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Protein

Retinoic acid receptor RXR-beta

Gene

Rxrb

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

Functioni

Nuclear hormone receptor. Involved in the retinoic acid response pathway. Binds 9-cis retinoic acid (9C-RA). Binds to both, class I regulatory element of major histocompatibility class I genes (CRE) and the estrogen response element (ERE).

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi192 – 25766Nuclear receptorPROSITE-ProRule annotationAdd
BLAST
Zinc fingeri192 – 21221NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri228 – 25225NR C4-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. 9-cis retinoic acid receptor activity Source: MGI
  2. ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity Source: MGI
  3. protein homodimerization activity Source: MGI
  4. RNA polymerase II distal enhancer sequence-specific DNA binding Source: MGI
  5. RNA polymerase II regulatory region sequence-specific DNA binding Source: MGI
  6. RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: MGI
  7. sequence-specific DNA binding Source: MGI
  8. steroid hormone receptor activity Source: InterPro
  9. transcription regulatory region DNA binding Source: UniProtKB
  10. zinc ion binding Source: InterPro

GO - Biological processi

  1. cardiac muscle cell proliferation Source: MGI
  2. cellular response to retinoic acid Source: UniProtKB
  3. in utero embryonic development Source: MGI
  4. maternal placenta development Source: MGI
  5. positive regulation of transcription from RNA polymerase II promoter Source: MGI
  6. retinoic acid receptor signaling pathway Source: MGI
  7. ventricular cardiac muscle cell differentiation Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Receptor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiREACT_276696. Nuclear Receptor transcription pathway.
REACT_297274. Orphan transporters.
REACT_306383. Signaling by Retinoic Acid.

Names & Taxonomyi

Protein namesi
Recommended name:
Retinoic acid receptor RXR-beta
Alternative name(s):
MHC class I regulatory element-binding protein H-2RIIBP
Nuclear receptor subfamily 2 group B member 2
Retinoid X receptor beta
Gene namesi
Name:Rxrb
Synonyms:Nr2b2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 17

Organism-specific databases

MGIiMGI:98215. Rxrb.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 520520Retinoic acid receptor RXR-betaPRO_0000053573Add
BLAST

Proteomic databases

MaxQBiP28704.
PaxDbiP28704.
PRIDEiP28704.

PTM databases

PhosphoSiteiP28704.

Expressioni

Tissue specificityi

In all tissues tested including brain, thymus spleen and liver.

Gene expression databases

BgeeiP28704.
CleanExiMM_RXRB.
ExpressionAtlasiP28704. baseline and differential.
GenevestigatoriP28704.

Interactioni

Protein-protein interaction databases

BioGridi203039. 3 interactions.
IntActiP28704. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliP28704.
SMRiP28704. Positions 189-517.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 191191ModulatingBy similarityAdd
BLAST
Regioni258 – 31760HingeAdd
BLAST
Regioni318 – 520203Ligand-bindingBy similarityAdd
BLAST

Domaini

Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal ligand-binding domain.

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri192 – 21221NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri228 – 25225NR C4-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiNOG327099.
GeneTreeiENSGT00760000118948.
HOGENOMiHOG000260821.
HOVERGENiHBG005606.
InParanoidiP28704.
KOiK08525.
PhylomeDBiP28704.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR000003. Retinoid-X_rcpt/HNF4.
IPR001723. Str_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR00545. RETINOIDXR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
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. AlignAdd to basket

Note: Additional isoforms seem to exist.

Isoform Long (identifier: P28704-1) [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
MSWATRPPFL PPRHAAGQCG PVGVRKEMHC GVASRWRRRR PWLDPAAAAA
60 70 80 90 100
AAGEQQALEP EPGEAGRDGM GDSGRDSRSP DSSSPNPLSQ GIRPSSPPGP
110 120 130 140 150
PLTPSAPPPP MPPPPLGSPF PVISSSMGSP GLPPPAPPGF SGPVSSPQIN
160 170 180 190 200
STVSLPGGGS GPPEDVKPPV LGVRGLHCPP PPGGPGAGKR LCAICGDRSS
210 220 230 240 250
GKHYGVYSCE GCKGFFKRTI RKDLTYSCRD NKDCTVDKRQ RNRCQYCRYQ
260 270 280 290 300
KCLATGMKRE AVQEERQRGK DKDGDGDGAG GAPEEMPVDR ILEAELAVEQ
310 320 330 340 350
KSDQGVEGPG ATGGGGSSPN DPVTNICQAA DKQLFTLVEW AKRIPHFSSL
360 370 380 390 400
PLDDQVILLR AGWNELLIAS FSHRSIDVRD GILLATGLHV HRNSAHSAGV
410 420 430 440 450
GAIFDRVLTE LVSKMRDMRM DKTELGCLRA IILFNPDAKG LSNPGEVEIL
460 470 480 490 500
REKVYASLET YCKQKYPEQQ GRFAKLLLRL PALRSIGLKC LEHLFFFKLI
510 520
GDTPIDTFLM EMLEAPHQLA
Length:520
Mass (Da):55,866
Last modified:February 1, 1996 - v2
Checksum:i71FAEAEC0D2DB505
GO
Isoform Short (identifier: P28704-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-110: Missing.

