InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Protein: KDM1B

Summary

InnateDB Protein

IDBP-63968.7

Last Modified

2014-10-13 [Report errors or provide feedback]

Gene Symbol

KDM1B

Protein Name

lysine (K)-specific demethylase 1B

Synonyms

Species

Homo sapiens

Ensembl Protein

ENSP00000297792

InnateDB Gene

IDBG-63966 (KDM1B)

Protein Structure

UniProt Annotation

Function

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 (By similarity). {ECO:0000250}.

Subcellular Localization

Nucleus {ECO:0000250}.

Disease Associations

Tissue Specificity

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 9 experimentally validated interaction(s) in this database.
They are also associated with 1 interaction(s) predicted by orthology.

Experimentally validated
Total	9 [view]
Protein-Protein	9 [view]
Protein-DNA	0
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	1 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003677	DNA binding
GO:0008270	zinc ion binding
GO:0016491	oxidoreductase activity
GO:0034648	histone demethylase activity (H3-dimethyl-K4 specific)
GO:0034649	histone demethylase activity (H3-monomethyl-K4 specific)
GO:0050660	flavin adenine dinucleotide binding

Biological Process

GO:0006349	regulation of gene expression by genetic imprinting
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0007275	multicellular organismal development
GO:0008033	tRNA processing
GO:0034720	histone H3-K4 demethylation
GO:0043046	DNA methylation involved in gamete generation
GO:0044030	regulation of DNA methylation
GO:0055114	oxidation-reduction process

Cellular Component

GO:0005634

nucleus

Protein Structure and Domains

PDB ID

InterPro

IPR001327 Pyridine nucleotide-disulphide oxidoreductase, NAD-binding domain
IPR002218 Glucose-inhibited division protein A-related
IPR002937 Amine oxidase
IPR002938 Monooxygenase, FAD-binding
IPR003042 Aromatic-ring hydroxylase-like
IPR003953 FAD binding domain
IPR004792 Conserved hypothetical protein CHP00275, flavoprotein HI0933-like
IPR009057 Homeodomain-like
IPR011124 Zinc finger, CW-type
IPR023753 Pyridine nucleotide-disulphide oxidoreductase, FAD/NAD(P)-binding domain

PFAM