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Protein

Retinoic acid receptor RXR-beta

Gene

RXRB

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein 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).1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi205 – 270Nuclear receptorPROSITE-ProRule annotationAdd BLAST66
Zinc fingeri205 – 225NR C4-typePROSITE-ProRule annotationAdd BLAST21
Zinc fingeri241 – 265NR C4-typePROSITE-ProRule annotationAdd BLAST25

GO - Molecular functioni

  • 9-cis retinoic acid receptor activity Source: ProtInc
  • RNA polymerase II regulatory region sequence-specific DNA binding Source: NTNU_SB
  • RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding Source: BHF-UCL
  • steroid hormone receptor activity Source: InterPro
  • transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding Source: NTNU_SB
  • transcription coactivator activity Source: ProtInc
  • transcription factor activity, sequence-specific DNA binding Source: ProtInc
  • zinc ion binding Source: InterPro

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Receptor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:G66-32364-MONOMER.
ReactomeiR-HSA-383280. Nuclear Receptor transcription pathway.
R-HSA-5362517. Signaling by Retinoic Acid.
SignaLinkiP28702.
SIGNORiP28702.

Names & Taxonomyi

Protein namesi
Recommended name:
Retinoic acid receptor RXR-beta
Alternative name(s):
Nuclear receptor subfamily 2 group B member 2
Retinoid X receptor beta
Gene namesi
Name:RXRB
Synonyms:NR2B2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:10478. RXRB.

Subcellular locationi

GO - Cellular componenti

  • nucleoplasm Source: Reactome
  • nucleus Source: HGNC
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi6257.
OpenTargetsiENSG00000204231.
ENSG00000206289.
ENSG00000227322.
ENSG00000228333.
ENSG00000231321.
ENSG00000235712.
PharmGKBiPA34891.

Chemistry databases

ChEMBLiCHEMBL1870.
DrugBankiDB00459. Acitretin.
DB00210. Adapalene.
DB00523. Alitretinoin.
DB00307. Bexarotene.
DB00799. Tazarotene.
DB00755. Tretinoin.
GuidetoPHARMACOLOGYi611.

Polymorphism and mutation databases

BioMutaiRXRB.
DMDMi1350911.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000535721 – 533Retinoic acid receptor RXR-betaAdd BLAST533

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei25Omega-N-methylarginineCombined sources1

Keywords - PTMi

Methylation

Proteomic databases

EPDiP28702.
PaxDbiP28702.
PeptideAtlasiP28702.
PRIDEiP28702.

PTM databases

iPTMnetiP28702.
PhosphoSitePlusiP28702.

Expressioni

Tissue specificityi

Expressed in a variety of tumor cell lines.1 Publication

Gene expression databases

BgeeiENSG00000204231.
CleanExiHS_RXRB.
ExpressionAtlasiP28702. baseline and differential.
GenevisibleiP28702. HS.

Organism-specific databases

HPAiCAB002003.
HPA063653.

Interactioni

Subunit structurei

Homodimer (in vitro) (PubMed:11782480). Heterodimer with other retinoic acid receptor family members. Binds DNA preferentially as a RAR/RXR heterodimer (PubMed:1310259). Interacts with NR1H3 (PubMed:12970175). Interacts with AKAP13 (By similarity).By similarity3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CACNA1BQ009753EBI-748576,EBI-1055161
NR1H2F1D8P74EBI-748576,EBI-10177172
NR1H3Q13133-34EBI-748576,EBI-11952806
RARAP102768EBI-748576,EBI-413374
RARBP10826-24EBI-748576,EBI-8583223

Protein-protein interaction databases

BioGridi112169. 37 interactors.
IntActiP28702. 48 interactors.
MINTiMINT-1365658.
STRINGi9606.ENSP00000363812.

Chemistry databases

BindingDBiP28702.

