Version 5.4
Mus musculus Gene: Nr1h4
Summary
InnateDB Gene IDBG-184281.6
Last Modified 2014-10-13 [Report errors or provide feedback]
Gene Symbol Nr1h4
Gene Name nuclear receptor subfamily 1, group H, member 4
Synonyms AI957360; Fxr; HRR1; RIP14; Rxrip14
Species Mus musculus
Ensembl Gene ENSMUSG00000047638
Encoded Proteins
IDBP-184283
nuclear receptor subfamily 1, group H, member 4
IDBP-271179
nuclear receptor subfamily 1, group H, member 4
IDBP-271181
nuclear receptor subfamily 1, group H, member 4
Protein Structure
Useful resources Stemformatics EHFPI ImmGen
InnateDB Annotation
Summary
PMID 23372731
The bile acid sensor Nr1h4 (FXR) Is required for immune-regulatory activities of TLR9 in intestinal inflammation.
InnateDB Annotation from Orthologs
Summary
PMID 19864602
[Homo sapiens] NR1H4 is an essential component of a network of nuclear receptors that regulate intestinal innate immunity and homeostasis.
Entrez Gene
Summary This gene does not have any Entrez summary - the following is the summary from its human ortholog ENSG00000012504:
This gene encodes a ligand-activated transcription factor, which shares structural features in common with nuclear hormone receptor family, such as a DNA-binding domain that targets the receptor to specific DNA sequences, and a ligand-binding domain, which interacts directly with the ligand and contains a ligand-dependent transcriptional activation domain. This protein functions as a receptor for bile acids, and when bound to bile acids, regulates the expression of genes involved in bile acid synthesis and transport. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Aug 2011]
Gene Information
Type Protein coding
Genomic Location Chromosome 10:89454234-89533585
Strand Reverse strand
Band C2
Transcripts
ENSMUST00000058126 ENSMUSP00000053092
ENSMUST00000105297 ENSMUSP00000100934
ENSMUST00000105296 ENSMUSP00000100933
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 24 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 24 [view]
Gene Ontology

Molecular Function
Accession GO Term
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding
GO:0001077 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription
GO:0001190 RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription
GO:0003677 DNA binding
GO:0003690 double-stranded DNA binding
GO:0003700 sequence-specific DNA binding transcription factor activity
GO:0003705 RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
GO:0003707 steroid hormone receptor activity
GO:0004872 receptor activity
GO:0004879 ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity
GO:0004887 thyroid hormone receptor activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0032052 bile acid binding
GO:0038181 bile acid receptor activity
GO:0042277 peptide binding
GO:0043565 sequence-specific DNA binding
GO:0046965 retinoid X receptor binding
GO:1902122 chenodeoxycholic acid binding
Biological Process
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001080 nitrogen catabolite activation of transcription from RNA polymerase II promoter
GO:0006109 regulation of carbohydrate metabolic process
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006366 transcription from RNA polymerase II promoter
GO:0008206 bile acid metabolic process
GO:0009749 response to glucose
GO:0030522 intracellular receptor signaling pathway
GO:0032496 response to lipopolysaccharide
GO:0034255 regulation of urea metabolic process
GO:0038185 intracellular bile acid receptor signaling pathway
GO:0043401 steroid hormone mediated signaling pathway
GO:0045087 innate immune response (InnateDB)
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048565 digestive tract development
GO:0070858 negative regulation of bile acid biosynthetic process
GO:0071229 cellular response to acid
GO:0071417 cellular response to organonitrogen compound
GO:2000213 positive regulation of glutamate metabolic process
GO:2001250 positive regulation of ammonia assimilation cycle
Cellular Component
GO:0005634 nucleus
GO:0005719 nuclear euchromatin
Orthologs
Species
Homo sapiens
Bos taurus
Gene ID
Gene Order
ENSG00000012504
View Gene Order
ENSBTAG00000013596
Not yet available
Pathways
NETPATH
REACTOME
REACT_232159
Cytochrome P450 - arranged by substrate type pathway
REACT_249802
Phase 1 - Functionalization of compounds pathway
REACT_234105
Nuclear Receptor transcription pathway pathway
REACT_256522
Fatty acid, triacylglycerol, and ketone body metabolism pathway
REACT_239346
Recycling of bile acids and salts pathway
REACT_268398
Orphan transporters pathway
REACT_188937
Metabolism pathway
REACT_232291
Metabolism of lipids and lipoproteins pathway
REACT_257219
Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha) pathway
REACT_227038
Endogenous sterols pathway
REACT_207530
Synthesis of bile acids and bile salts pathway
REACT_203193
Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol pathway
REACT_253400
Transmembrane transport of small molecules pathway
REACT_233572
Gene Expression pathway
REACT_198602
PPARA activates gene expression pathway
REACT_232343
Biological oxidations pathway
REACT_226440
Synthesis of bile acids and bile salts via 27-hydroxycholesterol pathway
REACT_206529
Generic Transcription Pathway pathway
REACT_229469
Bile acid and bile salt metabolism pathway
KEGG
mmu04976
Bile secretion pathway
INOH
PID NCI
Pathway Predictions based on Human Orthology Data
NETPATH
REACTOME
REACT_116145
PPARA activates gene expression pathway
REACT_19241
Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha) pathway
REACT_11041
Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol pathway
REACT_11048
Synthesis of bile acids and bile salts via 27-hydroxycholesterol pathway
REACT_11054
Synthesis of bile acids and bile salts pathway
REACT_11042
Recycling of bile acids and salts pathway
REACT_22279
Fatty acid, triacylglycerol, and ketone body metabolism pathway
REACT_13812
Endogenous sterols pathway
REACT_15518
Transmembrane transport of small molecules pathway
REACT_22258
Metabolism of lipids and lipoproteins pathway
REACT_11040
Bile acid and bile salt metabolism pathway
REACT_13567
Cytochrome P450 - arranged by substrate type pathway
REACT_267716
Orphan transporters pathway
REACT_111217
Metabolism pathway
REACT_13433
Biological oxidations pathway
REACT_13705
Phase 1 - Functionalization of compounds pathway
KEGG
hsa04976
Bile secretion pathway
INOH
PID NCI
rxr_vdr_pathway
RXR and RAR heterodimerization with other nuclear receptor
Cross-References
SwissProt
TrEMBL
UniProt Splice Variant
Entrez Gene
UniGene Mm.3095
RefSeq NM_001163504 NM_001163700 NM_009108 XM_006513391 XM_006513392 XM_006513393
OMIM
CCDS CCDS24116 CCDS48668 CCDS48669
HPRD
IMGT
MGI ID
MGI Symbol
EMBL
GenPept
RNA Seq Atlas

If you use InnateDB for your research, please cite the following publication:

Breuer et al., InnateDB: systems biology of innate immunity and beyond - recent updates and continuing curation. Nucl. Acids Res. (2013) 41 (D1) 

InnateDB is being developed jointly by the Brinkman Laboratory (Simon Fraser University, British Columbia, Canada), the Hancock Laboratory (University of British Columbia, Vancouver, British Columbia) and the Lynn EMBL Australia Group (South Australian Health & Medical Research Institute and Flinders University, Adelaide, Australia).

Funding is currently provided by Allergen and EMBL Australia. Previous funding has been provided by Genome Canada, the Foundation for the National Institutes of Health through the Grand Challenges in Global Health initiative and by Teagasc. InnateDB curated interactions are licensed under the Design Science License. All other data is licensed under the terms of the originating database. Contact: innatedb-mail@sfu.ca