InnateDB: Systems Biology of the Innate Immune Response

Mus musculus Protein: Rara

Summary

InnateDB Protein

IDBP-266595.6

Last Modified

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

Gene Symbol

Rara

Protein Name

retinoic acid receptor, alpha

Synonyms

Nr1b1; RAR; RARalpha1;

Species

Mus musculus

Ensembl Protein

ENSMUSP00000103099

InnateDB Gene

IDBG-210842 (Rara)

Protein Structure

UniProt Annotation

Function

Receptor for retinoic acid. Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes. The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5. In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone acetylation, chromatin condensation and transcriptional suppression. On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation. Regulates expression of target genes in a ligand-dependent manner by recruiting chromatin complexes containing KMT2E/MLL5. Mediates retinoic acid-induced granulopoiesis. RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis. Has a role in the survival of early spermatocytes at the beginning prophase of meiosis. In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes. In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function. {ECO:0000269PubMed:10660575, ECO:0000269PubMed:15901285, ECO:0000269PubMed:17205979, ECO:0000269PubMed:17905941, ECO:0000269PubMed:19078967, ECO:0000269PubMed:19389355, ECO:0000269PubMed:9230306}.

Subcellular Localization

Nucleus. Cytoplasm. Note=Nuclear localization depends on ligand binding, phosphorylation and sumoylation. Transloaction to the nucleus is dependent on activation of PKC and the downstream MAPK phosphorylation.

Disease Associations

Tissue Specificity

Expressed in Sertoli cells and germ cells. {ECO:0000269PubMed:17905941}.

Comments

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 86 experimentally validated interaction(s) in this database.
They are also associated with 121 interaction(s) predicted by orthology.

Experimentally validated
Total	86 [view]
Protein-Protein	85 [view]
Protein-DNA	1 [view]
Protein-RNA	0
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	121 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0000900	translation repressor activity, nucleic acid binding
GO:0000977	RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001012	RNA polymerase II regulatory region DNA binding
GO:0001972	retinoic acid binding
GO:0003677	DNA binding
GO:0003700	sequence-specific DNA binding transcription factor activity
GO:0003707	steroid hormone receptor activity
GO:0003708	retinoic acid receptor activity
GO:0003713	transcription coactivator activity
GO:0003714	transcription corepressor activity
GO:0004879	ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity
GO:0005102	receptor binding
GO:0005515	protein binding
GO:0008134	transcription factor binding
GO:0008144	drug binding
GO:0008270	zinc ion binding
GO:0019904	protein domain specific binding
GO:0031490	chromatin DNA binding
GO:0035014	phosphatidylinositol 3-kinase regulator activity
GO:0043422	protein kinase B binding
GO:0043565	sequence-specific DNA binding
GO:0044212	transcription regulatory region DNA binding
GO:0044323	retinoic acid-responsive element binding
GO:0046982	protein heterodimerization activity
GO:0048027	mRNA 5'-UTR binding
GO:0051018	protein kinase A binding

Biological Process

GO:0000122	negative regulation of transcription from RNA polymerase II promoter
GO:0001657	ureteric bud development
GO:0001843	neural tube closure
GO:0001889	liver development
GO:0002068	glandular epithelial cell development
GO:0003148	outflow tract septum morphogenesis
GO:0003417	growth plate cartilage development
GO:0006351	transcription, DNA-templated
GO:0006355	regulation of transcription, DNA-templated
GO:0006468	protein phosphorylation
GO:0007281	germ cell development
GO:0007283	spermatogenesis
GO:0007565	female pregnancy
GO:0008284	positive regulation of cell proliferation
GO:0008285	negative regulation of cell proliferation
GO:0010628	positive regulation of gene expression
GO:0010629	negative regulation of gene expression
GO:0014068	positive regulation of phosphatidylinositol 3-kinase signaling
GO:0030520	intracellular estrogen receptor signaling pathway
GO:0030850	prostate gland development
GO:0030852	regulation of granulocyte differentiation
GO:0030853	negative regulation of granulocyte differentiation
GO:0031076	embryonic camera-type eye development
GO:0031641	regulation of myelination
GO:0032355	response to estradiol
GO:0032526	response to retinoic acid
GO:0032689	negative regulation of interferon-gamma production
GO:0032720	negative regulation of tumor necrosis factor production
GO:0032736	positive regulation of interleukin-13 production
GO:0032753	positive regulation of interleukin-4 production
GO:0032754	positive regulation of interleukin-5 production
GO:0033189	response to vitamin A
GO:0034097	response to cytokine
GO:0035264	multicellular organism growth
GO:0043066	negative regulation of apoptotic process
GO:0043277	apoptotic cell clearance
GO:0043401	steroid hormone mediated signaling pathway
GO:0043551	regulation of phosphatidylinositol 3-kinase activity
GO:0045471	response to ethanol
GO:0045596	negative regulation of cell differentiation
GO:0045630	positive regulation of T-helper 2 cell differentiation
GO:0045666	positive regulation of neuron differentiation
GO:0045787	positive regulation of cell cycle
GO:0045892	negative regulation of transcription, DNA-templated
GO:0045944	positive regulation of transcription from RNA polymerase II promoter
GO:0045947	negative regulation of translational initiation
GO:0048167	regulation of synaptic plasticity
GO:0048384	retinoic acid receptor signaling pathway
GO:0051099	positive regulation of binding
GO:0051897	positive regulation of protein kinase B signaling
GO:0055012	ventricular cardiac muscle cell differentiation
GO:0060010	Sertoli cell fate commitment
GO:0060173	limb development
GO:0060324	face development
GO:0060348	bone development
GO:0060534	trachea cartilage development
GO:0060591	chondroblast differentiation
GO:0061037	negative regulation of cartilage development
GO:0070374	positive regulation of ERK1 and ERK2 cascade
GO:0071222	cellular response to lipopolysaccharide
GO:0071300	cellular response to retinoic acid
GO:0071391	cellular response to estrogen stimulus

Cellular Component

GO:0000790	nuclear chromatin
GO:0005634	nucleus
GO:0005737	cytoplasm
GO:0030425	dendrite
GO:0043025	neuronal cell body
GO:0048471	perinuclear region of cytoplasm

Protein Structure and Domains

PDB ID

MGI:97856

InterPro

IPR000003 Retinoid X receptor/HNF4
IPR000536 Nuclear hormone receptor, ligand-binding, core
IPR001628 Zinc finger, nuclear hormone receptor-type
IPR001723 Steroid hormone receptor
IPR003070 Orphan nuclear receptor
IPR003078 Retinoic acid receptor
IPR008946 Nuclear hormone receptor, ligand-binding

PFAM

PF00104
PF00105

PRINTS

PR00545
PR00047
PR00398
PR01284
PR01292

PIRSF

SMART

SM00430
SM00399

TIGRFAMs

Post-translational Modifications

Modification

Cross-References

SwissProt