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Protein

Retinoic acid receptor RXR-beta-B

Gene

rxrbb

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

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. The high affinity ligand for rxrs is 9-cis retinoic acid (By similarity).By similarity1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi90 – 155Nuclear receptorPROSITE-ProRule annotationAdd BLAST66
Zinc fingeri90 – 110NR C4-typePROSITE-ProRule annotationAdd BLAST21
Zinc fingeri126 – 150NR C4-typePROSITE-ProRule annotationAdd BLAST25

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Receptor, Repressor
Biological processTranscription, Transcription regulation
LigandMetal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Retinoic acid receptor RXR-beta-B
Alternative name(s):
Nuclear receptor subfamily 2 group B member 2-B
Retinoic acid receptor RXR-delta
Retinoid X receptor beta-B
Retinoid X receptor delta
Gene namesi
Name:rxrbb
Synonyms:nr2b2b, rxrd
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Unplaced

Organism-specific databases

ZFINiZDB-GENE-990415-242 rxrbb

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000535811 – 422Retinoic acid receptor RXR-beta-BAdd BLAST422

Proteomic databases

PaxDbiQ90417

Expressioni

Tissue specificityi

Shows uniform expression from the blastula to mid-gastrula stages. At 12 hours post-fertilization (hpf), expressed ubiquitously but more weakly. At 24 hpf, restricted to the ventral diencephalon, pharangeal endoderm and trunk and tail mesoderm; mesoderm expression is in medial cells of each somite along the dorsoventral axis, forming stripes. At 48 hpf, expressed in forebrain, eye, midbrain and anterior hindbrain.1 Publication

Developmental stagei

Expressed both maternally and zygotically.2 Publications

Interactioni

Subunit structurei

Homodimer (By similarity). Heterodimer; with a rar molecule (By similarity). Binds DNA preferentially as a rar/rxr heterodimer (By similarity). Heterodimerizes with rarga.By similarity

Protein-protein interaction databases

STRINGi7955.ENSDARP00000022973

Structurei

3D structure databases

ProteinModelPortaliQ90417
SMRiQ90417
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini181 – 421NR LBDPROSITE-ProRule annotationAdd BLAST241

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 89ModulatingBy similarityAdd BLAST89
Regioni156 – 178HingeBy similarityAdd BLAST23

Domaini

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

Sequence similaritiesi

Belongs to the nuclear hormone receptor family. NR2 subfamily.Sequence analysis

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri90 – 110NR C4-typePROSITE-ProRule annotationAdd BLAST21
Zinc fingeri126 – 150NR C4-typePROSITE-ProRule annotationAdd BLAST25

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3575 Eukaryota
ENOG410XRZC LUCA
HOGENOMiHOG000260821
HOVERGENiHBG005606
InParanoidiQ90417
PhylomeDBiQ90417

Family and domain databases

Gene3Di3.30.50.10, 1 hit
InterProiView protein in InterPro
IPR035500 NHR_like_dom_sf
IPR021780 Nuc_recep-AF1
IPR000536 Nucl_hrmn_rcpt_lig-bd
IPR001723 Nuclear_hrmn_rcpt
IPR000003 Retinoid-X_rcpt/HNF4
IPR001628 Znf_hrmn_rcpt
IPR013088 Znf_NHR/GATA
PfamiView protein in Pfam
PF00104 Hormone_recep, 1 hit
PF11825 Nuc_recep-AF1, 1 hit
PF00105 zf-C4, 1 hit
PRINTSiPR00545 RETINOIDXR
PR00398 STRDHORMONER
PR00047 STROIDFINGER
SMARTiView protein in SMART
SM00430 HOLI, 1 hit
SM00399 ZnF_C4, 1 hit
SUPFAMiSSF48508 SSF48508, 1 hit
PROSITEiView protein in PROSITE
PS51843 NR_LBD, 1 hit
PS00031 NUCLEAR_REC_DBD_1, 1 hit
PS51030 NUCLEAR_REC_DBD_2, 1 hit

Sequencei

Sequence statusi: Complete.

Q90417-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNSLPPSTSA VSSPVSSVDS PLSAVSSSIG SPGVPGTPSI GYGPISNSQI
60 70 80 90 100
NSSMSVSRLH AVSSSDDVKP PFGLKSVSGS GPMLSQKRMC AICGDRSSGK
110 120 130 140 150
HYGVYSCEGC KGFFKRTVRK DLSYTCRDNK ECLVDKRQRN RCQYCRYQKC
160 170 180 190 200
LAMGMKREAV QEERQKNKER DGDYECSSSA NEEMPVEKIL EAETAVEHRT
210 220 230 240 250
DLHSDATGSP NDPVTNICQA ADKQLFTLVE WAKRVPHFSD VPLDDQVILL
260 270 280 290 300
RAGWNELLIA AFSHRSISVK DEILLATGLH VPKESTHNLG VEAFFDRESS
310 320 330 340 350
HSAEVGALFD RVLTELVCKM RDMQMDKTEL GCLRAIVLFN PDAKGLTSSS
360 370 380 390 400
EVELLREKVY ASLESYCKQK YPDQQGRFAK LLLRLPALRS IGLKCLEHLF
410 420
FFKLIGNTPI DTFLMEMLES PH
Length:422
Mass (Da):46,732
Last modified:November 1, 1996 - v1
Checksum:i6CCDBA3CE29C7238
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29941 mRNA Translation: AAC59721.1
PIRiI50516
RefSeqiNP_571313.1, NM_131238.1
UniGeneiDr.350

Genome annotation databases

GeneIDi30486
KEGGidre:30486

Similar proteinsi

Entry informationi

Entry nameiRXRBB_DANRE
AccessioniPrimary (citable) accession number: Q90417
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 27, 2004
Last sequence update: November 1, 1996
Last modified: March 28, 2018
This is version 120 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health