Different initiation.
AL136378 Genomic DNA. Translation: CAI23067.1. Different initiation.
AL136378 Genomic DNA. Translation: CAI23068.1.
CCDSiCCDS1561.1. [Q9H9V9-1]
CCDS59203.1. [Q9H9V9-2]
RefSeqiNP_001154937.1. NM_001161465.1. [Q9H9V9-2]
NP_075383.2. NM_023007.2. [Q9H9V9-1]
UniGeneiHs.555974.
Hs.745334.

3D structure databases

ProteinModelPortaliQ9H9V9.
SMRiQ9H9V9. Positions 226-330.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122393. 11 interactions.
IntActiQ9H9V9. 3 interactions.
MINTiMINT-6781888.
STRINGi9606.ENSP00000355720.

PTM databases

PhosphoSiteiQ9H9V9.

Polymorphism and mutation databases

BioMutaiJMJD4.
DMDMi150383500.

Proteomic databases

MaxQBiQ9H9V9.
PaxDbiQ9H9V9.
PRIDEiQ9H9V9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000366758; ENSP00000355720; ENSG00000081692. [Q9H9V9-1]
ENST00000438896; ENSP00000387830; ENSG00000081692. [Q9H9V9-2]
ENST00000615711; ENSP00000484088; ENSG00000081692. [Q9H9V9-1]
GeneIDi65094.
KEGGihsa:65094.
UCSCiuc001hrb.3. human. [Q9H9V9-1]
uc001hrc.3. human. [Q9H9V9-2]

Organism-specific databases

CTDi65094.
GeneCardsiGC01M227918.
HGNCiHGNC:25724. JMJD4.
HPAiHPA027260.
HPA052861.
neXtProtiNX_Q9H9V9.
PharmGKBiPA142671643.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG291944.
GeneTreeiENSGT00530000063579.
HOGENOMiHOG000039078.
HOVERGENiHBG097429.
InParanoidiQ9H9V9.
OMAiACSTAFF.
OrthoDBiEOG7992Q8.
PhylomeDBiQ9H9V9.
TreeFamiTF105936.

Miscellaneous databases

GenomeRNAii65094.
NextBioi67290.
PROiQ9H9V9.

Gene expression databases

BgeeiQ9H9V9.
CleanExiHS_JMJD4.
ExpressionAtlasiQ9H9V9. baseline and differential.
GenevisibleiQ9H9V9. HS.

Family and domain databases

InterProiIPR003347. JmjC_dom.
[Graphical view]
SMARTiSM00558. JmjC. 1 hit.
[Graphical view]
PROSITEiPS51184. JMJC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2), VARIANT VAL-11.
  2. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiJMJD4_HUMAN
AccessioniPrimary (citable) accession number: Q9H9V9
Secondary accession number(s): Q5TBZ1, Q5TBZ6, Q9H970
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 26, 2007
Last sequence update: June 26, 2007
Last modified: June 24, 2015
This is version 91 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Caution

It is uncertain whether Met-1 or Met-47 is the initiator.Curated

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.