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UniProtKB/Swiss-Prot entry Q7LBC6


[Entry info] [Name and origin] [References] [Comments] [Cross-references] [Keywords] [Features] [Sequence] [Tools]

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Entry information
Entry name KDM3B_HUMAN
Primary accession number Q7LBC6
Secondary accession numbers Q9BVH6 Q9BW93 Q9BZ52 Q9NYF4 Q9UPS0
Integrated into Swiss-Prot on May 16, 2006
Sequence was last modified on July 5, 2004 (Sequence version 1)
Annotations were last modified on    June 16, 2009 (Entry version 43)
Name and origin of the protein
Protein name Lysine-specific demethylase 3B
Synonyms EC 1.14.11.-
JmjC domain-containing histone demethylation protein 2B
Jumonji domain-containing protein 1B
Nuclear protein 5qNCA
Gene name
Name: KDM3B
Synonyms: C5orf7, JHDM2B, JMJD1B, KIAA1082
From
Homo sapiens (Human) [TaxID: 9606] 
Taxonomy Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo.
Protein existence 1: Evidence at protein level;
References
[1]
NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), AND TISSUE SPECIFICITY.
TISSUE=Bone marrow;
DOI=10.1006/geno.2000.6345; PubMed=11087669 [NCBI, ExPASy, EBI, Israel, Japan]
Lai F., Godley L.A., Fernald A.A., Orelli B.J., Pamintuan L., Zhao N., Le Beau M.M.;
"cDNA cloning and genomic structure of three genes localized to human chromosome band 5q31 encoding potential nuclear proteins.";
Genomics 70:123-130(2000).
[2]
NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY, AND VARIANT ALA-256.
DOI=10.1038/sj.onc.1204850; PubMed=11687974 [NCBI, ExPASy, EBI, Israel, Japan]
Hu Z., Gomes I., Horrigan S.K., Kravarusic J., Mar B., Arbieva Z., Chyna B., Fulton N., Edassery S., Raza A., Westbrook C.A.;
"A novel nuclear protein, 5qNCA (LOC51780) is a candidate for the myeloid leukemia tumor suppressor gene on chromosome 5 band q31.";
Oncogene 20:6946-6954(2001).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
TISSUE=Brain;
DOI=10.1093/dnares/6.3.197; PubMed=10470851 [NCBI, ExPASy, EBI, Israel, Japan]
Kikuno R., Nagase T., Ishikawa K., Hirosawa M., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.;
"Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.";
DNA Res. 6:197-205(1999).
[4]
SEQUENCE REVISION.
DOI=10.1093/dnares/9.3.99; PubMed=12168954 [NCBI, ExPASy, EBI, Israel, Japan]
Nakajima D., Okazaki N., Yamakawa H., Kikuno R., Ohara O., Nagase T.;
"Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones.";
DNA Res. 9:99-106(2002).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3), AND NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 184-1761.
TISSUE=Brain, and Eye;
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).
[6]
PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-291, AND MASS SPECTROMETRY.
TISSUE=Epithelium;
DOI=10.1073/pnas.0404720101; PubMed=15302935 [NCBI, ExPASy, EBI, Israel, Japan]
Beausoleil S.A., Jedrychowski M., Schwartz D., Elias J.E., Villen J., Li J., Cohn M.A., Cantley L.C., Gygi S.P.;
"Large-scale characterization of HeLa cell nuclear phosphoproteins.";
Proc. Natl. Acad. Sci. U.S.A. 101:12130-12135(2004).
[7]
FUNCTION, AND ENZYME ACTIVITY.
DOI=10.1016/j.cell.2006.03.027; PubMed=16603237 [NCBI, ExPASy, EBI, Israel, Japan]
Yamane K., Toumazou C., Tsukada Y.I., Erdjument-Bromage H., Tempst P., Wong J., Zhang Y.;
"JHDM2A, a JmjC-containing H3K9 demethylase, facilitates transcription activation by androgen receptor.";
Cell 125:483-495(2006).
[8]
PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-798, AND MASS SPECTROMETRY.
TISSUE=Epithelium;
DOI=10.1016/j.cell.2006.09.026; PubMed=17081983 [NCBI, ExPASy, EBI, Israel, Japan]
Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M.;
"Global, in vivo, and site-specific phosphorylation dynamics in signaling networks.";
Cell 127:635-648(2006).
[9]
PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-773 AND SER-779, AND MASS SPECTROMETRY.
DOI=10.1073/pnas.0805139105; PubMed=18669648 [NCBI, ExPASy, EBI, Israel, Japan]
Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P.;
