InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Protein: CHD5

Summary

InnateDB Protein

IDBP-87290.6

Last Modified

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

Gene Symbol

CHD5

Protein Name

chromodomain helicase DNA binding protein 5

Synonyms

CHD-5;

Species

Homo sapiens

Ensembl Protein

ENSP00000262450

InnateDB Gene

IDBG-87288 (CHD5)

Protein Structure

UniProt Annotation

Function

Chromatin-remodeling protein that binds DNA through histones and regulates gene transcription. May specifically recognize and bind trimethylated 'Lys-27' (H3K27me3) and non- methylated 'Lys-4' of histone H3. Plays a role in the development of the nervous system by activating the expression of genes promoting neuron terminal differentiation. In parallel, it may also positively regulate the trimethylation of histone H3 at 'Lys- 27' thereby specifically repressing genes that promote the differentiation into non-neuronal cell lineages. Tumor suppressor, it regulates the expression of genes involved in cell proliferation and differentiation. Downstream activated genes may include CDKN2A that positively regulates the p53/TP53 pathway, which in turn, prevents cell proliferation. In spermatogenesis, it probably regulates histone hyperacetylation and the replacement of histones by transition proteins in chromatin, a crucial step in the condensation of spermatid chromatin and the production of functional spermatozoa. {ECO:0000269PubMed:23948251}.

Subcellular Localization

Nucleus {ECO:0000269PubMed:21931736, ECO:0000269PubMed:23948251}. Note=Associates with heterochromatin. {ECO:0000250}.

Disease Associations

Note=Defects in CHD5 may be a cause of the development of cancers from epithelial, neural and hematopoietic origin. CHD5 is one of the missing genes in the del(1p36), a deletion which is extremely common in this type of cancers. A decrease of its expression, results in increased susceptibility of cells to Ras- mediated transformation in vitro and in vivo (PubMed:17289567). {ECO:0000269PubMed:17289567}.

Tissue Specificity

Preferentially expressed in total brain, fetal brain, and cerebellum. It is also moderately expressed in the adrenal gland and detected in testis. {ECO:0000269PubMed:12592387, ECO:0000269PubMed:21931736}.

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 7 experimentally validated interaction(s) in this database.
They are also associated with 5 interaction(s) predicted by orthology.

Experimentally validated
Total	7 [view]
Protein-Protein	4 [view]
Protein-DNA	3 [view]
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	5 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003677	DNA binding
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0008026	ATP-dependent helicase activity
GO:0008270	zinc ion binding
GO:0016787	hydrolase activity
GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
GO:0061628	H3K27me3 modified histone binding

Biological Process

GO:0006200	ATP catabolic process
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0006366	transcription from RNA polymerase II promoter
GO:0008285	negative regulation of cell proliferation
GO:0021895	cerebral cortex neuron differentiation
GO:0035093	spermatogenesis, exchange of chromosomal proteins
GO:0043967	histone H4 acetylation
GO:0060850	regulation of transcription involved in cell fate commitment
GO:0098532	histone H3-K27 trimethylation
GO:1901798	positive regulation of signal transduction by p53 class mediator

Cellular Component

GO:0000785	chromatin
GO:0000792	heterochromatin
GO:0005634	nucleus
GO:0016020	membrane
GO:0016581	NuRD complex

Protein Structure and Domains

PDB ID

InterPro

IPR000330 SNF2-related
IPR000953 Chromo domain/shadow
IPR001650 Helicase, C-terminal
IPR001965 Zinc finger, PHD-type
IPR006935 Helicase/UvrB domain
IPR009071 High mobility group box domain
IPR009462 Domain of unknown function DUF1086
IPR009463 Domain of unknown function DUF1087
IPR011011 Zinc finger, FYVE/PHD-type
IPR012957 CHD, C-terminal 2
IPR012958 CHD, N-terminal
IPR014001 Helicase, superfamily 1/2, ATP-binding domain
IPR016197 Chromo domain-like
IPR019787 Zinc finger, PHD-finger
IPR023780 Chromo domain
IPR027417 P-loop containing nucleoside triphosphate hydrolase

PFAM