Structurei

Secondary structure

1533
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi301 – 309Combined sources9
Helixi336 – 355Combined sources20
Turni358 – 362Combined sources5
Helixi365 – 387Combined sources23
Beta strandi390 – 396Combined sources7
Beta strandi402 – 404Combined sources3
Helixi405 – 410Combined sources6
Helixi414 – 423Combined sources10
Helixi425 – 430Combined sources6
Helixi435 – 446Combined sources12
Helixi457 – 478Combined sources22
Helixi485 – 490Combined sources6
Helixi493 – 512Combined sources20
Helixi520 – 525Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1H9UX-ray2.70A/B/C/D299-522[»]
1UHLX-ray2.90A298-533[»]
5HJPX-ray2.60A/C299-533[»]
5I4VX-ray2.61B/F293-528[»]
5KYAX-ray2.60B/F293-528[»]
5KYJX-ray2.80B/F293-528[»]
ProteinModelPortaliP28702.
SMRiP28702.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP28702.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 204ModulatingBy similarityAdd BLAST204
Regioni271 – 330HingeAdd BLAST60
Regioni331 – 533Ligand-binding1 PublicationAdd BLAST203

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi61 – 198Pro-richAdd BLAST138

Domaini

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

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri205 – 225NR C4-typePROSITE-ProRule annotationAdd BLAST21
Zinc fingeri241 – 265NR C4-typePROSITE-ProRule annotationAdd BLAST25

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3575. Eukaryota.
ENOG410XRZC. LUCA.
GeneTreeiENSGT00760000118948.
HOGENOMiHOG000260821.
HOVERGENiHBG005606.
InParanoidiP28702.
KOiK08525.
OMAiWATRPPF.
OrthoDBiEOG091G0YX6.
PhylomeDBiP28702.
TreeFamiTF352097.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR000536. Nucl_hrmn_rcpt_lig-bd.
IPR001723. Nuclear_hrmn_rcpt.
IPR000003. Retinoid-X_rcpt/HNF4.
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

Isoform 1 (identifier: P28702-1) [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
MSWAARPPFL PQRHAAGQCG PVGVRKEMHC GVASRWRRRR PWLDPAAAAA
60 70 80 90 100
AAVAGGEQQT PEPEPGEAGR DGMGDSGRDS RSPDSSSPNP LPQGVPPPSP
110 120 130 140 150
PGPPLPPSTA PSLGGSGAPP PPPMPPPPLG SPFPVISSSM GSPGLPPPAP
160 170 180 190 200
PGFSGPVSSP QINSTVSLPG GGSGPPEDVK PPVLGVRGLH CPPPPGGPGA
210 220 230 240 250
GKRLCAICGD RSSGKHYGVY SCEGCKGFFK RTIRKDLTYS CRDNKDCTVD
260 270 280 290 300
KRQRNRCQYC RYQKCLATGM KREAVQEERQ RGKDKDGDGE GAGGAPEEMP
310 320 330 340 350
VDRILEAELA VEQKSDQGVE GPGGTGGSGS SPNDPVTNIC QAADKQLFTL
360 370 380 390 400
VEWAKRIPHF SSLPLDDQVI LLRAGWNELL IASFSHRSID VRDGILLATG
410 420 430 440 450
LHVHRNSAHS AGVGAIFDRV LTELVSKMRD MRMDKTELGC LRAIILFNPD
460 470 480 490 500
AKGLSNPSEV EVLREKVYAS LETYCKQKYP EQQGRFAKLL LRLPALRSIG
510 520 530
LKCLEHLFFF KLIGDTPIDT FLMEMLEAPH QLA
Length:533
Mass (Da):56,922
Last modified:February 1, 1996 - v2
Checksum:iD0069FE93AC16A04
GO
Isoform 2 (identifier: P28702-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     418-418: D → DRSLS

