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Entry version 146 (18 Sep 2019)
Sequence version 3 (11 Jan 2011)
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Protein

Lysine-specific histone demethylase 1B

Gene

KDM1B

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 demethylates 'Lys-4' of histone H3, a specific tag for epigenetic transcriptional activation, thereby acting as a corepressor. Required for de novo DNA methylation of a subset of imprinted genes during oogenesis. Acts by oxidizing the substrate by FAD to generate the corresponding imine that is subsequently hydrolyzed. Demethylates both mono- and di-methylated 'Lys-4' of histone H3. Has no effect on tri-methylated 'Lys-4', mono-, di- or tri-methylated 'Lys-9', mono-, di- or tri-methylated 'Lys-27', mono-, di- or tri-methylated 'Lys-36' of histone H3, or on mono-, di- or tri-methylated 'Lys-20' of histone H4.2 Publications

<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

Protein has several cofactor binding sites:

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Histone H3K4me1 and H3K4me2 demethylase activity is enhanced by GLYR1.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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 bindingi53Zinc 1Combined sources3 Publications1
Metal bindingi58Zinc 1Combined sources3 Publications1
Metal bindingi65Zinc 2Combined sources3 Publications1
Metal bindingi73Zinc 2Combined sources3 Publications1
Metal bindingi84Zinc 1; via pros nitrogenCombined sources3 Publications1
Metal bindingi90Zinc 1; via tele nitrogenCombined sources3 Publications1
Metal bindingi92Zinc 2Combined sources3 Publications1
Metal bindingi95Zinc 2Combined sources3 Publications1
Metal bindingi142Zinc 3Combined sources3 Publications1
Metal bindingi147Zinc 3Combined sources3 Publications1
Metal bindingi169Zinc 3Combined sources3 Publications1
Metal bindingi185Zinc 3Combined sources3 Publications1
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei598FAD; via amide nitrogen and carbonyl oxygenCombined sources3 Publications1
Binding sitei795FAD; via amide nitrogenCombined sources2 Publications1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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 fingeri133 – 193CW-typePROSITE-ProRule annotationAdd BLAST61
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi383 – 439FADSequence analysisCombined sources3 PublicationsAdd BLAST57
Nucleotide bindingi803 – 805FADCombined sources3 Publications3

<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, Developmental protein, Oxidoreductase, Repressor
Biological processTranscription, Transcription regulation
LigandFAD, Flavoprotein, Metal-binding, Zinc

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-HSA-3214842 HDMs demethylate histones
R-HSA-5689603 UCH proteinases

<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_and_taxonomy_section">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 histone demethylase 1B (EC:1.-.-.-)
Alternative name(s):
Flavin-containing amine oxidase domain-containing protein 1
Lysine-specific histone demethylase 2
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:KDM1B
Synonyms:AOF1, C6orf193, LSD2
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_and_taxonomy_section">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_and_taxonomy_section">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_and_taxonomy_section">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_manual">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 6

Organism-specific databases

Human Gene Nomenclature Database

More...
HGNCi
HGNC:21577 KDM1B

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
613081 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_Q8NB78

<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

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi48 – 49KK → AA: Normal demethylase activity. 1 Publication2
Mutagenesisi51 – 52RK → AA: Reduced demethylase activity. 1 Publication2
Mutagenesisi53C → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi82W → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi84H → A: Loss of demethylase activity. Defective in the binding of FAD. 1 Publication1
Mutagenesisi90H → A: Loss of demethylase activity. Defective in the binding of FAD. 1 Publication1
Mutagenesisi101R → A: Reduced demethylase activity. 1 Publication1
Mutagenesisi114 – 115KK → AA: Reduced demethylase activity. 1 Publication2
Mutagenesisi139W → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi150W → A: Loss of demethylase activity. Defective in the binding of FAD. 1 Publication1
Mutagenesisi151R → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi185C → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi273 – 278YQPNEC → GSGSGS: Strongly reduced demethylase activity. Loss of enzymatic activity; when associated with 285-A--A-287. 1 Publication6
Mutagenesisi285 – 287RPD → APA: Strongly reduced demethylase activity. Loss of enzymatic activity; when associated with 273-G--S-278. 1 Publication3
Mutagenesisi318 – 319WY → AA: Loss of demethylase activity. 1 Publication2
Mutagenesisi340 – 341LV → AA: Loss of demethylase activity. Defective in the binding of FAD. 1 Publication2
Mutagenesisi361 – 362LI → AA: Loss of demethylase activity. Defective in the binding of FAD. 1 Publication2
Mutagenesisi443 – 444IN → GG: Loss of demethylase activity. Defective in the binding of FAD. 1 Publication2
Mutagenesisi542N → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi543L → A: Reduced demethylase activity. 1 Publication1
Mutagenesisi547C → A: Reduced demethylase activity. 1 Publication1
Mutagenesisi559W → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi563E → A: Loss of demethylase activity. 1 Publication1
Mutagenesisi661K → A: Normal demethylase activity. 1 Publication1
Mutagenesisi767Y → A: Loss of demethylase activity. 1 Publication1

