Retinoic acid receptor beta - Homo sapiens (Human)

Protein attributes

Sequence length	455 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	This is a receptor for retinoic acid. This metabolite has profound effects on vertebrate development. Retinoic acid is a morphogen and is a powerful teratogen. This receptor controls cell function by directly regulating gene expression.
Subcellular location	Isoform Beta-1: Nucleus. Isoform Beta-2: Nucleus. Isoform Beta-4: Cytoplasm.
Domain	Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal steroid-binding domain.
Sequence similarities	Belongs to the nuclear hormone receptor family. NR1 subfamily. Contains 1 nuclear receptor DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Coding sequence diversity	Alternative splicing Polymorphism
Disease	Proto-oncogene
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Receptor
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	signal transduction Ref.9 Traceable author statement. Source: ProtInc transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-KW nucleus Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	retinoic acid receptor activity Ref.9 Traceable author statement. Source: ProtInc steroid hormone receptor activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Isoform Beta-1 (identifier: P10826-1) 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.

Isoform Beta-2 (identifier: P10826-2) The sequence of this isoform differs from the canonical sequence as follows: 1-60: MTTSGHACPV...SGCSTPSPAT → MFDCMDVLSV...EWQHRHTAQS

Isoform Beta-3 (identifier: P10826-4) The sequence of this isoform is not available.

Isoform Beta-4 (identifier: P10826-3) The sequence of this isoform differs from the canonical sequence as follows: 1-119: Missing.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 455

455

Retinoic acid receptor beta

PRO_0000053467

Regions

DNA binding

88 – 153

66

Nuclear receptor

Zinc finger

88 – 108

21

NR C4-type

Zinc finger

124 – 148

25

NR C4-type

Region

1 – 87

87

Modulating

Region

154 – 199

46

Hinge

Region

200 – 419

220

Ligand-binding

Natural variations

Alternative sequence

1 – 119

119

Missing in isoform Beta-4.

VSP_003635

Alternative sequence

1 – 60

60

MTTSG…PSPAT → MFDCMDVLSVSPGQILDFYT ASPSSCMLQEKALKACFSGL TQTEWQHRHTAQS in isoform Beta-2.

VSP_003634

Natural variant

90

1

V → I in a colorectal cancer sample; somatic mutation. Ref.12

VAR_036060

Experimental info

Sequence conflict

206

1

G → A in CAA68398. Ref.2

Sequence conflict

317

1

L → Q in CAA30262. Ref.1

Sequence conflict

414

1

L → M in CAA68398. Ref.2

Sequence conflict

454

1

V → L in CAA30262. Ref.1

Secondary structure

1

.

455

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

Isoform Beta-1 [UniParc].

Last modified November 16, 2001. Version 2.
Checksum: 8813263AD0495D5A
Show »

455

50,489

        10         20         30         40         50         60 
MTTSGHACPV PAVNGHMTHY PATPYPLLFP PVIGGLSLPP LHGLHGHPPP SGCSTPSPAT 

        70         80         90        100        110        120 
IETQSTSSEE LVPSPPSPLP PPRVYKPCFV CQDKSSGYHY GVSACEGCKG FFRRSIQKNM 

       130        140        150        160        170        180 
IYTCHRDKNC VINKVTRNRC QYCRLQKCFE VGMSKESVRN DRNKKKKETS KQECTESYEM 

       190        200        210        220        230        240 
TAELDDLTEK IRKAHQETFP SLCQLGKYTT NSSADHRVRL DLGLWDKFSE LATKCIIKIV 

       250        260        270        280        290        300 
EFAKRLPGFT GLTIADQITL LKAACLDILI LRICTRYTPE QDTMTFSDGL TLNRTQMHNA 

       310        320        330        340        350        360 
GFGPLTDLVF TFANQLLPLE MDDTETGLLS AICLICGDRQ DLEEPTKVDK LQEPLLEALK 

       370        380        390        400        410        420 
IYIRKRRPSK PHMFPKILMK ITDLRSISAK GAERVITLKM EIPGSMPPLI QEMLENSEGH 

       430        440        450 
EPLTPSSSGN TAEHSPSISP SSVENSGVSQ SPLVQ

« Hide

Isoform Beta-2.

Checksum: 844A298AD32F46A8
Show »

448

50,344

Isoform Beta-3 (Sequence not available).

–

Isoform Beta-4.

Checksum: D248E5CAB87DA44E
Show »

