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Q60641

- NR1H4_MOUSE

UniProt

Q60641 - NR1H4_MOUSE

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Protein

Bile acid receptor

Gene

Nr1h4

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Ligand-activated transcription factor. Receptor for bile acids such as chenodeoxycholic acid, lithocholic acid and deoxycholic acid. Represses the transcription of the cholesterol 7-alpha-hydroxylase gene (CYP7A1) and activates the intestinal bile acid-binding protein (IBABP). Activates the transcription of bile salt export pump ABCB11 by directly recruiting histone methyltransferase CARM1 within its gene locus (By similarity).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei377 – 3771AgonistBy similarity
Binding sitei385 – 3851AgonistBy similarity
Binding sitei463 – 4631AgonistBy similarity
Binding sitei485 – 4851AgonistBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi135 – 21076Nuclear receptorPROSITE-ProRule annotationAdd
BLAST
Zinc fingeri138 – 15821NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri174 – 19825NR C4-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. bile acid binding Source: BHF-UCL
  2. bile acid receptor activity Source: Ensembl
  3. chenodeoxycholic acid binding Source: Ensembl
  4. ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity Source: BHF-UCL
  5. peptide binding Source: Ensembl
  6. retinoid X receptor binding Source: MGI
  7. RNA polymerase II distal enhancer sequence-specific DNA binding Source: Ensembl
  8. RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity Source: Ensembl
  9. RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription Source: Ensembl
  10. sequence-specific DNA binding transcription factor activity Source: MGI
  11. steroid hormone receptor activity Source: Ensembl
  12. thyroid hormone receptor activity Source: InterPro
  13. zinc ion binding Source: InterPro

GO - Biological processi

  1. bile acid metabolic process Source: MGI
  2. cellular response to bile acid Source: BHF-UCL
  3. cellular response to organonitrogen compound Source: BHF-UCL
  4. digestive tract development Source: Ensembl
  5. intracellular bile acid receptor signaling pathway Source: Ensembl
  6. intracellular receptor signaling pathway Source: BHF-UCL
  7. negative regulation of bile acid biosynthetic process Source: Ensembl
  8. negative regulation of transcription from RNA polymerase II promoter Source: BHF-UCL
  9. nitrogen catabolite activation of transcription from RNA polymerase II promoter Source: BHF-UCL
  10. positive regulation of ammonia assimilation cycle Source: BHF-UCL
  11. positive regulation of glutamate metabolic process Source: BHF-UCL
  12. positive regulation of transcription from RNA polymerase II promoter Source: BHF-UCL
  13. regulation of carbohydrate metabolic process Source: Ensembl
  14. regulation of transcription from RNA polymerase II promoter Source: MGI
  15. regulation of urea metabolic process Source: BHF-UCL
  16. response to glucose Source: Ensembl
  17. response to lipopolysaccharide Source: Ensembl
Complete GO annotation...

Keywords - Molecular functioni

Activator, Receptor, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiREACT_198602. PPARA activates gene expression.
REACT_203193. Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol.
REACT_207530. Synthesis of bile acids and bile salts.
REACT_226440. Synthesis of bile acids and bile salts via 27-hydroxycholesterol.
REACT_227038. Endogenous sterols.
REACT_234105. Nuclear Receptor transcription pathway.
REACT_239346. Recycling of bile acids and salts.
REACT_268398. Orphan transporters.

Names & Taxonomyi

Protein namesi
Recommended name:
Bile acid receptor
Alternative name(s):
Farnesoid X-activated receptor
Farnesol receptor HRR-1
Nuclear receptor subfamily 1 group H member 4
Retinoid X receptor-interacting protein 14
Short name:
RXR-interacting protein 14
Gene namesi
Name:Nr1h4
Synonyms:Bar, Fxr, Rip14
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 10

Organism-specific databases

MGIiMGI:1352464. Nr1h4.

Subcellular locationi

Nucleus Curated

GO - Cellular componenti

  1. nuclear euchromatin Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 488488Bile acid receptorPRO_0000053539Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei221 – 2211N6-methyllysine; by SETD7By similarity

Post-translational modificationi

Methylation may increase transactivation of target genes.By similarity

Keywords - PTMi

Methylation

Proteomic databases

PRIDEiQ60641.

PTM databases

PhosphoSiteiQ60641.

Expressioni

Tissue specificityi

Expressed specifically in liver and kidney.