Organism-specific databases

DisGeNET

More...
DisGeNETi
221656

Open Targets

More...
OpenTargetsi
ENSG00000165097

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA162379723
PA165617946

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL1938208

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
KDM1B

Domain mapping of disease mutations (DMDM)

More...
DMDMi
317373434

<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 ‘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_00002473361 – 822Lysine-specific histone demethylase 1BAdd BLAST822

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 residuei13PhosphoserineCombined sources1
Modified residuei17PhosphoserineCombined sources1
Modified residuei26PhosphoserineCombined sources1
Modified residuei247PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
Q8NB78

jPOST - Japan Proteome Standard Repository/Database

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jPOSTi
Q8NB78

MassIVE - Mass Spectrometry Interactive Virtual Environment

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MassIVEi
Q8NB78

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q8NB78

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

More...
PaxDbi
Q8NB78

PeptideAtlas

More...
PeptideAtlasi
Q8NB78

PRoteomics IDEntifications database

More...
PRIDEi
Q8NB78

ProteomicsDB human proteome resource

More...
ProteomicsDBi
72745 [Q8NB78-1]
72746 [Q8NB78-2]
72747 [Q8NB78-4]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q8NB78

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

More...
PhosphoSitePlusi
Q8NB78

<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

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSG00000165097 Expressed in 189 organ(s), highest expression level in secondary oocyte

ExpressionAtlas, Differential and Baseline Expression

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ExpressionAtlasi
Q8NB78 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

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Genevisiblei
Q8NB78 HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
HPA031269

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Does not form a complex with RCOR1/CoREST (By similarity).

Interacts with its cofactor GLYR1 at nucleosomes; this interaction stimulates H3K4me1 and H3K4me2 demethylation (PubMed:23260659).

By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

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BioGridi
128743, 33 interactors

Protein interaction database and analysis system

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IntActi
Q8NB78, 20 interactors

STRING: functional protein association networks

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STRINGi
9606.ENSP00000297792

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
Q8NB78

<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

1822
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
Q8NB78

Database of comparative protein structure models

More...
ModBasei
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_and_domains_section">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>Domaini275 – 373SWIRMPROSITE-ProRule annotationAdd BLAST99

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni273 – 292GLYR1-bindingCombined sources1 PublicationAdd BLAST20
Regioni438 – 467Histone H3-bindingCombined sources2 PublicationsAdd BLAST30
Regioni487 – 498Histone H3-bindingCombined sources2 PublicationsAdd BLAST12
Regioni538 – 572Histone H3-bindingCombined sources2 PublicationsAdd BLAST35
Regioni564 – 566GLYR1-bindingCombined sources1 Publication3
Regioni798 – 814GLYR1-bindingCombined sources1 PublicationAdd BLAST17

<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

The SWIRM domain may act as an anchor site for a histone tail.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 flavin monoamine oxidase family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri133 – 193CW-typePROSITE-ProRule annotationAdd BLAST61

Keywords - Domaini

Zinc-finger

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0029 Eukaryota
ENOG410XSNC LUCA

Ensembl GeneTree

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GeneTreei
ENSGT00940000157751

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000230870

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q8NB78

KEGG Orthology (KO)

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KOi
K19413

Database of Orthologous Groups

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OrthoDBi
1034142at2759

Database for complete collections of gene phylogenies

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PhylomeDBi
Q8NB78

TreeFam database of animal gene trees

More...
TreeFami
TF352593

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

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Gene3Di
1.10.10.10, 1 hit
3.50.50.60, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002937 Amino_oxidase
IPR036188 FAD/NAD-bd_sf
IPR009057 Homeobox-like_sf
IPR007526 SWIRM
IPR036388 WH-like_DNA-bd_sf
IPR011124 Znf_CW

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01593 Amino_oxidase, 1 hit
PF04433 SWIRM, 1 hit
PF07496 zf-CW, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF46689 SSF46689, 1 hit
SSF51905 SSF51905, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50934 SWIRM, 1 hit
PS51050 ZF_CW, 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_length">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