"A quantitative atlas of mitotic phosphorylation.";
Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008).
[10]
IDENTIFICATION [LARGE SCALE ANALYSIS], AND MASS SPECTROMETRY.
Colinge J., Superti-Furga G., Bennett K.L.;
Submitted (OCT-2008) to UniProtKB.
Comments
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
AF251039; AAF63765.1; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AF338242; AAK13499.1; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AB029005; BAA83034.2; ALT_INIT; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
BC000539; AAH00539.2; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
BC001202; AAH01202.1; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
IPI IPI00298935; -.
IPI00748132; -.
IPI00749486; -.
RefSeq NP_057688.2; -.
UniGene Hs.714832
3D structure databases
ModBase Q7LBC6.
PTM databases
PhosphoSite Q7LBC6; -.
Organism-specific databases
GeneCards GC05P137716; -.
H-InvDB HIX0005211; -.
HGNC HGNC:1337; KDM3B.
GenAtlas KDM3B.
HPA HPA016610; -.
MIM 609373; gene. [NCBI / EBI]
PharmGKB PA25918; -.
HUGE KIAA1082.
Gene expression databases
ArrayExpress Q7LBC6; -.
Bgee Q7LBC6; -.
CleanEx HS_JMJD1B; -.
GermOnline ENSG00000120733; Homo sapiens.
Ontologies
GO
GO:0005634; Cellular component: nucleus (inferred from electronic annotation from UniProtKB-SubCell).
GO:0005506; Molecular function: iron ion binding (inferred from electronic annotation from UniProtKB-KW).
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:0008270; Molecular function: zinc ion binding (inferred from electronic annotation from UniProtKB-KW).
GO:0016568; Biological process: chromatin modification (inferred from electronic annotation from UniProtKB-KW).
GO:0055114; Biological process: oxidation reduction (inferred from electronic annotation from UniProtKB-KW).
GO:0006355; Biological process: regulation of transcription, DNA-dependent (inferred from electronic annotation from UniProtKB-KW).
GO:0006350; Biological process: transcription (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 Q7LBC6; -.
Genome annotation databases
Ensembl ENSG00000120733; Homo sapiens. [Contig view]
GeneID 51780; -.
KEGG hsa:51780; -.
Phylogenomic databases
HOGENOM Q7LBC6; -.
HOVERGEN Q7LBC6; -.
Other
NextBio 55912; -.
SOURCE KDM3B; Homo sapiens.
ProtoNet Q7LBC6.
UniRef View cluster of proteins with at least 50% / 90% / 100% identity.
Keywords
Alternative splicing; Chromatin regulator; Dioxygenase; Iron; Metal-binding; Nucleus; Oxidoreductase; Phosphoprotein; Polymorphism; Transcription; Transcription regulation; Zinc; Zinc-finger.
Features
SEVIEWER logo Feature table viewer FT aligner logo Feature aligner
KeyFrom    To Length Description FTId
CHAIN   1   1761  1761     Lysine-specific demethylase 3B. PRO_0000234373
DOMAIN   1498   1721  224     JmjC. 
ZN_FING   1031   1056  26     C6-type (Potential). 
MOTIF   1293   1297  5     LXXLL motif. 
COMPBIAS   647    744  98     Ser-rich. 
METAL   1560   1560        Iron; catalytic (By similarity). 
METAL   1562   1562        Iron; catalytic (By similarity). 
METAL   1689   1689        Iron; catalytic (By similarity). 
MOD_RES   291    291        Phosphoserine. 
MOD_RES   773    773        Phosphoserine. 
MOD_RES   779    779        Phosphoserine. 
MOD_RES   798    798        Phosphoserine. 
VAR_SEQ   1   1002        Missing (in isoform 3). VSP_018298
VAR_SEQ   1    344        Missing (in isoform 2). VSP_018299
VAR_SEQ   345    349        TFVPQ -> MGAME (in isoform 2). VSP_018300
VARIANT   256    256  1     T -> A (in dbSNP:rs6865472 [NCBI]). VAR_026221 
VARIANT   1201   1201  1     S -> N (in dbSNP:rs7706614 [NCBI]). VAR_026222 
CONFLICT   569    569        C -> R (in Ref. 1; AAF63765). 
Sequence information
Length: 1761 AA [This is the length of the unprocessed precursor] Molecular weight: 191611 Da [This is the MW of the unprocessed precursor] CRC64: FA8151FF24AFF66F [This is a checksum on the sequence]
        10         20         30         40         50         60 
MADAAASPVG KRLLLLFADT AASASASAPA AAAASGDPGP ALRTRAWRAG TVRAMSGAVP 

