InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Gene: CTCF

Summary

InnateDB Gene

IDBG-36980.6

Last Modified

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

Gene Symbol

CTCF

Gene Name

CCCTC-binding factor (zinc finger protein)

Synonyms

MRD21

Species

Homo sapiens

Ensembl Gene

ENSG00000102974

Encoded Proteins

IDBP-36982

CCCTC-binding factor (zinc finger protein)

IDBP-295226

CCCTC-binding factor (zinc finger protein)

Protein Structure

Useful resources

Stemformatics EHFPI ImmGen

InnateDB Annotation

Summary

PMID 15670593

CTCF regulates the transcription of the interleukin 1 receptor-associates kinase 2 (IRAK2) promoter. IRAK2 is part of a family of four IRAKs that regulate immune responsiveness to bacterial endotoxins.

Entrez Gene

Summary

This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. Depending upon the context of the site, the protein can bind a histone acetyltransferase (HAT)-containing complex and function as a transcriptional activator or bind a histone deacetylase (HDAC)-containing complex and function as a transcriptional repressor. If the protein is bound to a transcriptional insulator element, it can block communication between enhancers and upstream promoters, thereby regulating imprinted expression. Mutations in this gene have been associated with invasive breast cancers, prostate cancers, and Wilms' tumors. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2010]
This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. Depending upon the context of the site, the protein can bind a histone acetyltransferase (HAT)-containing complex and function as a transcriptional activator or bind a histone deacetylase (HDAC)-containing complex and function as a transcriptional repressor. If the protein is bound to a transcriptional insulator element, it can block communication between enhancers and upstream promoters, thereby regulating imprinted expression. Mutations in this gene have been associated with invasive breast cancers, prostate cancers, and Wilms\' tumors. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2010]

Gene Information

Type

Protein coding

Genomic Location

Chromosome 16:67562407-67639183

Strand

Forward strand

Band

q22.1

Transcripts

ENST00000264010	ENSP00000264010
ENST00000401394	ENSP00000384707
ENST00000566078

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 63 experimentally validated interaction(s) in this database.
They are also associated with 21 interaction(s) predicted by orthology.

Experimentally validated
Total	63 [view]
Protein-Protein	54 [view]
Protein-DNA	9 [view]
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	21 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0000978	RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0001078	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription
GO:0003677	DNA binding
GO:0003682	chromatin binding
GO:0003700	sequence-specific DNA binding transcription factor activity
GO:0003714	transcription corepressor activity
GO:0005515	protein binding
GO:0008270	zinc ion binding
GO:0043035	chromatin insulator sequence binding
GO:0043565	sequence-specific DNA binding
GO:0044212	transcription regulatory region DNA binding
GO:0046872	metal ion binding

Biological Process

GO:0000122	negative regulation of transcription from RNA polymerase II promoter
GO:0006306	DNA methylation
GO:0006349	regulation of gene expression by genetic imprinting
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0007059	chromosome segregation
GO:0010216	maintenance of DNA methylation
GO:0010628	positive regulation of gene expression
GO:0010629	negative regulation of gene expression
GO:0016568	chromatin modification
GO:0016584	nucleosome positioning
GO:0031060	regulation of histone methylation
GO:0035065	regulation of histone acetylation
GO:0040029	regulation of gene expression, epigenetic
GO:0040030	regulation of molecular function, epigenetic
GO:0045087	innate immune response (InnateDB)
GO:0045892	negative regulation of transcription, DNA-templated
GO:0045893	positive regulation of transcription, DNA-templated
GO:0070602	regulation of centromeric sister chromatid cohesion

Cellular Component

GO:0000775	chromosome, centromeric region
GO:0000793	condensed chromosome
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005730	nucleolus

Orthologs

Species

Mus musculus

Bos taurus

Gene ID

Gene Order

ENSMUSG00000005698

View Gene Order

ENSBTAG00000013757

Not yet available

Pathways

NETPATH

NetPath_7

TGF_beta_Receptor pathway

REACTOME

KEGG

INOH

PID NCI

Cross-References

SwissProt

P49711

TrEMBL

UniProt Splice Variant

Entrez Gene

10664

UniGene

Hs.368367 Hs.644710

RefSeq

NM_001191022 NM_006565 XM_005255775

HUGO

HGNC:13723

OMIM

604167

CCDS

CCDS10841 CCDS54029

HPRD

IMGT

EMBL

AB209793 AC009095 AC027682 AF145468 AF145469 AF145470 AF145471 AF145472 AF145473 AF145474 AF145475 AF145476 AF145477 BC014267 BT009915 CH471092 U25435

GenPept

AAB07788 AAF31318 AAH14267 AAP88917 BAD93030 EAW83142

RNA Seq Atlas

10664