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: Q8NB78-1) [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
MATPRGRTKK KASFDHSPDS LPLRSSGRQA KKKATETTDE DEDGGSEKKY
60 70 80 90 100
RKCEKAGCTA TCPVCFASAS ERCAKNGYTS RWYHLSCGEH FCNECFDHYY
110 120 130 140 150
RSHKDGYDKY TTWKKIWTSN GKTEPSPKAF MADQQLPYWV QCTKPECRKW
160 170 180 190 200
RQLTKEIQLT PQIAKTYRCG MKPNTAIKPE TSDHCSLPED LRVLEVSNHW
210 220 230 240 250
WYSMLILPPL LKDSVAAPLL SAYYPDCVGM SPSCTSTNRA AATGNASPGK
260 270 280 290 300
LEHSKAALSV HVPGMNRYFQ PFYQPNECGK ALCVRPDVME LDELYEFPEY
310 320 330 340 350
SRDPTMYLAL RNLILALWYT NCKEALTPQK CIPHIIVRGL VRIRCVQEVE
360 370 380 390 400
RILYFMTRKG LINTGVLSVG ADQYLLPKDY HNKSVIIIGA GPAGLAAARQ
410 420 430 440 450
LHNFGIKVTV LEAKDRIGGR VWDDKSFKGV TVGRGAQIVN GCINNPVALM
460 470 480 490 500
CEQLGISMHK FGERCDLIQE GGRITDPTID KRMDFHFNAL LDVVSEWRKD
510 520 530 540 550
KTQLQDVPLG EKIEEIYKAF IKESGIQFSE LEGQVLQFHL SNLEYACGSN
560 570 580 590 600
LHQVSARSWD HNEFFAQFAG DHTLLTPGYS VIIEKLAEGL DIQLKSPVQC
610 620 630 640 650
IDYSGDEVQV TTTDGTGYSA QKVLVTVPLA LLQKGAIQFN PPLSEKKMKA
660 670 680 690 700
INSLGAGIIE KIALQFPYRF WDSKVQGADF FGHVPPSASK RGLFAVFYDM
710 720 730 740 750
DPQKKHSVLM SVIAGEAVAS VRTLDDKQVL QQCMATLREL FKEQEVPDPT
760 770 780 790 800
KYFVTRWSTD PWIQMAYSFV KTGGSGEAYD IIAEDIQGTV FFAGEATNRH
810 820
FPQTVTGAYL SGVREASKIA AF
Length:822
Mass (Da):92,098
Last modified:January 11, 2011 - v3
<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:i6C0A9BD6B2CEA2EA
GO
Isoform 2 (identifier: Q8NB78-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     192-323: Missing.
     453-552: Missing.

Note: No experimental confirmation available.
Show »
Length:590
Mass (Da):65,717
Checksum:iAFDC638DFD727A9E
GO
Isoform 4 (identifier: Q8NB78-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-647: Missing.

Note: No experimental confirmation available.
Show »
Length:175
Mass (Da):19,428
Checksum:i5571123B00CDE9E8
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
H0Y6H0H0Y6H0_HUMAN
Lysine-specific histone demethylase...
KDM1B
823Annotation 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>
Q08EI0Q08EI0_HUMAN
AOF1 protein
KDM1B AOF1
113Annotation 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 BAC03663 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.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 conflicti651I → T in BAC86124 (PubMed:14702039).Curated1
Sequence conflicti794 – 795Missing in CAH10499 (PubMed:17974005).Curated2

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_0199631 – 647Missing in isoform 4. 1 PublicationAdd BLAST647
Alternative sequenceiVSP_019964192 – 323Missing in isoform 2. 1 PublicationAdd BLAST132
Alternative sequenceiVSP_019965453 – 552Missing in isoform 2. 1 PublicationAdd BLAST100

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
AK091217 mRNA Translation: BAC03612.1
AK091428 mRNA Translation: BAC03663.1 Different initiation.
AK125318 mRNA Translation: BAC86124.1
AL031774 Genomic DNA No translation available.
AL589723 Genomic DNA No translation available.
CH471087 Genomic DNA Translation: EAW55401.1
CR627410 mRNA Translation: CAH10499.1

The Consensus CDS (CCDS) project

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CCDSi
CCDS34343.1 [Q8NB78-2]

NCBI Reference Sequences

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RefSeqi
NP_694587.3, NM_153042.3 [Q8NB78-2]
XP_005248983.1, XM_005248926.1 [Q8NB78-1]

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000297792; ENSP00000297792; ENSG00000165097 [Q8NB78-2]
ENST00000650836; ENSP00000499208; ENSG00000165097 [Q8NB78-1]

Database of genes from NCBI RefSeq genomes

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GeneIDi
221656

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:221656

UCSC genome browser

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UCSCi
uc003ncn.2 human [Q8NB78-1]

