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Aliases for RXRB Gene

Aliases for RXRB Gene

  • Retinoid X Receptor, Beta 2 3
  • Nuclear Receptor Subfamily 2 Group B Member 2 2 3 4
  • NR2B2 3 4
  • MHC Class I Promoter Binding Protein 3
  • Retinoic Acid Receptor RXR-Beta 3
  • Retinoid X Receptor Beta 4
  • H-2RIIBP 3
  • DAUDI6 3
  • RCoR-1 3

External Ids for RXRB Gene

Previous GeneCards Identifiers for RXRB Gene

  • GC06M033164
  • GC06M033208
  • GC06M033270
  • GC06M032877

Summaries for RXRB Gene

Entrez Gene Summary for RXRB Gene

  • This gene encodes a member of the retinoid X receptor (RXR) family of nuclear receptors which are involved in mediating the effects of retinoic acid (RA). The encoded protein forms homodimers with the retinoic acid, thyroid hormone, and vitamin D receptors, increasing both DNA binding and transcriptional function on their respective response elements. This gene lies within the major histocompatibility complex (MHC) class II region on chromosome 6. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jul 2012]

GeneCards Summary for RXRB Gene

RXRB (Retinoid X Receptor, Beta) is a Protein Coding gene. Diseases associated with RXRB include x-linked adrenal hypoplasia congenita and wegener granulomatosis. Among its related pathways are Pathways in cancer and Apoptotic Pathways in Synovial Fibroblasts. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and transcription coactivator activity. An important paralog of this gene is RXRG.

UniProtKB/Swiss-Prot for RXRB Gene

  • 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 RAR/RXR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5-AGGTCA-3 sites known as DR1-DR5 (By similarity). Specifically binds 9-cis retinoic acid (9C-RA).

Tocris Summary for RXRB Gene

  • Retinoid X receptors (RXR) are members of the NR2B family of nuclear receptors and are common binding partners to many other nuclear receptors, including PPARs, liver X receptors (LXRs) and vitamin D receptors (VDR). RXR heterodimers act as ligand-dependent transcriptional regulators and increase the DNA-binding efficiency of its partner. Despite numerous studies, the physiological role of RXRs have yet to been fully elucidated and, as they can also exist as homodimers, there is the possibility that an independent RXR signaling pathway exists. There are three RXR subtypes; RXRalpha, RXRbeta and RXRgamma, each with two major isoforms (1 and 2). RXRalpha is expressed in the liver, kidney, epidermis and intestine, RXRbeta is widely distributed and RXRgamma is restricted to muscle, pituitary gland and certain parts of the brain.

Gene Wiki entry for RXRB Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RXRB Gene

Genomics for RXRB Gene

Regulatory Elements for RXRB Gene

Transcription factor binding sites by QIAGEN in the RXRB gene promoter:

Genomic Location for RXRB Gene

Start:
33,193,585 bp from pter
End:
33,200,696 bp from pter
Size:
7,112 bases
Orientation:
Minus strand

Genomic View for RXRB Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RXRB Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for RXRB Gene

  • Protein details for RXRB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P28702-RXRB_HUMAN
    Recommended name:
    Retinoic acid receptor RXR-beta
    Protein Accession:
    P28702
    Secondary Accessions:
    • P28703
    • Q59G65
    • Q5JP92
    • Q5STQ1

    Protein attributes for RXRB Gene

    Size:
    533 amino acids
    Molecular mass:
    56922 Da
    Quaternary structure:
    • Homodimer (By similarity). Heterodimer with a RAR molecule. Binds DNA preferentially as a RAR/RXR heterodimer.
    SequenceCaution:
    • Sequence=BAD92481.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for RXRB Gene

    Alternative splice isoforms for RXRB Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RXRB Gene

Proteomics data for RXRB Gene at MOPED

Post-translational modifications for RXRB Gene

  • Ubiquitination at Lys452 and Lys488
  • Modification sites at PhosphoSitePlus

Other Protein References for RXRB Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for RXRB Gene

Domains for RXRB Gene

Gene Families for RXRB Gene

HGNC:
  • NR :Nuclear hormone receptors
IUPHAR :

Graphical View of Domain Structure for InterPro Entry

P28702

UniProtKB/Swiss-Prot:

RXRB_HUMAN :
  • P28702
Domain:
  • Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal ligand-binding domain
  • Contains 1 nuclear receptor DNA-binding domain.
Family:
  • Belongs to the nuclear hormone receptor family. NR2 subfamily.
genes like me logo Genes that share domains with RXRB: view

Function for RXRB Gene

Molecular function for RXRB Gene

GENATLAS Biochemistry: retinoic acid X receptor binding and activated by 9-cis-retinoic acid,only (9-cis-RA),beta subunit,obligate member of heterodimeric nuclear receptors,steroid/thyroid/retinoic receptor superfamily
UniProtKB/Swiss-Prot 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 RAR/RXR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5-AGGTCA-3 sites known as DR1-DR5 (By similarity). Specifically binds 9-cis retinoic acid (9C-RA).

