Q6ZPY7 (KDM3B_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Lysine-specific demethylase 3B
EC=1.14.11.-

Alternative name(s):
JmjC domain-containing histone demethylation protein 2B
Jumonji domain-containing protein 1B

Gene names

Name:	Kdm3b
Synonyms:	Jhdm2b, Jmjd1b, Kiaa1082

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	1562 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Histone demethylase that specifically demethylates 'Lys-9' of histone H3, thereby playing a central role in histone code. Demethylation of Lys residue generates formaldehyde and succinate May have tumor suppressor activity By similarity.
Cofactor	Binds 1 Fe2+ ion per subunit By similarity.
Subcellular location	Nucleus By similarity.
Domain	Leu-Xaa-Xaa-Leu-Leu (LXXLL) motifs are known to mediate the association with nuclear receptors By similarity.
Sequence similarities	Belongs to the JHDM2 histone demethylase family. Contains 1 JmjC domain.
Sequence caution	The sequence AAH38376.1 differs from that shown. Reason: Frameshift at position 1555. The sequence BAC98091.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Zinc-finger
Ligand	Iron Metal-binding Zinc
Molecular function	Chromatin regulator Dioxygenase Oxidoreductase
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	chromatin modification Inferred from electronic annotation. Source: UniProtKB-KW regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q6ZPY7-1)

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.

