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Protein

Lysine-specific demethylase 3A

Gene

Kdm3a

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Preferentially demethylates mono- and dimethylated H3 'Lys-9' residue, with a preference for dimethylated residue, while it has weak or no activity on trimethylated H3 'Lys-9'. Demethylation of Lys residue generates formaldehyde and succinate. Involved in hormone-dependent transcriptional activation, by participating in recruitment to androgen-receptor target genes, resulting in H3 'Lys-9' demethylation and transcriptional activation. Involved in spermatogenesis by regulating expression of target genes such as PRM1 and TMP1 which are required for packaging and condensation of sperm chromatin. Directly regulates expression of PPARA and UCP1 and is involved in obesity resistance (By similarity).By similarity

Cofactori

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi1006 – 10061Iron; catalyticPROSITE-ProRule annotation
Metal bindingi1008 – 10081Iron; catalyticPROSITE-ProRule annotation
Metal bindingi1135 – 11351Iron; catalyticPROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri546 – 57126C6-typeSequence analysisAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • cell differentiation Source: UniProtKB-KW
  • chromatin modification Source: UniProtKB-KW
  • male gonad development Source: RGD
  • positive regulation of gene expression Source: RGD
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • response to hypoxia Source: RGD
  • spermatogenesis Source: UniProtKB-KW
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Chromatin regulator, Dioxygenase, Oxidoreductase

Keywords - Biological processi

Differentiation, Spermatogenesis, Transcription, Transcription regulation

Keywords - Ligandi

Iron, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Lysine-specific demethylase 3A (EC:1.14.11.-)
Alternative name(s):
JmjC domain-containing histone demethylation protein 2A
Jumonji domain-containing protein 1A
Testis-specific gene A protein
Zinc finger protein TSGA
Gene namesi
Name:Kdm3a
Synonyms:Jhdm2a, Jmjd1a, Tsga
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi708351. Kdm3a.

Subcellular locationi

  • Cytoplasm By similarity
  • Nucleus By similarity

  • Note: Nuclear in round spermatids. When spermatids start to elongate, localizes to the cytoplasm where it forms distinct foci which disappear in mature spermatozoa (By similarity).By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12141214Lysine-specific demethylase 3APRO_0000084287Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei150 – 1501PhosphoserineBy similarity
Modified residuei330 – 3301PhosphoserineBy similarity
Modified residuei779 – 7791N6-acetyllysineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ63679.
PRIDEiQ63679.

Expressioni

Tissue specificityi

Testis specific. Expressed only in male germ cells.

Developmental stagei

Reaches a maximum during the meiotic and the postmeiotic stages of germ cell development.

Interactioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000041218.

Structurei

3D structure databases

ProteinModelPortaliQ63679.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini944 – 1167224JmjCPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi769 – 7735LXXLL motif

Domaini

The JmjC domain and the C6-type zinc-finger are required for the demethylation activity.By similarity
Leu-Xaa-Xaa-Leu-Leu (LXXLL) motifs are known to mediate the association with nuclear receptors.By similarity

Sequence similaritiesi

Belongs to the JHDM2 histone demethylase family.Curated
Contains 1 JmjC domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri546 – 57126C6-typeSequence analysisAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG1356. Eukaryota.
ENOG410XTAA. LUCA.
HOGENOMiHOG000007471.
InParanoidiQ63679.
KOiK15601.

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.