Gene expression databases

BgeeiQ60641.
CleanExiMM_NR1H4.
ExpressionAtlasiQ60641. baseline and differential.
GenevestigatoriQ60641.

Interactioni

Subunit structurei

Interacts with CARM1 and SMARD1. After activation by agonist binding, interacts with a coactivator, NCOA1 or NCOA2 (By similarity) Heterodimer of NR1H4 and RXR.1 Publication

Protein-protein interaction databases

BioGridi203043. 7 interactions.
DIPiDIP-443N.

Structurei

3D structure databases

ProteinModelPortaliQ60641.
SMRiQ60641. Positions 129-487.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni258 – 476219Ligand-bindingBy similarityAdd
BLAST
Regioni344 – 3529Agonist bindingBy similarity

Sequence similaritiesi

Contains 1 nuclear receptor DNA-binding domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri138 – 15821NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri174 – 19825NR C4-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiNOG302915.
GeneTreeiENSGT00760000118837.
HOGENOMiHOG000220843.
HOVERGENiHBG108655.
InParanoidiQ60641.
KOiK08537.
OMAiMKPAKGV.
OrthoDBiEOG7DC25S.
TreeFamiTF316304.

Family and domain databases

Gene3Di1.10.565.10. 2 hits.
3.30.50.10. 1 hit.
InterProiIPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR001723. Str_hrmn_rcpt.
IPR001728. ThyrH_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR00398. STRDHORMONER.
PR00047. STROIDFINGER.
PR00546. THYROIDHORMR.
SMARTiSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMiSSF48508. SSF48508. 1 hit.
PROSITEiPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q60641-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MVMQFQGLEN PIQISLHHSH RLSGFVPEGM SVKPAKGMLT EHAAGPLGQN
60 70 80 90 100
LDLESYSPYN NVPFPQVQPQ ISSSSYYSNL GFYPQQPEDW YSPGIYELRR
110 120 130 140 150
MPAETGYQGE TEVSEMPVTK KPRMAAASAG RIKGDELCVV CGDRASGYHY
160 170 180 190 200
NALTCEGCKG FFRRSITKNA VYKCKNGGNC VMDMYMRRKC QECRLRKCKE
210 220 230 240 250
MGMLAECMYT GLLTEIQCKS KRLRKNVKQH ADQTANEDDS EGRDLRQVTS
260 270 280 290 300
TTKFCREKTE LTADQQTLLD YIMDSYNKQR MPQEITNKIL KEEFSAEENF
310 320 330 340 350
LILTEMATSH VQILVEFTKK LPGFQTLDHE DQIALLKGSA VEAMFLRSAE
360 370 380 390 400
IFNKKLPAGH ADLLEERIRK SGISDEYITP MFSFYKSVGE LKMTQEEYAL
410 420 430 440 450
LTAIVILSPD RQYIKDREAV EKLQEPLLDV LQKLCKMYQP ENPQHFACLL
460 470 480
GRLTELRTFN HHHAEMLMSW RVNDHKFTPL LCEIWDVQ
Length:488
Mass (Da):55,994
Last modified:July 27, 2011 - v3
Checksum:i3E59B7146F8ECC86
GO
Isoform 2 (identifier: Q60641-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     208-211: Missing.

Show »
Length:484
Mass (Da):55,542
Checksum:i06B56494305A438A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281E → D in AAC53066. (PubMed:7760852)Curated
Sequence conflicti28 – 281E → D in AAH15261. (PubMed:15489334)Curated
Sequence conflicti199 – 1991K → R in AAC53065. (PubMed:7760852)Curated
Sequence conflicti199 – 1991K → R in AAC53066. (PubMed:7760852)Curated
Sequence conflicti199 – 1991K → R in AAC52978. (PubMed:7760852)Curated
Sequence conflicti199 – 1991K → R in AAH15261. (PubMed:15489334)Curated
Sequence conflicti235 – 2351A → V in AAC53065. (PubMed:7760852)Curated
Sequence conflicti235 – 2351A → V in AAC53066. (PubMed:7760852)Curated
Sequence conflicti235 – 2351A → V in AAC52978. (PubMed:7760852)Curated
Sequence conflicti235 – 2351A → V in AAH15261. (PubMed:15489334)Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei208 – 2114Missing in isoform 2. 2 PublicationsVSP_003666

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U09416 mRNA. Translation: AAC53066.1.
U09417 mRNA. Translation: AAC53065.1.
U09418 mRNA. Translation: AAC52978.1.
AC152417 Genomic DNA. No translation available.
BC015261 mRNA. Translation: AAH15261.1.
CCDSiCCDS24116.1. [Q60641-2]
CCDS48668.1. [Q60641-1]
PIRiI49018.
I49019.
I49020.
RefSeqiNP_001157172.1. NM_001163700.1. [Q60641-1]
UniGeneiMm.3095.

