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Entry version 135 (26 Feb 2020)
Sequence version 2 (05 Oct 2010)
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Protein

Lysine-specific demethylase 3B

Gene

KDM3B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

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.1 Publication

Miscellaneous

Its gene is located in the 5q region of the genome which is deleted in del(5q) interstitial deletion, a frequent deletion found in myeloid leukemias and myelodysplasias, suggesting that it may be a good candidate for the del(5q) tumor suppressor gene.

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi1560Iron; catalyticPROSITE-ProRule annotation1
Metal bindingi1562Iron; catalyticPROSITE-ProRule annotation1
Metal bindingi1689Iron; catalyticPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position(s) and type(s) of zinc fingers within the protein.<p><a href='/help/zn_fing' target='_top'>More...</a></p>Zinc fingeri1031 – 1056C6-typeSequence analysisAdd BLAST26

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionChromatin regulator, Dioxygenase, Oxidoreductase
Biological processTranscription, Transcription regulation
LigandIron, Metal-binding, Zinc

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-HSA-3214842 HDMs demethylate histones

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
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
Nuclear protein 5qNCA
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:KDM3B
Synonyms:C5orf7, JHDM2B, JMJD1B, KIAA1082
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 5

Organism-specific databases

Human Gene Nomenclature Database

More...
HGNCi
HGNC:1337 KDM3B

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
609373 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_Q7LBC6

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

DisGeNET

More...
DisGeNETi
51780

Open Targets

More...
OpenTargetsi
ENSG00000120733

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA25918

Miscellaneous databases

Pharos NIH Druggable Genome Knowledgebase

More...
Pharosi
Q7LBC6 Tbio

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL3784906

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
KDM3B

Domain mapping of disease mutations (DMDM)

More...
DMDMi
308153456

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemovedCombined sources
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002343732 – 1761Lysine-specific demethylase 3BAdd BLAST1760

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei2N-acetylalanineCombined sources1
Modified residuei361N6-acetyllysineCombined sources1
Modified residuei492PhosphoserineCombined sources1
Modified residuei546PhosphoserineBy similarity1
Modified residuei556PhosphoserineBy similarity1
Modified residuei560PhosphoserineCombined sources1
Modified residuei614PhosphothreonineCombined sources1
Modified residuei766PhosphoserineCombined sources1
Modified residuei773PhosphoserineCombined sources1
Modified residuei778PhosphoserineCombined sources1
Modified residuei779PhosphoserineCombined sources1
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section describes <strong>covalent linkages</strong> of various types formed <strong>between two proteins (interchain cross-links)</strong> or <strong>between two parts of the same protein (intrachain cross-links)</strong>, except the disulfide bonds that are annotated in the <a href="http://www.uniprot.org/manual/disulfid">'Disulfide bond'</a> subsection.<p><a href='/help/crosslnk' target='_top'>More...</a></p>Cross-linki788Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei798PhosphoserineCombined sources1
Modified residuei1253PhosphoserineCombined sources1
Modified residuei1259PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
Q7LBC6

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
Q7LBC6

MassIVE - Mass Spectrometry Interactive Virtual Environment

More...
MassIVEi
Q7LBC6

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q7LBC6

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q7LBC6

PeptideAtlas

More...
PeptideAtlasi
Q7LBC6

PRoteomics IDEntifications database

More...
PRIDEi
Q7LBC6

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
68846 [Q7LBC6-1]
68847 [Q7LBC6-2]
68848 [Q7LBC6-3]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q7LBC6

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
Q7LBC6

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Ubiquitous. Highly expressed in placenta, skeletal muscle, kidney, heart and liver.2 Publications

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSG00000120733 Expressed in kidney and 238 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q7LBC6 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q7LBC6 HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
HPA016610
HPA057202

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
119727, 40 interactors

Protein interaction database and analysis system

More...
IntActi
Q7LBC6, 21 interactors

Molecular INTeraction database

More...
MINTi
Q7LBC6

STRING: functional protein association networks

More...
STRINGi
9606.ENSP00000326563

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
Q7LBC6

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
Q7LBC6 protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

11761
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q7LBC6

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini1498 – 1721JmjCPROSITE-ProRule annotationAdd BLAST224

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi1293 – 1297LXXLL motif5

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi647 – 744Ser-richAdd BLAST98

