InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Protein: KDM2B

Summary

InnateDB Protein

IDBP-61788.6

Last Modified

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

Gene Symbol

KDM2B

Protein Name

lysine (K)-specific demethylase 2B

Synonyms

Species

Homo sapiens

Ensembl Protein

ENSP00000366271

InnateDB Gene

IDBG-61786 (KDM2B)

Protein Structure

UniProt Annotation

Function

Histone demethylase that demethylates 'Lys-4' and 'Lys- 36' of histone H3, thereby playing a central role in histone code. Preferentially demethylates trimethylated H3 'Lys-4' and dimethylated H3 'Lys-36' residue while it has weak or no activity for mono- and tri-methylated H3 'Lys-36'. Preferentially binds the transcribed region of ribosomal RNA and represses the transcription of ribosomal RNA genes which inhibits cell growth and proliferation. May also serve as a substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. {ECO:0000269PubMed:16362057, ECO:0000269PubMed:17994099}.

Subcellular Localization

Nucleus, nucleolus {ECO:0000269PubMed:17994099}.

Disease Associations

Tissue Specificity

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 20 experimentally validated interaction(s) in this database.
They are also associated with 17 interaction(s) predicted by orthology.

Experimentally validated
Total	20 [view]
Protein-Protein	20 [view]
Protein-DNA	0
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	17 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003677	DNA binding
GO:0005515	protein binding
GO:0008270	zinc ion binding
GO:0019843	rRNA binding
GO:0032452	histone demethylase activity
GO:0051864	histone demethylase activity (H3-K36 specific)

Biological Process

GO:0000122	negative regulation of transcription from RNA polymerase II promoter
GO:0006351	transcription, DNA-templated
GO:0007283	spermatogenesis
GO:0016577	histone demethylation
GO:0021555	midbrain-hindbrain boundary morphogenesis
GO:0021592	fourth ventricle development
GO:0021670	lateral ventricle development
GO:0021678	third ventricle development
GO:0021993	initiation of neural tube closure
GO:0030900	forebrain development
GO:0030901	midbrain development
GO:0030902	hindbrain development
GO:0035518	histone H2A monoubiquitination
GO:0043524	negative regulation of neuron apoptotic process
GO:0048596	embryonic camera-type eye morphogenesis
GO:0055114	oxidation-reduction process
GO:0070544	histone H3-K36 demethylation
GO:2000178	negative regulation of neural precursor cell proliferation

Cellular Component

GO:0005634	nucleus
GO:0005730	nucleolus
GO:0031519	PcG protein complex

Protein Structure and Domains

PDB ID

InterPro

IPR001810 F-box domain
IPR001965 Zinc finger, PHD-type
IPR002857 Zinc finger, CXXC-type
IPR003347 JmjC domain
IPR006553 Leucine-rich repeat, cysteine-containing subtype
IPR011011 Zinc finger, FYVE/PHD-type
IPR019787 Zinc finger, PHD-finger

PFAM