Genome annotation databases

EnsembliENSMUST00000058126; ENSMUSP00000053092; ENSMUSG00000047638. [Q60641-2]
ENSMUST00000105296; ENSMUSP00000100933; ENSMUSG00000047638. [Q60641-1]
GeneIDi20186.
KEGGimmu:20186.
UCSCiuc007gsg.2. mouse. [Q60641-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U09416 mRNA. Translation: AAC53066.1 .
U09417 mRNA. Translation: AAC53065.1 .
U09418 mRNA. Translation: AAC52978.1 .
AC152417 Genomic DNA. No translation available.
BC015261 mRNA. Translation: AAH15261.1 .
CCDSi CCDS24116.1. [Q60641-2 ]
CCDS48668.1. [Q60641-1 ]
PIRi I49018.
I49019.
I49020.
RefSeqi NP_001157172.1. NM_001163700.1. [Q60641-1 ]
UniGenei Mm.3095.

3D structure databases

ProteinModelPortali Q60641.
SMRi Q60641. Positions 129-487.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 203043. 7 interactions.
DIPi DIP-443N.

Chemistry

BindingDBi Q60641.
ChEMBLi CHEMBL5343.

PTM databases

PhosphoSitei Q60641.

Proteomic databases

PRIDEi Q60641.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000058126 ; ENSMUSP00000053092 ; ENSMUSG00000047638 . [Q60641-2 ]
ENSMUST00000105296 ; ENSMUSP00000100933 ; ENSMUSG00000047638 . [Q60641-1 ]
GeneIDi 20186.
KEGGi mmu:20186.
UCSCi uc007gsg.2. mouse. [Q60641-1 ]

Organism-specific databases

CTDi 9971.
MGIi MGI:1352464. Nr1h4.

Phylogenomic databases

eggNOGi NOG302915.
GeneTreei ENSGT00760000118837.
HOGENOMi HOG000220843.
HOVERGENi HBG108655.
InParanoidi Q60641.
KOi K08537.
OMAi MKPAKGV.
OrthoDBi EOG7DC25S.
TreeFami TF316304.

Enzyme and pathway databases

Reactomei REACT_198602. PPARA activates gene expression.
REACT_203193. Synthesis of bile acids and bile salts via 7alpha-hydroxycholesterol.
REACT_207530. Synthesis of bile acids and bile salts.
REACT_226440. Synthesis of bile acids and bile salts via 27-hydroxycholesterol.
REACT_227038. Endogenous sterols.
REACT_234105. Nuclear Receptor transcription pathway.
REACT_239346. Recycling of bile acids and salts.
REACT_268398. Orphan transporters.

Miscellaneous databases

NextBioi 297725.
PROi Q60641.
SOURCEi Search...

Gene expression databases

Bgeei Q60641.
CleanExi MM_NR1H4.
ExpressionAtlasi Q60641. baseline and differential.
Genevestigatori Q60641.

Family and domain databases

Gene3Di 1.10.565.10. 2 hits.
3.30.50.10. 1 hit.
InterProi IPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR001723. Str_hrmn_rcpt.
IPR001728. ThyrH_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view ]
Pfami PF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view ]
PRINTSi PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
PR00546. THYROIDHORMR.
SMARTi SM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view ]
SUPFAMi SSF48508. SSF48508. 1 hit.
PROSITEi PS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation of proteins that interact specifically with the retinoid X receptor: two novel orphan receptors."
    Seol W., Choi H.S., Moore D.D.
    Mol. Endocrinol. 9:72-85(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), INTERACTION WITH RXR.
    Tissue: Liver.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Kidney.

Entry informationi

Entry nameiNR1H4_MOUSE
AccessioniPrimary (citable) accession number: Q60641
Secondary accession number(s): E9QJW2, Q60642, Q60643
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 27, 2002
Last sequence update: July 27, 2011
Last modified: November 26, 2014
This is version 141 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3