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

Leu-Xaa-Xaa-Leu-Leu (LXXLL) motifs are known to mediate the association with nuclear receptors.By similarity

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the JHDM2 histone demethylase family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri1031 – 1056C6-typeSequence analysisAdd BLAST26

Keywords - Domaini

Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1356 Eukaryota
ENOG410XTAA LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000158095

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_002991_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q7LBC6

KEGG Orthology (KO)

More...
KOi
K15601

Identification of Orthologs from Complete Genome Data

More...
OMAi
APGENSR

Database of Orthologous Groups

More...
OrthoDBi
1185631at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q7LBC6

TreeFam database of animal gene trees

More...
TreeFami
TF324723

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR003347 JmjC_dom

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF02373 JmjC, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00558 JmjC, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51184 JMJC, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (3+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q7LBC6-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali 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
MADAAASPVG KRLLLLFADT AASASASAPA AAAASGDPGP ALRTRAWRAG
60 70 80 90 100
TVRAMSGAVP QDLAIFVEFD GCNWKQHSWV KVHAEEVIVL LLEGSLVWAP
110 120 130 140 150
REDPVLLQGI RVSIAQWPAL TFTPLVDKLG LGSVVPVEYL LDRELRFLSD
160 170 180 190 200
ANGLHLFQMG TDSQNQILLE HAALRETVNA LISDQKLQEI FSRGPYSVQG
210 220 230 240 250
HRVKIYQPEG EEGWLYGVVS HQDSITRLME VSVTESGEIK SVDPRLIHVM
260 270 280 290 300
LMDNSAPQSE GGTLKAVKSS KGKKKRESIE GKDGRRRKSA SDSGCDPASK
310 320 330 340 350
KLKGDRGEVD SNGSDGGEAS RGPWKGGNAS GEPGLDQRAK QPPSTFVPQI
360 370 380 390 400
NRNIRFATYT KENGRTLVVQ DEPVGGDTPA SFTPYSTATG QTPLAPEVGG
410 420 430 440 450
AENKEAGKTL EQVGQGIVAS AAVVTTASST PNTVRISDTG LAAGTVPEKQ
460 470 480 490 500
KGSRSQASGE NSRNSILASS GFGAPLPSSS QPLTFGSGRS QSNGVLATEN
510 520 530 540 550
KPLGFSFGCS SAQEAQKDTD LSKNLFFQCM SQTLPTSNYF TTVSESLADD
560 570 580 590 600
SSSRDSFKQS LESLSSGLCK GRSVLGTDTK PGSKAGSSVD RKVPAESMPT
610 620 630 640 650
LTPAFPRSLL NARTPENHEN LFLQPPKLSR EEPSNPFLAF VEKVEHSPFS
660 670 680 690 700
SFASQASGSS SSATTVTSKV APSWPESHSS ADSASLAKKK PLFITTDSSK
710 720 730 740 750
LVSGVLGSAL TSGGPSLSAM GNGRSSSPTS SLTQPIEMPT LSSSPTEERP
760 770 780 790 800
TVGPGQQDNP LLKTFSNVFG RHSGGFLSSP ADFSQENKAP FEAVKRFSLD
810 820 830 840 850
ERSLACRQDS DSSTNSDLSD LSDSEEQLQA KTGLKGIPEH LMGKLGPNGE
860 870 880 890 900
RSAELLLGKS KGKQAPKGRP RTAPLKVGQS VLKDVSKVKK LKQSGEPFLQ
910 920 930 940 950
DGSCINVAPH LHKCRECRLE RYRKFKEQEQ DDSTVACRFF HFRRLIFTRK
960 970 980 990 1000
GVLRVEGFLS PQQSDPDAMN LWIPSSSLAE GIDLETSKYI LANVGDQFCQ
1010 1020 1030 1040 1050
LVMSEKEAMM MVEPHQKVAW KRAVRGVREM CDVCETTLFN IHWVCRKCGF
1060 1070 1080 1090 1100
GVCLDCYRLR KSRPRSETEE MGDEEVFSWL KCAKGQSHEP ENLMPTQIIP
1110 1120 1130 1140 1150
GTALYNIGDM VHAARGKWGI KANCPCISRQ NKSVLRPAVT NGMSQLPSIN
1160 1170 1180 1190 1200
PSASSGNETT FSGGGGPAPV TTPEPDHVPK ADSTDIRSEE PLKTDSSASN
1210 1220 1230 1240 1250
SNSELKAIRP PCPDTAPPSS ALHWLADLAT QKAKEETKEA GSLRSVLNKE
1260 1270 1280 1290 1300
SHSPFGLDSF NSTAKVSPLT PKLFNSLLLG PTASNNKTEG SSLRDLLHSG
1310 1320 1330 1340 1350
PGKLPQTPLD TGIPFPPVFS TSSAGVKSKA SLPNFLDHII ASVVENKKTS
1360 1370 1380 1390 1400
DASKRACNLT DTQKEVKEMV MGLNVLDPHT SHSWLCDGRL LCLHDPSNKN
1410 1420 1430 1440 1450
NWKIFRECWK QGQPVLVSGV HKKLKSELWK PEAFSQEFGD QDVDLVNCRN
1460 1470 1480 1490 1500
CAIISDVKVR DFWDGFEIIC KRLRSEDGQP MVLKLKDWPP GEDFRDMMPT
1510 1520 1530 1540 1550
RFEDLMENLP LPEYTKRDGR LNLASRLPSY FVRPDLGPKM YNAYGLITAE
1560 1570 1580 1590 1600
DRRVGTTNLH LDVSDAVNVM VYVGIPIGEG AHDEEVLKTI DEGDADEVTK
1610 1620 1630 1640 1650
QRIHDGKEKP GALWHIYAAK DAEKIRELLR KVGEEQGQEN PPDHDPIHDQ
1660 1670 1680 1690 1700
SWYLDQTLRK RLYEEYGVQG WAIVQFLGDA VFIPAGAPHQ VHNLYSCIKV
1710 1720 1730 1740 1750
AEDFVSPEHV KHCFRLTQEF RHLSNTHTNH EDKLQVKNII YHAVKDAVGT
1760
LKAHESKLAR S
Length:1,761
Mass (Da):191,581
Last modified:October 5, 2010 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iFB900FCBF0675CD8
GO
Isoform 2 (identifier: Q7LBC6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-344: Missing.
     345-349: TFVPQ → MGAME