Show »
Length:537
Mass (Da):57,365
Checksum:iE6789FB00428DA2C
GO

Sequence cautioni

The sequence BAD92481 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti112S → T in AAA60293 (PubMed:1310259).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_045587418D → DRSLS in isoform 2. 2 Publications1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M84820 mRNA. Translation: AAA60293.1.
X63522 mRNA. Translation: CAA45087.1.
AF065396 Genomic DNA. Translation: AAC18599.1.
AF120161 Genomic DNA. Translation: AAD13794.1.
HQ709179 mRNA. Translation: ADZ17386.1.
AB209244 mRNA. Translation: BAD92481.1. Different initiation.
AL031228 Genomic DNA. Translation: CAA20239.1.
AL844527 Genomic DNA. Translation: CAI41836.2.
CR936877 Genomic DNA. Translation: CAQ09065.1.
CR759733 Genomic DNA. Translation: CAQ10299.1.
CR354565 Genomic DNA. Translation: CAQ11083.1.
AL645940 Genomic DNA. No translation available.
AL662824 Genomic DNA. No translation available.
BC001167 mRNA. Translation: AAH01167.1.
X66424 mRNA. No translation available.
CCDSiCCDS4768.1. [P28702-1]
CCDS59007.1. [P28702-3]
PIRiS37781.
RefSeqiNP_001257330.1. NM_001270401.1. [P28702-3]
NP_068811.1. NM_021976.4. [P28702-1]
UniGeneiHs.388034.

Genome annotation databases

EnsembliENST00000374680; ENSP00000363812; ENSG00000204231. [P28702-1]
ENST00000374685; ENSP00000363817; ENSG00000204231. [P28702-3]
ENST00000383216; ENSP00000372703; ENSG00000206289. [P28702-3]
ENST00000383217; ENSP00000372704; ENSG00000206289. [P28702-1]
ENST00000415157; ENSP00000402506; ENSG00000228333. [P28702-1]
ENST00000415909; ENSP00000410468; ENSG00000235712. [P28702-1]
ENST00000431161; ENSP00000393286; ENSG00000235712. [P28702-3]
ENST00000431820; ENSP00000411238; ENSG00000231321. [P28702-1]
ENST00000436753; ENSP00000415199; ENSG00000227322. [P28702-1]
ENST00000443603; ENSP00000402590; ENSG00000227322. [P28702-3]
ENST00000455462; ENSP00000400104; ENSG00000228333. [P28702-3]
ENST00000456244; ENSP00000393870; ENSG00000231321. [P28702-3]
GeneIDi6257.
KEGGihsa:6257.
UCSCiuc003odc.5. human. [P28702-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M84820 mRNA. Translation: AAA60293.1.
X63522 mRNA. Translation: CAA45087.1.
AF065396 Genomic DNA. Translation: AAC18599.1.
AF120161 Genomic DNA. Translation: AAD13794.1.
HQ709179 mRNA. Translation: ADZ17386.1.
AB209244 mRNA. Translation: BAD92481.1. Different initiation.
AL031228 Genomic DNA. Translation: CAA20239.1.
AL844527 Genomic DNA. Translation: CAI41836.2.
CR936877 Genomic DNA. Translation: CAQ09065.1.
CR759733 Genomic DNA. Translation: CAQ10299.1.
CR354565 Genomic DNA. Translation: CAQ11083.1.
AL645940 Genomic DNA. No translation available.
AL662824 Genomic DNA. No translation available.
BC001167 mRNA. Translation: AAH01167.1.
X66424 mRNA. No translation available.
CCDSiCCDS4768.1. [P28702-1]
CCDS59007.1. [P28702-3]
PIRiS37781.
RefSeqiNP_001257330.1. NM_001270401.1. [P28702-3]
NP_068811.1. NM_021976.4. [P28702-1]
UniGeneiHs.388034.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1H9UX-ray2.70A/B/C/D299-522[»]
1UHLX-ray2.90A298-533[»]
5HJPX-ray2.60A/C299-533[»]
5I4VX-ray2.61B/F293-528[»]
5KYAX-ray2.60B/F293-528[»]
5KYJX-ray2.80B/F293-528[»]
ProteinModelPortaliP28702.
SMRiP28702.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112169. 37 interactors.
IntActiP28702. 48 interactors.
MINTiMINT-1365658.
STRINGi9606.ENSP00000363812.

