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Protein

Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6

Gene

JMJD6

Organism
Gallus gallus (Chicken)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

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. 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 (By similarity).By similarity

Cofactori

Fe2+By similarityNote: Binds 1 Fe2+ ion per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei184 – 1841SubstrateBy similarity
Metal bindingi187 – 1871Iron; catalyticPROSITE-ProRule annotation
Metal bindingi189 – 1891Iron; catalyticPROSITE-ProRule annotation
Binding sitei197 – 19712-oxoglutarateBy similarity
Binding sitei204 – 2041SubstrateBy similarity
Metal bindingi273 – 2731Iron; catalyticPROSITE-ProRule annotation
Binding sitei285 – 28512-oxoglutarateBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Developmental protein, Dioxygenase, Oxidoreductase

Keywords - Biological processi

Differentiation, mRNA processing, mRNA splicing, Transcription, Transcription regulation

Keywords - Ligandi

Iron, Metal-binding, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6 (EC:1.14.11.-)
Alternative name(s):
Histone arginine demethylase JMJD6
JmjC domain-containing protein 6
Jumonji domain-containing protein 6
Lysyl-hydroxylase JMJD6
Peptide-lysine 5-dioxygenase JMJD6
Phosphatidylserine receptor
Short name:
Protein PTDSR
Gene namesi
Name:JMJD6
Synonyms:PTDSR
ORF Names:RCJMB04_1m8
OrganismiGallus gallus (Chicken)
Taxonomic identifieri9031 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiArchelosauriaArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalloanseraeGalliformesPhasianidaePhasianinaeGallus
Proteomesi
  • UP000000539 Componenti: Unplaced

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 414414Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6PRO_0000129373Add
BLAST

Proteomic databases

PaxDbiQ5ZMK5.

Interactioni

Protein-protein interaction databases

STRINGi9031.ENSGALP00000002781.

Structurei

3D structure databases

ProteinModelPortaliQ5ZMK5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini141 – 305165JmjCPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi340 – 36526Ser-richAdd
BLAST

Sequence similaritiesi

Belongs to the JMJD6 family.Curated
Contains 1 JmjC domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG2130. Eukaryota.
ENOG410XQCR. LUCA.
HOGENOMiHOG000265824.
HOVERGENiHBG054774.
InParanoidiQ5ZMK5.
KOiK11323.
PhylomeDBiQ5ZMK5.

Family and domain databases

InterProiIPR003347. JmjC_dom.
[Graphical view]
PfamiPF02373. JmjC. 1 hit.
[Graphical view]
SMARTiSM00558. JmjC. 1 hit.
[Graphical view]
PROSITEiPS51184. JMJC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5ZMK5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNHKSKKRIR EAKRSARPEL KDSLDWTRHN YCETFPLSPA ACKDNVERAD
60 70 80 90 100
ALQLTVEEFV ERYEKPYKPV VLLNAQVGWS AQEKWTLERL KRKYRNQKFK
110 120 130 140 150
CGEDNDGYSV KMKMKYYIEY METTRDDSPL YIFDSSYGEH PKRRKLLEDY
160 170 180 190 200
KVPKFFTDDL FQYAGEKRRP PYRWFVMGPP RSGTGIHIDP LGTSAWNALV
210 220 230 240 250
QGHKRWCLFP TSTPRELIKV AREEGGNQQD EAITWFNVIY PRTQLPTWPP
260 270 280 290 300
EFKPLEILQK PGETVFVPGG WWHVVLNLDT TIAITQNFAS CTNFPVVWHK
310 320 330 340 350
TVRGRPKLSR KWYRILKQEH PDLAALADSV DLQESTGIAS DSSSDSSSSS
360 370 380 390 400
SSSSSDSDSE CDSGSETEGM MHRRKKRRTC SMMGNGDTTS QDDCVSKERS
410
SSRIRESCGG RSYP
Length:414
Mass (Da):47,760
Last modified:November 23, 2004 - v1
Checksum:iFB7EFCCF5701592D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ719379 mRNA. Translation: CAG31038.1.
RefSeqiNP_001025874.1. NM_001030703.1.
UniGeneiGga.21114.

Genome annotation databases

GeneIDi417355.
KEGGigga:417355.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ719379 mRNA. Translation: CAG31038.1.
RefSeqiNP_001025874.1. NM_001030703.1.
UniGeneiGga.21114.

3D structure databases

ProteinModelPortaliQ5ZMK5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi9031.ENSGALP00000002781.

Proteomic databases

PaxDbiQ5ZMK5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi417355.
KEGGigga:417355.

Organism-specific databases

CTDi23210.

Phylogenomic databases

eggNOGiKOG2130. Eukaryota.
ENOG410XQCR. LUCA.
HOGENOMiHOG000265824.
HOVERGENiHBG054774.
InParanoidiQ5ZMK5.
KOiK11323.
PhylomeDBiQ5ZMK5.

Miscellaneous databases

NextBioi20820666.
PROiQ5ZMK5.

Family and domain databases

InterProiIPR003347. JmjC_dom.
[Graphical view]
PfamiPF02373. JmjC. 1 hit.
[Graphical view]
SMARTiSM00558. JmjC. 1 hit.
[Graphical view]
PROSITEiPS51184. JMJC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: CB.
    Tissue: Bursa of Fabricius.

Entry informationi

Entry nameiJMJD6_CHICK
AccessioniPrimary (citable) accession number: Q5ZMK5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: November 23, 2004
Last modified: November 11, 2015
This is version 64 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.