336

37,932

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A new retinoic acid receptor identified from a hepatocellular carcinoma." Benbrook D., Lernherdt E., Pfahl M. Nature 333:669-672(1988) [PubMed: 2836738] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM BETA-2). Tissue: Placenta.
[2]	"A novel steroid thyroid hormone receptor-related gene inappropriately expressed in human hepatocellular carcinoma." de The H., Marchio A., Tiollais P., Dejean A. Nature 330:667-670(1987) [PubMed: 2825037] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM BETA-2).
[3]	"Elevated retinoic acid receptor beta(4) protein in human breast tumor cells with nuclear and cytoplasmic localization." Sommer K.M., Chen L.I., Treuting P.M., Smith L.T., Swisshelm K. Proc. Natl. Acad. Sci. U.S.A. 96:8651-8656(1999) [PubMed: 10411930] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM BETA-4). Tissue: Mammary tumor.
[4]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM BETA-2). Tissue: Placenta.
[5]	"Mouse and human retinoic acid receptor beta 2 promoters: sequence comparison and localization of retinoic acid responsiveness." Shen S., Kruyt F.A., den Hertog J., van der Saag P.T., Kruijer W. DNA Seq. 2:111-119(1991) [PubMed: 1663808] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-52 (ISOFORM BETA-2).
[6]	"Fetal isoform of human retinoic acid receptor beta expressed in small cell lung cancer lines." Houle B., Pelletier M., Wu J., Goodyer C., Bradley W.E. Cancer Res. 54:365-369(1994) [PubMed: 8275470] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-72 (ISOFORM BETA-1).
[7]	"Hepatitis B virus DNA integration in a sequence homologous to v-erb-A and steroid receptor genes in a hepatocellular carcinoma." Dejean A., Bougueleret L., Grzeschik K.-H., Tiollais P. Nature 322:70-72(1986) [PubMed: 3014347] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 61-109.
[8]	"Hepatitis B virus as an insertional mutagene in a human hepatocellular carcinoma." Dejean A., de The H. Mol. Biol. Med. 7:213-222(1990) [PubMed: 2170809] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 61-109. Tissue: Liver.
[9]	"Identification of a second human retinoic acid receptor." Brand N., Petkovitch M., Krust A., Chambon P., de The H., Marchio A., Tiollais P., Dejean A. Nature 332:850-853(1988) [PubMed: 2833708] [Abstract] Cited for: IDENTITY OF HAP AND RAR-BETA.
[10]	"Homo- and heteronuclear NMR studies of the human retinoic acid receptor beta DNA-binding domain: sequential assignments and identification of secondary structure elements." Kathira M., Knegtel R.M.A., Boelens R., Eib D., Schilthuis J.G., van der Saag P.T., Kaptein R. Biochemistry 31:6474-6480(1992) [PubMed: 1321662] [Abstract] Cited for: STRUCTURE BY NMR OF 82-160.
[11]	"The solution structure of the human retinoic acid receptor-beta DNA-binding domain." Knegtel R.M.A., Katahira M., Schilthuis J.G., Bonvin A.M., Boelens R., Eib D., van der Saag P.T., Kaptein R. J. Biomol. NMR 3:1-17(1993) [PubMed: 8383553] [Abstract] Cited for: STRUCTURE BY NMR OF 82-160.
[12]	"The consensus coding sequences of human breast and colorectal cancers." Sjoeblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K.V. Velculescu V.E. Science 314:268-274(2006) [PubMed: 16959974] [Abstract] Cited for: VARIANT [LARGE SCALE ANALYSIS] ILE-90.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X07282 mRNA. Translation: CAA30262.1.
Y00291 mRNA. Translation: CAA68398.1.
AF157483 mRNA. Translation: AAD45688.1.
BC060794 mRNA. Translation: AAH60794.1.
X56849 Genomic DNA. No translation available.
X77664 Genomic DNA. Translation: CAA54740.1.
X04014 Genomic DNA. Translation: CAA27637.1. Sequence problems.
M57445 Genomic DNA. Translation: AAA58728.1.

IPI

IPI00022989.
IPI00219014.
IPI00745428.

PIR

S02827.
S49021.

RefSeq

NP_000956.2.
NP_057236.1.

UniGene

Hs.654490

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1HRA	NMR	-	A	82-160	[»]
1XAP	X-ray	2.10	A	176-421	[»]

SMR

P10826. Positions 182-426.

ModBase

Protein-protein interaction databases

STRING

P10826.

Proteomic databases

PRIDE

P10826.

Genome annotation databases

Ensembl

ENST00000404969; ENSP00000385865; ENSG00000077092; Homo sapiens. [Genome view]

GeneID

5915.

KEGG

hsa:5915.

Organism-specific databases

CTD

5915.

GeneCards

GC03P025194.

H-InvDB

HIX0030729.

HGNC

HGNC:9865. RARB.

HPA

CAB002617.

MIM

180220. gene.

PharmGKB

PA34226.

GenAtlas

Phylogenomic databases

eggNOG

prNOG04425.

HOGENOM

HBG713785.

HOVERGEN

P10826.

OMA

QEVFVCI.

PhylomeDB

P10826.

Enzyme and pathway databases

Pathway_Interaction_DB

retinoic_acid_pathway. Retinoic acid receptors-mediated signaling.
rxr_vdr_pathway. RXR and RAR hetrodimerization with other nuclear receptor.

Reactome

REACT_71. Gene Expression.

Gene expression databases

ArrayExpress

P10826.

Bgee

P10826.

CleanEx

HS_RARB.

Genevestigator

P10826.

GermOnline

ENSG00000077092. Homo sapiens.

Family and domain databases

InterPro

IPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR003078. Retinoic_acid_rcpt.
IPR001723. Str_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
[Graphical view]

Gene3D

G3DSA:1.10.565.10. Nucl_hrmn_rcpt_lig_bd. 1 hit.

PANTHER

PTHR11865:SF169. Rtnoid_rcpt. 1 hit.

Pfam

PF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]

PRINTS

PR01292. RETNOICACIDR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.

SMART

SM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]

PROSITE

PS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]

ProtoNet

Other Resources

DrugBank

DB00459. Acitretin.
DB00210. Adapalene.
DB00523. Alitretinoin.
DB00926. Etretinate.
DB04942. Tamibarotene.
DB00799. Tazarotene.

NextBio

23024.

SOURCE

Entry information

Entry name

RARB_HUMAN

Accession

Primary (citable) accession number: P10826
Secondary accession number(s): P12891

Q9UN48

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 1989
Last sequence update:	November 16, 2001
Last modified:	February 9, 2010
This is version 133 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

Disclaimer

Any 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.