Chemistry databases

BindingDBiP28702.
ChEMBLiCHEMBL1870.
DrugBankiDB00459. Acitretin.
DB00210. Adapalene.
DB00523. Alitretinoin.
DB00307. Bexarotene.
DB00799. Tazarotene.
DB00755. Tretinoin.
GuidetoPHARMACOLOGYi611.

PTM databases

iPTMnetiP28702.
PhosphoSitePlusiP28702.

Polymorphism and mutation databases

BioMutaiRXRB.
DMDMi1350911.

Proteomic databases

EPDiP28702.
PaxDbiP28702.
PeptideAtlasiP28702.
PRIDEiP28702.

Protocols and materials databases

DNASUi6257.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000374680; ENSP00000363812; ENSG00000204231. [P28702-1]
ENST00000374685; ENSP00000363817; ENSG00000204231. [P28702-3]
ENST00000383216; ENSP00000372703; ENSG00000206289. [P28702-3]
ENST00000383217; ENSP00000372704; ENSG00000206289. [P28702-1]
ENST00000415157; ENSP00000402506; ENSG00000228333. [P28702-1]
ENST00000415909; ENSP00000410468; ENSG00000235712. [P28702-1]
ENST00000431161; ENSP00000393286; ENSG00000235712. [P28702-3]
ENST00000431820; ENSP00000411238; ENSG00000231321. [P28702-1]
ENST00000436753; ENSP00000415199; ENSG00000227322. [P28702-1]
ENST00000443603; ENSP00000402590; ENSG00000227322. [P28702-3]
ENST00000455462; ENSP00000400104; ENSG00000228333. [P28702-3]
ENST00000456244; ENSP00000393870; ENSG00000231321. [P28702-3]
GeneIDi6257.
KEGGihsa:6257.
UCSCiuc003odc.5. human. [P28702-1]

Organism-specific databases

CTDi6257.
DisGeNETi6257.
GeneCardsiRXRB.
HGNCiHGNC:10478. RXRB.
HPAiCAB002003.
HPA063653.
MIMi180246. gene.
neXtProtiNX_P28702.
OpenTargetsiENSG00000204231.
ENSG00000206289.
ENSG00000227322.
ENSG00000228333.
ENSG00000231321.
ENSG00000235712.
PharmGKBiPA34891.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3575. Eukaryota.
ENOG410XRZC. LUCA.
GeneTreeiENSGT00760000118948.
HOGENOMiHOG000260821.
HOVERGENiHBG005606.
InParanoidiP28702.
KOiK08525.
OMAiWATRPPF.
OrthoDBiEOG091G0YX6.
PhylomeDBiP28702.
TreeFamiTF352097.

Enzyme and pathway databases

BioCyciZFISH:G66-32364-MONOMER.
ReactomeiR-HSA-383280. Nuclear Receptor transcription pathway.
R-HSA-5362517. Signaling by Retinoic Acid.
SignaLinkiP28702.
SIGNORiP28702.

Miscellaneous databases

ChiTaRSiRXRB. human.
EvolutionaryTraceiP28702.
GeneWikiiRetinoid_X_receptor_beta.
GenomeRNAii6257.
PROiP28702.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000204231.
CleanExiHS_RXRB.
ExpressionAtlasiP28702. baseline and differential.
GenevisibleiP28702. HS.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR000536. Nucl_hrmn_rcpt_lig-bd.
IPR001723. Nuclear_hrmn_rcpt.
IPR000003. Retinoid-X_rcpt/HNF4.
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...

Entry informationi

Entry nameiRXRB_HUMAN
AccessioniPrimary (citable) accession number: P28702
Secondary accession number(s): P28703
, Q59G65, Q5JP92, Q5STQ1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: February 1, 1996
Last modified: November 30, 2016
This is version 191 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

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 one 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.