Isoform 2 (identifier: Q6ZPY7-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1070-1124: LTPKLFNSLL...PFPPVFSSSS → HVTSDLAHPR...YLVKNRFVVK
     1125-1562: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1562	1562	Lysine-specific demethylase 3B		PRO_0000234374
Regions
	Domain	1299 – 1522	224	JmjC
	Zinc finger	832 – 857	26	C6-type Potential
	Motif	1094 – 1098	5	LXXLL motif
	Compositional bias	255 – 545	291	Ser-rich
Sites
	Metal binding	1361	1	Iron; catalytic By similarity
	Metal binding	1363	1	Iron; catalytic By similarity
	Metal binding	1490	1	Iron; catalytic By similarity
Amino acid modifications
	Modified residue	574	1	Phosphoserine By similarity
	Modified residue	599	1	Phosphoserine Ref.4
Natural variations
	Alternative sequence	1070 – 1124	55	LTPKL…FSSSS → HVTSDLAHPRRWGCSPSRTL HEHRSLQDPGRAHCFSQEAP GLGNVYLVKNRFVVK in isoform 2.		VSP_018301
	Alternative sequence	1125 – 1562	438	Missing in isoform 2.		VSP_018302
Experimental info
	Sequence conflict	1126	1	V → G in AAH31981. Ref.2
	Sequence conflict	1369 – 1370	2	NV → SL in BAB31043. Ref.3
	Sequence conflict	1545	1	V → G in BAB31043. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified May 16, 2006. Version 2. Checksum: 4F2D7818104B50BE	FASTA	1,562	170,875
	10 20 30 40 50 60 MADAAASPVG KRLLLLFADP TASASASAPT AAAVVSGDPG PALRTRAWRA GTVRAMSGAV 70 80 90 100 110 120 PQDLAIFVEF DGCNWKQHSW VKVHAEDVLA LLLEGSLVWA PRKDPVLLQG TRVPVAQWPA 130 140 150 160 170 180 LTFTPLVDKL GLGSVVPVEY LVDRELRFLS DANGMHLFQM GTDVQNQILL EHAALRETVN 190 200 210 220 230 240 ALISDQKLQE IFSRGPYSVQ GHRVKVYQPE GEEVWLCGVV SRQDSVTRLM EVSITETGEV 250 260 270 280 290 300 KSVDPRLTHV MLMDSSTPQS ENSRNSSLAS SGFGVSLSSL SQPLTFGSGR SQSNGVLATD 310 320 330 340 350 360 NKPLGFSFSC SSASESQKDS DLSKNLFFQC MSQNVPSTNY LSRVSESVAD DSSSRDSFTQ 370 380 390 400 410 420 SLESLTSGLC KGRSVLGADT QPGPKAGSSV DRKVPAESMP TLTPAFPRSL LNTRTPENHE 430 440 450 460 470 480 NLFLQPPKLS REEPSNPFLA FVEKVEHSPF SSFVSQASGS SSSATSVTSK ATASWPESHS 490 500 510 520 530 540 SAESAPLAKK KPLFITTDSS KLVSGVLGSA LSTGSPSLSA VGNGRSSSPT NSLTQPIEMP 550 560 570 580 590 600 TLSSSPTEER PTVGPGQQDN PLLKTFSTVF GRHSGSFLSA PAEFAQENKA PFEAVKRFSL 610 620 630 640 650 660 DERSLACRQD SDSSTNSDLS DLSDSEEQLQ AKSGLKGIPE HLMGKLGPNG ERSAELLLGK 670 680 690 700 710 720 GKGKQAPKGR PRTAPLKVGQ SVLKDVSKVR KLKQSGEPFL QDGSCINVAP HLHKCRECRL 730 740 750 760 770 780 ERYRKFKEQE QDDSTVACRF FHFRRLVFTR KGVLRVEGFL SPQQSDPDAM NLWIPSSSLA 790 800 810 820 830 840 EGIDLETSKY ILANVGDQFC QLVMSEKEAM MMVEPHQKVA WKRAVRGVRE MCDVCETTLF 850 860 870 880 890 900 NIHWVCRKCG FGVCLDCYRL RKSRPRSETE EMGDEEVFSW LKCAKGQSHE PENLMPTQII 910 920 930 940 950 960 PGTALYNIGD MVHAARGKWG IKANCPCISR QSKSVLRPAV TNGISQLPSV TPSASSGNET 970 980 990 1000 1010 1020 TFSSGGGAAA VTNPEPDQVP KGAGTDGRSE EPLKAEGSAS NSNSELKAIR PPCPDTAPPS 1030 1040 1050 1060 1070 1080 SALHWLADLA TQKAKEETKD AGSLRSVLNK ESHSPFGLDS FNSTAKVSPL TPKLFNSLLL 1090 1100 1110 1120 1130 1140 GPTASNSKTE GSSLRDLLHS GPGKLPQTPL DTGIPFPPVF SSSSAVAKSK ASLPDFLDHI 1150 1160 1170 1180 1190 1200 IASVVENKKT SDPSKRSCNL TDTQKEVKEM AMGLNVLDPH TSHSWLCDGR LLCLHDPSNK 1210 1220 1230 1240 1250 1260 NNWKIFRECW KQGQPVLVSG VHKKLKSELW KPEAFSQEFG DQDVDLVNCR NCAIISDVKV 1270 1280 1290 1300 1310 1320 RDFWDGFEII CKRLRSEDGQ PMVLKLKDWP PGEDFRDMMP TRFEDLMENL PLPEYTKRDG 1330 1340 1350 1360 1370 1380 RLNLASRLPS YFVRPDLGPK MYNAYGLITA EDRRVGTTNL HLDVSDAVNV MVYVGIPVGE 1390 1400 1410 1420 1430 1440 GAHDEEVLKT IDEGDADEVT KQRIHDGKEK PGALWHIYAA KDAEKIRELL RKVGEEQGQE 1450 1460 1470 1480 1490 1500 NPPDHDPIHD QSWYLDQILR KRLFEEYGVQ GWAIVQFLGD AVFIPAGAPH QVHNLYSCIK 1510 1520 1530 1540 1550 1560 VAEDFVSPEH VKHCFRLTQE FRHLSNTHTN HEDKLQVKNI IYHAVKDAVG TLKAHESKLA RS
	Isoform 2 [UniParc]. Checksum: 0E4EDA38840B35EA	FASTA	1,124	121,422
	10 20 30 40 50 60 MADAAASPVG KRLLLLFADP TASASASAPT AAAVVSGDPG PALRTRAWRA GTVRAMSGAV 70 80 90 100 110 120 PQDLAIFVEF DGCNWKQHSW VKVHAEDVLA LLLEGSLVWA PRKDPVLLQG TRVPVAQWPA 130 140 150 160 170 180 LTFTPLVDKL GLGSVVPVEY LVDRELRFLS DANGMHLFQM GTDVQNQILL EHAALRETVN 190 200 210 220 230 240 ALISDQKLQE IFSRGPYSVQ GHRVKVYQPE GEEVWLCGVV SRQDSVTRLM EVSITETGEV 250 260 270 280 290 300 KSVDPRLTHV MLMDSSTPQS ENSRNSSLAS SGFGVSLSSL SQPLTFGSGR SQSNGVLATD 310 320 330 340 350 360 NKPLGFSFSC SSASESQKDS DLSKNLFFQC MSQNVPSTNY LSRVSESVAD DSSSRDSFTQ 370 380 390 400 410 420 SLESLTSGLC KGRSVLGADT QPGPKAGSSV DRKVPAESMP TLTPAFPRSL LNTRTPENHE 430 440 450 460 470 480 NLFLQPPKLS REEPSNPFLA FVEKVEHSPF SSFVSQASGS SSSATSVTSK ATASWPESHS 490 500 510 520 530 540 SAESAPLAKK KPLFITTDSS KLVSGVLGSA LSTGSPSLSA VGNGRSSSPT NSLTQPIEMP 550 560 570 580 590 600 TLSSSPTEER PTVGPGQQDN PLLKTFSTVF GRHSGSFLSA PAEFAQENKA PFEAVKRFSL 610 620 630 640 650 660 DERSLACRQD SDSSTNSDLS DLSDSEEQLQ AKSGLKGIPE HLMGKLGPNG ERSAELLLGK 670 680 690 700 710 720 GKGKQAPKGR PRTAPLKVGQ SVLKDVSKVR KLKQSGEPFL QDGSCINVAP HLHKCRECRL 730 740 750 760 770 780 ERYRKFKEQE QDDSTVACRF FHFRRLVFTR KGVLRVEGFL SPQQSDPDAM NLWIPSSSLA 790 800 810 820 830 840 EGIDLETSKY ILANVGDQFC QLVMSEKEAM MMVEPHQKVA WKRAVRGVRE MCDVCETTLF 850 860 870 880 890 900 NIHWVCRKCG FGVCLDCYRL RKSRPRSETE EMGDEEVFSW LKCAKGQSHE PENLMPTQII 910 920 930 940 950 960 PGTALYNIGD MVHAARGKWG IKANCPCISR QSKSVLRPAV TNGISQLPSV TPSASSGNET 970 980 990 1000 1010 1020 TFSSGGGAAA VTNPEPDQVP KGAGTDGRSE EPLKAEGSAS NSNSELKAIR PPCPDTAPPS 1030 1040 1050 1060 1070 1080 SALHWLADLA TQKAKEETKD AGSLRSVLNK ESHSPFGLDS FNSTAKVSPH VTSDLAHPRR 1090 1100 1110 1120 WGCSPSRTLH EHRSLQDPGR AHCFSQEAPG LGNVYLVKNR FVVK