Gene Ontology (GO) - Molecular Function for RXRB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IDA 12767074
GO:0000980 RNA polymerase II distal enhancer sequence-specific DNA binding IEA --
GO:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription IDA 12767074
GO:0003700 sequence-specific DNA binding transcription factor activity NAS 1662118
GO:0003707 steroid hormone receptor activity IEA --
genes like me logo Genes that share ontologies with RXRB: view
genes like me logo Genes that share phenotypes with RXRB: view

Animal Models for RXRB Gene

MGI Knock Outs for RXRB:

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for RXRB Gene

Localization for RXRB Gene

Subcellular locations from UniProtKB/Swiss-Prot for RXRB Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RXRB Gene COMPARTMENTS Subcellular localization image for RXRB gene
Compartment Confidence
nucleus 5
cytosol 2
peroxisome 2

Gene Ontology (GO) - Cellular Components for RXRB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 7990953
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with RXRB: view

Pathways for RXRB Gene

genes like me logo Genes that share pathways with RXRB: view

Gene Ontology (GO) - Biological Process for RXRB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0001893 maternal placenta development IEA --
GO:0006355 regulation of transcription, DNA-templated --
GO:0006367 transcription initiation from RNA polymerase II promoter TAS --
GO:0010467 gene expression TAS --
genes like me logo Genes that share ontologies with RXRB: view

Compounds for RXRB Gene

(5) Tocris Compounds for RXRB Gene

Compound Action Cas Number
CD 3254 Potent and selective RXRalpha agonist. [196961-43-0]
Docosahexaenoic acid RXR agonist [6217-54-5]
HX 531 Potent RXR antagonist [188844-34-0]
PA 452 RXR antagonist [457657-34-0]
UVI 3003 RXR antagonist [847239-17-2]

(2) HMDB Compounds for RXRB Gene

Compound Synonyms Cas Number PubMed IDs
9-cis-Retinoic acid
  • Tretinoin [usan:ban:inn]
Not Available
Retinoic acid
  • Retinoate
302-79-4

(11) Drugbank Compounds for RXRB Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
(2E,4E)-11-METHOXY-3,7,11-TRIMETHYLDODECA-2,4-DIENOIC ACID
target
6-[1-(3,5,5,8,8-Pentamethyl-5,6,7,8-Tetrahydronaphthalen-2-Yl)Cyclopropyl]Pyridine-3-Carboxylic Acid
target
Acitretin
55079-83-9 target agonist
Adapalene
  • Adapaleno [INN-Spanish]
106685-40-9 target agonist
Alitretinoin
  • 9-cis-Retinoic acid
5300-03-8 target agonist

(2) IUPHAR Ligand for RXRB Gene

Ligand Type Action Affinity Pubmed IDs
LG100754 Antagonist Antagonist 8.47
bexarotene Agonist Agonist 7.54

(5) Novoseek inferred chemical compound relationships for RXRB Gene

Compound -log(P) Hits PubMed IDs
retinoic acid 75 19
retinoid 70.9 5
vitamin d 46.2 4
oligonucleotide 0.95 1
estrogen 0 3
genes like me logo Genes that share compounds with RXRB: view

Transcripts for RXRB Gene

Unigene Clusters for RXRB Gene

Retinoid X receptor, beta:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RXRB Gene

No ASD Table

Relevant External Links for RXRB Gene

GeneLoc Exon Structure for
RXRB
ECgene alternative splicing isoforms for
RXRB

Expression for RXRB Gene

mRNA expression in normal human tissues for RXRB Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RXRB Gene

SOURCE GeneReport for Unigene cluster for RXRB Gene Hs.388034

mRNA Expression by UniProt/SwissProt for RXRB Gene

P28702-RXRB_HUMAN
Tissue specificity: Expressed in a variety of tumor cell lines.
genes like me logo Genes that share expressions with RXRB: view

No data available for mRNA differential expression in normal tissues for RXRB Gene

Orthologs for RXRB Gene

This gene was present in the common ancestor of animals.