Show »
Length:410
Mass (Da):44,396
Checksum:i76353141EEA68AB0
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti73 – 753SGR → MGP in AAA40081 (PubMed:1310259).Curated
Sequence conflicti75 – 773RDS → EFP in AAA37772 (PubMed:2554307).Curated
Sequence conflicti433 – 4331L → M in AAA40081 (PubMed:1310259).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 110110Missing in isoform Short. CuratedVSP_003678Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D21831 Genomic DNA. Translation: BAA04858.1.
D21831 Genomic DNA. Translation: BAA04859.1.
AF100956 Genomic DNA. Translation: AAC69904.1.
BC049773 mRNA. Translation: AAH49773.1.
M84818 mRNA. Translation: AAA40081.2.
M26804 mRNA. Translation: AAA37772.1.
X66224 mRNA. Translation: CAA46963.1.
CCDSiCCDS57068.1. [P28704-2]
PIRiA34418.
D41727.
I84718.
S26669.
RefSeqiNP_001192145.1. NM_001205216.1. [P28704-2]
NP_035436.1. NM_011306.4. [P28704-1]
UniGeneiMm.1243.

Genome annotation databases

EnsembliENSMUST00000116612; ENSMUSP00000112311; ENSMUSG00000039656. [P28704-2]
GeneIDi20182.
KEGGimmu:20182.
UCSCiuc008cax.2. mouse. [P28704-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D21831 Genomic DNA. Translation: BAA04858.1.
D21831 Genomic DNA. Translation: BAA04859.1.
AF100956 Genomic DNA. Translation: AAC69904.1.
BC049773 mRNA. Translation: AAH49773.1.
M84818 mRNA. Translation: AAA40081.2.
M26804 mRNA. Translation: AAA37772.1.
X66224 mRNA. Translation: CAA46963.1.
CCDSiCCDS57068.1. [P28704-2]
PIRiA34418.
D41727.
I84718.
S26669.
RefSeqiNP_001192145.1. NM_001205216.1. [P28704-2]
NP_035436.1. NM_011306.4. [P28704-1]
UniGeneiMm.1243.

3D structure databases

ProteinModelPortaliP28704.
SMRiP28704. Positions 189-517.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi203039. 3 interactions.
IntActiP28704. 1 interaction.

Chemistry

BindingDBiP28704.
ChEMBLiCHEMBL4047.
GuidetoPHARMACOLOGYi611.

PTM databases

PhosphoSiteiP28704.

Proteomic databases

MaxQBiP28704.
PaxDbiP28704.
PRIDEiP28704.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000116612; ENSMUSP00000112311; ENSMUSG00000039656. [P28704-2]
GeneIDi20182.
KEGGimmu:20182.
UCSCiuc008cax.2. mouse. [P28704-1]

Organism-specific databases

CTDi6257.
MGIiMGI:98215. Rxrb.

Phylogenomic databases

eggNOGiNOG327099.
GeneTreeiENSGT00760000118948.
HOGENOMiHOG000260821.
HOVERGENiHBG005606.
InParanoidiP28704.
KOiK08525.
PhylomeDBiP28704.

Enzyme and pathway databases

ReactomeiREACT_276696. Nuclear Receptor transcription pathway.
REACT_297274. Orphan transporters.
REACT_306383. Signaling by Retinoic Acid.

Miscellaneous databases

NextBioi297709.
PROiP28704.
SOURCEiSearch...

Gene expression databases

BgeeiP28704.
CleanExiMM_RXRB.
ExpressionAtlasiP28704. baseline and differential.
GenevestigatoriP28704.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR000003. Retinoid-X_rcpt/HNF4.
IPR001723. Str_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR00545. RETINOIDXR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The mouse Rxrb gene encoding RXR beta: genomic organization and two mRNA isoforms generated by alternative splicing of transcripts initiated from CpG island promoters."
    Nagata T., Kanno Y., Ozato K., Taketo M.
    Gene 142:183-189(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], ALTERNATIVE SPLICING.
    Strain: BALB/c.
    Tissue: Liver.
  2. "Sequence of the mouse major histocomaptibility locus class II region."
    Rowen L., Qin S., Madan A., Loretz C., James R., Dors M., Mix L., Hall J., Lasky S., Hood L.
    Submitted (OCT-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 129/SvJ.
  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 LONG).
    Tissue: Limb.
  4. "Purification, cloning, and RXR identity of the HeLa cell factor with which RAR or TR heterodimerizes to bind target sequences efficiently."
    Leid M., Kastner P., Lyons R., Nakshatri H., Saunders M., Zacharewsi T., Chen J.Y., Staub A., Garnier J.-M., Mader S., Chambon P.
    Cell 68:377-395(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 73-520 (ISOFORM LONG).
    Tissue: Embryo.
  5. "H-2RIIBP, a member of the nuclear hormone receptor superfamily that binds to both the regulatory element of major histocompatibility class I genes and the estrogen response element."
    Hamada K., Gleason S.L., Levi B.-Z., Hirschfeld S., Appella E., Ozato K.
    Proc. Natl. Acad. Sci. U.S.A. 86:8289-8293(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 75-520 (ISOFORM LONG).
    Tissue: Liver.
  6. "Characterization of three RXR genes that mediate the action of 9-cis retinoic acid."
    Mangelsdorf D.J., Borgmeyer U., Heyman R.A., Zhou J.Y., Ong E.S., Oro A.E., Kakizuka A., Evans R.M.
    Genes Dev. 6:329-344(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE (ISOFORM SHORT).
    Tissue: Liver.

Entry informationi

Entry nameiRXRB_MOUSE
AccessioniPrimary (citable) accession number: P28704
Secondary accession number(s): P33243
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: February 1, 1996
Last modified: April 1, 2015
This is version 157 of the entry and version 2 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.