References

[1]	"Prediction of the coding sequences of mouse homologues of KIAA gene: III. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries." Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Nagase T., Ohara O., Koga H. DNA Res. 10:167-180(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Tissue: Embryonic tail.
[2]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 574-1562 (ISOFORM 1). Strain: C57BL/6 and Czech II. Tissue: Brain, Eye and Mammary tumor.
[3]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1119-1562. Strain: C57BL/6J. Tissue: Testis and Thymus.
[4]	"Solid tumor proteome and phosphoproteome analysis by high resolution mass spectrometry." Zanivan S., Gnad F., Wickstroem S.A., Geiger T., Macek B., Cox J., Faessler R., Mann M. J. Proteome Res. 7:5314-5326(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-599, MASS SPECTROMETRY. Tissue: Melanoma.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AK129281 mRNA. Translation: BAC98091.1. Different initiation. BC031981 mRNA. Translation: AAH31981.1. BC038376 mRNA. Translation: AAH38376.1. Frameshift. BC060727 mRNA. Translation: AAH60727.1. BC108415 mRNA. Translation: AAI08416.1. AK018027 mRNA. Translation: BAB31043.1. AK033343 mRNA. Translation: BAC28239.1.
IPI	IPI00664808. IPI00757477.
UniGene	Mm.277906.
3D structure databases
ProteinModelPortal	Q6ZPY7.
SMR	Q6ZPY7. Positions 1183-1521.
ModBase	Search...
PTM databases
PhosphoSite	Q6ZPY7.
Proteomic databases
PaxDb	Q6ZPY7.
PRIDE	Q6ZPY7.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Organism-specific databases
MGI	MGI:1923356. Kdm3b.
Rouge	Search...
Phylogenomic databases
eggNOG	NOG305537.
OrthoDB	EOG4W9J32.
Gene expression databases
CleanEx	MM_JMJD1B.
Genevestigator	Q6ZPY7.
GermOnline	ENSMUSG00000038773. Mus musculus.
Family and domain databases
InterPro	IPR003347. JmjC_dom. [Graphical view]
Pfam	PF02373. JmjC. 1 hit. [Graphical view]
SMART	SM00558. JmjC. 1 hit. [Graphical view]
PROSITE	PS51184. JMJC. 1 hit. [Graphical view]
ProtoNet	Search...
Other
SOURCE	Search...

Entry information

Entry name

KDM3B_MOUSE

Accession

Primary (citable) accession number: Q6ZPY7
Secondary accession number(s): Q2VPQ5 , Q5U5V7, Q6P9K3, Q8CCE2, Q8K2A5, Q9CU57

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 16, 2006
Last sequence update:	May 16, 2006
Last modified:	May 1, 2013
This is version 65 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program