        70         80         90        100        110        120 
QDLAIFVEFD GCNWKQHSWV KVHAEEVIVL LLEGSLVWAP REDPVLLQGI RVSIAQWPAL 

       130        140        150        160        170        180 
TFTPLVDKLG LGSVVPVEYL LDRELRFLSD ANGLHLFQMG TDSQNQILLE HAALRETVNA 

       190        200        210        220        230        240 
LISDQKLQEI FSRGPYSVQG HRVKIYQPEG EEGWLYGVVS HQDSITRLME VSVTESGEIK 

       250        260        270        280        290        300 
SVDPRLIHVM LMDNSTPQSE GGTLKAVKSS KGKKKRESIE GKDGRRRKSA SDSGCDPASK 

       310        320        330        340        350        360 
KLKGDRGEVD SNGSDGGEAS RGPWKGGNAS GEPGLDQRAK QPPSTFVPQI NRNIRFATYT 

       370        380        390        400        410        420 
KENGRTLVVQ DEPVGGDTPA SFTPYSTATG QTPLAPEVGG AENKEAGKTL EQVGQGIVAS 

       430        440        450        460        470        480 
AAVVTTASST PNTVRISDTG LAAGTVPEKQ KGSRSQASGE NSRNSILASS GFGAPLPSSS 

       490        500        510        520        530        540 
QPLTFGSGRS QSNGVLATEN KPLGFSFGCS SAQEAQKDTD LSKNLFFQCM SQTLPTSNYF 

       550        560        570        580        590        600 
TTVSESLADD SSSRDSFKQS LESLSSGLCK GRSVLGTDTK PGSKAGSSVD RKVPAESMPT 

       610        620        630        640        650        660 
LTPAFPRSLL NARTPENHEN LFLQPPKLSR EEPSNPFLAF VEKVEHSPFS SFASQASGSS 

       670        680        690        700        710        720 
SSATTVTSKV APSWPESHSS ADSASLAKKK PLFITTDSSK LVSGVLGSAL TSGGPSLSAM 

       730        740        750        760        770        780 
GNGRSSSPTS SLTQPIEMPT LSSSPTEERP TVGPGQQDNP LLKTFSNVFG RHSGGFLSSP 

       790        800        810        820        830        840 
ADFSQENKAP FEAVKRFSLD ERSLACRQDS DSSTNSDLSD LSDSEEQLQA KTGLKGIPEH 

       850        860        870        880        890        900 
LMGKLGPNGE RSAELLLGKS KGKQAPKGRP RTAPLKVGQS VLKDVSKVKK LKQSGEPFLQ 

       910        920        930        940        950        960 
DGSCINVAPH LHKCRECRLE RYRKFKEQEQ DDSTVACRFF HFRRLIFTRK GVLRVEGFLS 

       970        980        990       1000       1010       1020 
PQQSDPDAMN LWIPSSSLAE GIDLETSKYI LANVGDQFCQ LVMSEKEAMM MVEPHQKVAW 

      1030       1040       1050       1060       1070       1080 
KRAVRGVREM CDVCETTLFN IHWVCRKCGF GVCLDCYRLR KSRPRSETEE MGDEEVFSWL 

      1090       1100       1110       1120       1130       1140 
KCAKGQSHEP ENLMPTQIIP GTALYNIGDM VHAARGKWGI KANCPCISRQ NKSVLRPAVT 

      1150       1160       1170       1180       1190       1200 
NGMSQLPSIN PSASSGNETT FSGGGGPAPV TTPEPDHVPK ADSTDIRSEE PLKTDSSASN 

      1210       1220       1230       1240       1250       1260 
SNSELKAIRP PCPDTAPPSS ALHWLADLAT QKAKEETKEA GSLRSVLNKE SHSPFGLDSF 

      1270       1280       1290       1300       1310       1320 
NSTAKVSPLT PKLFNSLLLG PTASNNKTEG SSLRDLLHSG PGKLPQTPLD TGIPFPPVFS 

      1330       1340       1350       1360       1370       1380 
TSSAGVKSKA SLPNFLDHII ASVVENKKTS DASKRACNLT DTQKEVKEMV MGLNVLDPHT 

      1390       1400       1410       1420       1430       1440 
SHSWLCDGRL LCLHDPSNKN NWKIFRECWK QGQPVLVSGV HKKLKSELWK PEAFSQEFGD 

      1450       1460       1470       1480       1490       1500 
QDVDLVNCRN CAIISDVKVR DFWDGFEIIC KRLRSEDGQP MVLKLKDWPP GEDFRDMMPT 

      1510       1520       1530       1540       1550       1560 
RFEDLMENLP LPEYTKRDGR LNLASRLPSY FVRPDLGPKM YNAYGLITAE DRRVGTTNLH 

      1570       1580       1590       1600       1610       1620 
LDVSDAVNVM VYVGIPIGEG AHDEEVLKTI DEGDADEVTK QRIHDGKEKP GALWHIYAAK 

      1630       1640       1650       1660       1670       1680 
DAEKIRELLR KVGEEQGQEN PPDHDPIHDQ SWYLDQTLRK RLYEEYGVQG WAIVQFLGDA 

      1690       1700       1710       1720       1730       1740 
VFIPAGAPHQ VHNLYSCIKV AEDFVSPEHV KHCFRLTQEF RHLSNTHTNH EDKLQVKNII 

      1750       1760 
YHAVKDAVGT LKAHESKLAR S 

Q7LBC6 in FASTA format

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