Orthologs for RXRB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RXRB 35
  • 99.69 (n)
  • 100 (a)
RXRB 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RXRB 35
  • 93.11 (n)
  • 98.12 (a)
RXRB 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RXRB 35
  • 95.21 (n)
  • 98.69 (a)
RXRB 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rxrb 35
  • 91.67 (n)
  • 96.56 (a)
Rxrb 16
Rxrb 36
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RXRB 36
  • 93 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rxrb 35
  • 90.35 (n)
  • 96.14 (a)
lizard
(Anolis carolinensis)
Reptilia RXRB 36
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rxrb 35
  • 73.24 (n)
  • 87.84 (a)
zebrafish
(Danio rerio)
Actinopterygii -- 35
rxrba 35
  • 73.12 (n)
  • 82.49 (a)
rxrba 36
  • 73 (a)
OneToMany
rxrbb 36
  • 70 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta usp 36
  • 40 (a)
OneToMany
usp 37
  • 47 (a)
worm
(Caenorhabditis elegans)
Secernentea nhr-69 37
  • 34 (a)
nhr-14 37
  • 33 (a)
Species with no ortholog for RXRB:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RXRB Gene

ENSEMBL:
Gene Tree for RXRB (if available)
TreeFam:
Gene Tree for RXRB (if available)

Paralogs for RXRB Gene

Paralogs for RXRB Gene

genes like me logo Genes that share paralogs with RXRB: view

Variants for RXRB Gene

Sequence variations from dbSNP and Humsavar for RXRB Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs6531 -- 33,195,674(-) TCCTT(C/T)TCACA reference, synonymous-codon
rs1804414 -- 33,194,986(-) TCACT(G/T)GAGAC reference, synonymous-codon
rs2076310 -- 33,198,257(-) TATCA(C/T)CACCT intron-variant
rs2735325 -- 33,195,194(-) ACCCA(A/G)TGGGC intron-variant
rs2744523 -- 33,198,563(-) CATTG(A/C/T)AGGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RXRB Gene

Variant ID Type Subtype PubMed ID
nsv885768 CNV Loss 21882294
nsv830634 CNV Loss 17160897
nsv522719 CNV Loss 19592680

Relevant External Links for RXRB Gene

HapMap Linkage Disequilibrium report
RXRB

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RXRB Gene

Disorders for RXRB Gene

MalaCards: The human disease database

MalaCards: The human disease database. (2) Diseases for RXRB Gene including...

Search for RXRB Gene in MalaCards »

(1) University of Copenhagen DISEASES for RXRB Gene

(5) Novoseek inferred disease relationships for RXRB Gene

Disease -log(P) Hits PubMed IDs
wegeners granulomatosis 44.7 1
vasculitis 25.7 2
schizophrenia 0 2
breast cancer 0 1
tumors 0 1

Relevant External Links for RXRB

Genetic Association Database (GAD)
RXRB
Human Genome Epidemiology (HuGE) Navigator
RXRB
genes like me logo Genes that share disorders with RXRB: view

No data available for UniProtKB/Swiss-Prot for RXRB Gene

Publications for RXRB Gene

  1. Mapping of RXRB to human chromosome 6p21.3. (PMID: 8257090) Fitzgibbon J. … Povey S. (Ann. Hum. Genet. 1993) 2 3 23
  2. Cloning and chromosome mapping of human retinoid X receptor beta: selective amino acid sequence conservation of a nuclear hormone receptor in mammals. (PMID: 8381386) Fleischhauer K. … Yang S.Y. (Hum. Genet. 1993) 3 4 23
  3. Isolation of a full-length cDNA clone encoding a N-terminally variant form of the human retinoid X receptor beta. (PMID: 1315958) Fleischhauer K. … Yang S.Y. (Nucleic Acids Res. 1992) 3 4 23
  4. Purification, cloning, and RXR identity of the HeLa cell factor with which RAR or TR heterodimerizes to bind target sequences efficiently. (PMID: 1310259) Leid M. … Chambon P. (Cell 1992) 3 4 23
  5. Mutation analysis of the retinoid X receptor beta, nuclear-related receptor 1, and peroxisome proliferator-activated receptor alpha genes in schizophrenia and alcohol dependence: possible haplotype association of nuclear-related receptor 1 gene to alcohol dependence. (PMID: 11840500) Ishiguro H. … Arinami T. (Am. J. Med. Genet. 2002) 3 23 48

Products for RXRB Gene

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