Show »
Length:1,417
Mass (Da):154,668
Checksum:iAF66C2E416D31F40
GO
Isoform 3 (identifier: Q7LBC6-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1002: Missing.

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Length:759
Mass (Da):84,712
Checksum:i5A13F19C0EE952EF
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
H0Y9V5H0Y9V5_HUMAN
Lysine-specific demethylase 3B
KDM3B
274Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
H0Y946H0Y946_HUMAN
Lysine-specific demethylase 3B
KDM3B
20Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence BAA83034 differs from that shown. Reason: Erroneous initiation. Extended N-terminus.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti569C → R in AAF63765 (PubMed:11087669).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural variantiVAR_026221256A → T4 PublicationsCorresponds to variant dbSNP:rs6865472Ensembl.1
Natural variantiVAR_0262221201S → N. Corresponds to variant dbSNP:rs7706614Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_0182981 – 1002Missing in isoform 3. 1 PublicationAdd BLAST1002
Alternative sequenceiVSP_0182991 – 344Missing in isoform 2. 1 PublicationAdd BLAST344
Alternative sequenceiVSP_018300345 – 349TFVPQ → MGAME in isoform 2. 1 Publication5

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
AF251039 mRNA Translation: AAF63765.1
AF338242 mRNA Translation: AAK13499.1
AB029005 mRNA Translation: BAA83034.2 Different initiation.
AC104116 Genomic DNA No translation available.
AC113403 Genomic DNA No translation available.
CH471062 Genomic DNA Translation: EAW62141.1
BC000539 mRNA Translation: AAH00539.2
BC001202 mRNA Translation: AAH01202.1
BC146788 mRNA Translation: AAI46789.1

The Consensus CDS (CCDS) project

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CCDSi
CCDS34242.1 [Q7LBC6-1]

NCBI Reference Sequences

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RefSeqi
NP_057688.2, NM_016604.3 [Q7LBC6-1]

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000314358; ENSP00000326563; ENSG00000120733 [Q7LBC6-1]
ENST00000542866; ENSP00000439462; ENSG00000120733 [Q7LBC6-3]