Q63679-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MYKSLLDKAG LGSITSVRFL GDQQSVFVSK DLLKPIQDVN SLRLSLTDNQ
60 70 80 90 100
TVSKEFQALI VKHLDESHLL QGDKNLVGSE VRIYSLDPST QWFSATVVHG
110 120 130 140 150
NPSSKTLQVN CEEIPALKIV DPALIHVEVV HDNFVTCGNS TRIGAVKRKS
160 170 180 190 200
SENNGSSVSK QAKSCSEVSP SMCPVQSVPT TVCKEILLGC TAATPSSNRQ
210 220 230 240 250
QNTPQAANSP PNIGAKLPQG CHKQSLPEEI SSCLNTKSEV LRTKPDVCKA
260 270 280 290 300
GLLSSKSSQV GAGDLKILSE PKGSCIQPKT NTDQESRLES TPQPVTGLTK
310 320 330 340 350
ECLVTKTSSK AELDNATAPE LQKRLEHTAS TPDGLSDKPE VEAGVTRLNS
360 370 380 390 400
CSEKKVGPSD LGSQSQNLKE TSVKVDHDSC CTRSSNKTQT PPARKSVLTD
410 420 430 440 450
PDKLKKLQQS GEAFVQDDSC VNIVAQLPKC RECRLDSLRK DKDQQKDSPV
460 470 480 490 500
FCRFFHFRRL QFNKHGVLRV EGFLTPNKYD SEAIGLWLPL TKNVVGTDLD
510 520 530 540 550
TAKYILANIG DHFCQMVISE KEAMSTIEPH RQVAWKRAVK GVREMCDVCD
560 570 580 590 600
TTIFNLHWVC PRCGFGVCVD CYRLKRKNCQ QGAAYKTFSW IRCVKSQIHE
610 620 630 640 650
PENLMPTQII PGKALYDVGD IVHSVRAKWG IKANCPCSNR QFKLFSKPAL
660 670 680 690 700
KEDLKQASLS GEKPSLGTMV QQSSPVLEPA AVCGEAPSKP ASNVKPICPA
710 720 730 740 750
NTSPLNWLAD LTSGNVNKEN KEKQLTMPIL KNEIKCLPPL PPLNKSSTVL
760 770 780 790 800
HTFNSTILTP VSNNNSGFLR NLLNSSTGKT ENGLKNTPKI LDDIFASLVQ
810 820 830 840 850
NKTSSDLSKR PQGLTIKPSI LGFDTPHYWL CDNRLLCLQD PNNKSNWNVF
860 870 880 890 900
RECWKQGQPV MVSGVHHKLN TELWKPESFR KEFGEQEVDL VNCRTNEIIT
910 920 930 940 950
GATVGDFWDG FEDVPNRLKN EKEKEPMVLK LKDWPPGEDF RDMMPSRFDD
960 970 980 990 1000
LMANIPLPEY TRRDGKLNLA SRLPNYFVRP DLGPKMYNAY GLITPEDRKY
1010 1020 1030 1040 1050
GTTNLHLDVS DAANVMVYVG IPKGQCEQEE EVLRTIQDGD SDELTIKRFI
1060 1070 1080 1090 1100
EGKEKPGALW HIYAAKDTEK IREFLKKVSE EQGQENPADH DPIHDQSWYL
1110 1120 1130 1140 1150
DRSLRKRLYQ EYGVQGWAIV QFLGDVVFIP AGAPHQVHNL YSCIKVAEDF
1160 1170 1180 1190 1200
VSPEHVKHCF WLTQEFRHLS QTHTNHEDKL QVKNVIYHAV KDAVAMLKAV
1210
NPVWANVNSS AHWR
Length:1,214
Mass (Da):135,404
Last modified:November 1, 1996 - v1
Checksum:i8E6B52220760EA6E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59993 mRNA. Translation: CAA42610.1.
PIRiS28499.
RefSeqiNP_786940.1. NM_175764.2.
UniGeneiRn.10541.

Genome annotation databases

GeneIDi312440.
KEGGirno:312440.
UCSCiRGD:708351. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59993 mRNA. Translation: CAA42610.1.
PIRiS28499.
RefSeqiNP_786940.1. NM_175764.2.
UniGeneiRn.10541.

3D structure databases

ProteinModelPortaliQ63679.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000041218.

Proteomic databases

PaxDbiQ63679.
PRIDEiQ63679.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi312440.
KEGGirno:312440.
UCSCiRGD:708351. rat.

Organism-specific databases

CTDi55818.
RGDi708351. Kdm3a.

Phylogenomic databases

eggNOGiKOG1356. Eukaryota.
ENOG410XTAA. LUCA.
HOGENOMiHOG000007471.
InParanoidiQ63679.
KOiK15601.

Miscellaneous databases

PROiQ63679.

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. "Analysis of a murine male germ cell-specific transcript that encodes a putative zinc finger protein."
    Hoog C., Schalling M., Brundell E., Daneholt B.
    Mol. Reprod. Dev. 30:173-181(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: Sprague-Dawley.
    Tissue: Testis.

Entry informationi

Entry nameiKDM3A_RAT
AccessioniPrimary (citable) accession number: Q63679
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: November 1, 1996
Last modified: June 8, 2016
This is version 93 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.