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Q60641

- NR1H4_MOUSE

UniProt

Q60641 - NR1H4_MOUSE

Protein

Bile acid receptor

Gene

Nr1h4

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 139 (01 Oct 2014)
      Sequence version 3 (27 Jul 2011)
      Previous versions | rss
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    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 acid chemical 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

    Keywords - Molecular functioni

    Activator, Receptor, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding, Metal-binding, Zinc

    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

    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.
    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.
    GeneTreeiENSGT00720000108423.
    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

    MVMQFQGLEN PIQISLHHSH RLSGFVPEGM SVKPAKGMLT EHAAGPLGQN    50
    LDLESYSPYN NVPFPQVQPQ ISSSSYYSNL GFYPQQPEDW YSPGIYELRR 100
    MPAETGYQGE TEVSEMPVTK KPRMAAASAG RIKGDELCVV CGDRASGYHY 150
    NALTCEGCKG FFRRSITKNA VYKCKNGGNC VMDMYMRRKC QECRLRKCKE 200
    MGMLAECMYT GLLTEIQCKS KRLRKNVKQH ADQTANEDDS EGRDLRQVTS 250
    TTKFCREKTE LTADQQTLLD YIMDSYNKQR MPQEITNKIL KEEFSAEENF 300
    LILTEMATSH VQILVEFTKK LPGFQTLDHE DQIALLKGSA VEAMFLRSAE 350
    IFNKKLPAGH ADLLEERIRK SGISDEYITP MFSFYKSVGE LKMTQEEYAL 400
    LTAIVILSPD RQYIKDREAV EKLQEPLLDV LQKLCKMYQP ENPQHFACLL 450
    GRLTELRTFN HHHAEMLMSW RVNDHKFTPL LCEIWDVQ 488
    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:
    EMBL
    GenBank
    DDBJ
    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:
    EMBL
    GenBank
    DDBJ
    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 ENSGT00720000108423.
    HOGENOMi HOG000220843.
    HOVERGENi HBG108655.
    InParanoidi Q60641.
    KOi K08537.
    OMAi MKPAKGV.
    OrthoDBi EOG7DC25S.
    TreeFami TF316304.

    Miscellaneous databases

    NextBioi 297725.
    PROi Q60641.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q60641.
    CleanExi MM_NR1H4.
    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

    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: October 1, 2014
    This is version 139 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