Database of genes from NCBI RefSeq genomes

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GeneIDi
51780

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:51780

UCSC genome browser

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UCSCi
uc003lcy.1 human [Q7LBC6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF251039 mRNA Translation: AAF63765.1
AF338242 mRNA Translation: AAK13499.1
AB029005 mRNA Translation: BAA83034.2 Different initiation.
AC104116 Genomic DNA No translation available.
AC113403 Genomic DNA No translation available.
CH471062 Genomic DNA Translation: EAW62141.1
BC000539 mRNA Translation: AAH00539.2
BC001202 mRNA Translation: AAH01202.1
BC146788 mRNA Translation: AAI46789.1
CCDSiCCDS34242.1 [Q7LBC6-1]
RefSeqiNP_057688.2, NM_016604.3 [Q7LBC6-1]

3D structure databases

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Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4C8DX-ray2.18A1380-1720[»]
SMRiQ7LBC6
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGridi119727, 40 interactors
IntActiQ7LBC6, 21 interactors
MINTiQ7LBC6
STRINGi9606.ENSP00000326563

Chemistry databases

BindingDBiQ7LBC6
ChEMBLiCHEMBL3784906

PTM databases

iPTMnetiQ7LBC6
PhosphoSitePlusiQ7LBC6

Polymorphism and mutation databases

BioMutaiKDM3B
DMDMi308153456

Proteomic databases

EPDiQ7LBC6
jPOSTiQ7LBC6
MassIVEiQ7LBC6
MaxQBiQ7LBC6
PaxDbiQ7LBC6
PeptideAtlasiQ7LBC6
PRIDEiQ7LBC6
ProteomicsDBi68846 [Q7LBC6-1]
68847 [Q7LBC6-2]
68848 [Q7LBC6-3]

Genome annotation databases

EnsembliENST00000314358; ENSP00000326563; ENSG00000120733 [Q7LBC6-1]
ENST00000542866; ENSP00000439462; ENSG00000120733 [Q7LBC6-3]
GeneIDi51780
KEGGihsa:51780
UCSCiuc003lcy.1 human [Q7LBC6-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
51780
DisGeNETi51780

GeneCards: human genes, protein and diseases

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GeneCardsi
KDM3B
HGNCiHGNC:1337 KDM3B
HPAiHPA016610
HPA057202
MIMi609373 gene
neXtProtiNX_Q7LBC6
OpenTargetsiENSG00000120733
PharmGKBiPA25918

Human Unidentified Gene-Encoded large proteins database

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HUGEi
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GenAtlas: human gene database

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GenAtlasi
Search...

Phylogenomic databases

eggNOGiKOG1356 Eukaryota
ENOG410XTAA LUCA
GeneTreeiENSGT00940000158095
HOGENOMiCLU_002991_0_0_1
InParanoidiQ7LBC6
KOiK15601
OMAiAPGENSR
OrthoDBi1185631at2759
PhylomeDBiQ7LBC6
TreeFamiTF324723

Enzyme and pathway databases

ReactomeiR-HSA-3214842 HDMs demethylate histones

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

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ChiTaRSi
KDM3B human

The Gene Wiki collection of pages on human genes and proteins

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GeneWikii
JMJD1B

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

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GenomeRNAii
51780
PharosiQ7LBC6 Tbio

Protein Ontology

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PROi
PR:Q7LBC6
RNActiQ7LBC6 protein

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
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Gene expression databases

BgeeiENSG00000120733 Expressed in kidney and 238 other tissues
ExpressionAtlasiQ7LBC6 baseline and differential
GenevisibleiQ7LBC6 HS

Family and domain databases

InterProiView protein in InterPro
IPR003347 JmjC_dom
PfamiView protein in Pfam
PF02373 JmjC, 1 hit
SMARTiView protein in SMART
SM00558 JmjC, 1 hit
PROSITEiView protein in PROSITE
PS51184 JMJC, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
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<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiKDM3B_HUMAN
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q7LBC6
Secondary accession number(s): A6H8X7
, Q9BVH6, Q9BW93, Q9BZ52, Q9NYF4, Q9UPS0
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 16, 2006
Last sequence update: October 5, 2010
Last modified: February 26, 2020
This is version 135 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>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.

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
  4. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  5. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  6. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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