Keywords - Coding sequence diversityi

Alternative splicing

<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
AK091217 mRNA Translation: BAC03612.1
AK091428 mRNA Translation: BAC03663.1 Different initiation.
AK125318 mRNA Translation: BAC86124.1
AL031774 Genomic DNA No translation available.
AL589723 Genomic DNA No translation available.
CH471087 Genomic DNA Translation: EAW55401.1
CR627410 mRNA Translation: CAH10499.1
CCDSiCCDS34343.1 [Q8NB78-2]
RefSeqiNP_694587.3, NM_153042.3 [Q8NB78-2]
XP_005248983.1, XM_005248926.1 [Q8NB78-1]

3D structure databases

Select the link destinations:

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
4FWEX-ray2.13A30-822[»]
4FWFX-ray2.70A30-822[»]
4FWJX-ray2.90A/B30-822[»]
4GU0X-ray3.10A/B/C/D51-822[»]
4GU1X-ray2.94A/B51-822[»]
4GURX-ray2.51A51-822[»]
4GUSX-ray2.23A51-822[»]
4GUTX-ray2.00A51-822[»]
4GUUX-ray2.30A51-822[»]
4HSUX-ray1.99A51-822[»]
6R1Uelectron microscopy4.36K51-822[»]
6R25electron microscopy4.61K51-822[»]
SMRiQ8NB78
ModBaseiSearch...

Protein-protein interaction databases

BioGridi128743, 33 interactors
IntActiQ8NB78, 20 interactors
STRINGi9606.ENSP00000297792

Chemistry databases

BindingDBiQ8NB78
ChEMBLiCHEMBL1938208

DrugCentral

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DrugCentrali
Q8NB78

PTM databases

iPTMnetiQ8NB78
PhosphoSitePlusiQ8NB78

Polymorphism and mutation databases

BioMutaiKDM1B
DMDMi317373434

Proteomic databases

EPDiQ8NB78
jPOSTiQ8NB78
MassIVEiQ8NB78
MaxQBiQ8NB78
PaxDbiQ8NB78
PeptideAtlasiQ8NB78
PRIDEiQ8NB78
ProteomicsDBi72745 [Q8NB78-1]
72746 [Q8NB78-2]
72747 [Q8NB78-4]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000297792; ENSP00000297792; ENSG00000165097 [Q8NB78-2]
ENST00000650836; ENSP00000499208; ENSG00000165097 [Q8NB78-1]
GeneIDi221656
KEGGihsa:221656
UCSCiuc003ncn.2 human [Q8NB78-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
221656
DisGeNETi221656

GeneCards: human genes, protein and diseases

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GeneCardsi
KDM1B
HGNCiHGNC:21577 KDM1B
HPAiHPA031269
MIMi613081 gene
neXtProtiNX_Q8NB78
OpenTargetsiENSG00000165097
PharmGKBiPA162379723
PA165617946

GenAtlas: human gene database

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GenAtlasi
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Phylogenomic databases

eggNOGiKOG0029 Eukaryota
ENOG410XSNC LUCA
GeneTreeiENSGT00940000157751
HOGENOMiHOG000230870
InParanoidiQ8NB78
KOiK19413
OrthoDBi1034142at2759
PhylomeDBiQ8NB78
TreeFamiTF352593

Enzyme and pathway databases

ReactomeiR-HSA-3214842 HDMs demethylate histones
R-HSA-5689603 UCH proteinases

Miscellaneous databases

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

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ChiTaRSi
KDM1B human

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

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GenomeRNAii
221656

Pharos

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Pharosi
Q8NB78

Protein Ontology

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PROi
PR:Q8NB78

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
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Gene expression databases

BgeeiENSG00000165097 Expressed in 189 organ(s), highest expression level in secondary oocyte
ExpressionAtlasiQ8NB78 baseline and differential
GenevisibleiQ8NB78 HS

Family and domain databases

Gene3Di1.10.10.10, 1 hit
3.50.50.60, 1 hit
InterProiView protein in InterPro
IPR002937 Amino_oxidase
IPR036188 FAD/NAD-bd_sf
IPR009057 Homeobox-like_sf
IPR007526 SWIRM
IPR036388 WH-like_DNA-bd_sf
IPR011124 Znf_CW
PfamiView protein in Pfam
PF01593 Amino_oxidase, 1 hit
PF04433 SWIRM, 1 hit
PF07496 zf-CW, 1 hit
SUPFAMiSSF46689 SSF46689, 1 hit
SSF51905 SSF51905, 1 hit
PROSITEiView protein in PROSITE
PS50934 SWIRM, 1 hit
PS51050 ZF_CW, 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
Search...

<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 nameiKDM1B_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: Q8NB78
Secondary accession number(s): A2A2C5
, A2A2C6, Q5TGV3, Q6AI15, Q6ZUU4, Q8N258, Q96EL7
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 25, 2006
Last sequence update: January 11, 2011
Last modified: September 18, 2019
This is version 146 of the entry and version 3 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, Complete proteome, 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 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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