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Protein

Retinoic acid receptor gamma

Gene

Rarg

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -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) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5. In the absence of ligand, acts mainly as an activator of gene expression due to weak binding to corepressors (By similarity). Required for limb bud development. In concert with RARA or RARB, required for skeletal growth, matrix homeostasis and growth plate function.By similarity2 Publications

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
Biological processTranscription, Transcription regulation
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-MMU-383280 Nuclear Receptor transcription pathway
R-MMU-5362517 Signaling by Retinoic Acid

Names & Taxonomyi

Protein namesi
Recommended name:
Retinoic acid receptor gamma
Short name:
RAR-gamma
Alternative name(s):
Nuclear receptor subfamily 1 group B member 3
Gene namesi
Name:Rarg
Synonyms:Nr1b3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 15

Organism-specific databases

MGIiMGI:97858 Rarg

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

Pathology & Biotechi

Disruption phenotypei

Rarg and Rarb double null mice exhibit growth retardation 3 weeks after birth. Defects are found in the growth plates with deficiency in cartilage. Growth retardation was noticable in limb sketal elements such as femurs. Early lethality and male sterility due to squamous metaplasia of the seminal vesicles and prostate are also observed. Isoform 2 mutants appear normal. The Rarg and Cyp26b1 double null mutation is able to partially rescue limb skeletal morphology without restoring normal expression of proximo-distal patterning genes.3 Publications

Chemistry databases

ChEMBLiCHEMBL4177
GuidetoPHARMACOLOGYi592

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000534741 – 458Retinoic acid receptor gammaAdd BLAST458

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei34Omega-N-methylarginineCombined sources1
Cross-linki172Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki401Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity

Keywords - PTMi

Isopeptide bond, Methylation, Ubl conjugation

Proteomic databases

MaxQBiP18911
PaxDbiP18911
PeptideAtlasiP18911
PRIDEiP18911

PTM databases

iPTMnetiP18911
PhosphoSitePlusiP18911

Expressioni

Developmental stagei

In E9.5-E12.5 embryos, expression throughout limb bud mesenchyme. This expression overlaps with that of CYP26B1. Also strongly expressed in the caudal and craniofacial regions.1 Publication

Gene expression databases

BgeeiENSMUSG00000001288 Expressed in 330 organ(s), highest expression level in cranium
CleanExiMM_RARG
ExpressionAtlasiP18911 baseline and differential
GenevisibleiP18911 MM

Interactioni

Subunit structurei

Homodimer (By similarity). Heterodimer with a RXR molecule (By similarity). Binds DNA preferentially as a RAR/RXR heterodimer (By similarity). Forms a complex with PUS1 and the SRA1 RNA in the nucleus.By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
AjubaQ91XC02EBI-8053650,EBI-1565930

GO - Molecular functioni

Protein-protein interaction databases

BioGridi202595, 4 interactors
DIPiDIP-42822N
IntActiP18911, 2 interactors
MINTiP18911
STRINGi10090.ENSMUSP00000048838

Chemistry databases

BindingDBiP18911

Structurei

3D structure databases

ProteinModelPortaliP18911
SMRiP18911
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini185 – 419NR LBDPROSITE-ProRule annotationAdd BLAST235

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 89ModulatingAdd BLAST89
Regioni156 – 184HingeAdd BLAST29

Domaini

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

Sequence similaritiesi

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
GeneTreeiENSGT00870000136372
HOGENOMiHOG000010312
HOVERGENiHBG005606
InParanoidiP18911
KOiK08529
OMAiQKVSKAH
OrthoDBiEOG091G0XCQ
PhylomeDBiP18911
TreeFamiTF328382

Family and domain databases

Gene3Di3.30.50.10, 1 hit
InterProiView protein in InterPro
IPR035500 NHR_like_dom_sf
IPR000536 Nucl_hrmn_rcpt_lig-bd
IPR001723 Nuclear_hrmn_rcpt
IPR003078 Retinoic_acid_rcpt
IPR001628 Znf_hrmn_rcpt
IPR013088 Znf_NHR/GATA
PfamiView protein in Pfam
PF00104 Hormone_recep, 1 hit
PF00105 zf-C4, 1 hit
PRINTSiPR01292 RETNOICACIDR
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

Sequences (3+)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All

Isoform 1 (identifier: P18911-1) [UniParc]FASTAAdd to basket
Also known as: A

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
MATNKERLFA PGALGPGSGY PGAGFPFAFP GALRGSPPFE MLSPSFRGLG
60 70 80 90 100
QPDLPKEMAS LSVETQSTSS EEMVPSSPSP PPPPRVYKPC FVCNDKSSGY
110 120 130 140 150
HYGVSSCEGC KGFFRRSIQK NMVYTCHRDK NCIINKVTRN RCQYCRLQKC
160 170 180 190 200
FEVGMSKEAV RNDRNKKKKE VKEEGSPDSY ELSPQLEELI TKVSKAHQET
210 220 230 240 250
FPSLCQLGKY TTNSSADHRV QLDLGLWDKF SELATKCIIK IVEFAKRLPG
260 270 280 290 300
FTGLSIADQI TLLKAACLDI LMLRICTRYT PEQDTMTFSD GLTLNRTQMH
310 320 330 340 350
NAGFGPLTDL VFAFAGQLLP LEMDDTETGL LSAICLICGD RMDLEEPEKV
360 370 380 390 400
DKLQEPLLEA LRLYARRRRP SQPYMFPRML MKITDLRGIS TKGAERAITL
410 420 430 440 450
KMEIPGPMPP LIREMLENPE MFEDDSSKPG PHPKASSEDE APGGQGKRGQ

SPQPDQGP
Length:458
Mass (Da):50,891
Last modified:February 5, 2008 - v3
Checksum:i1D13D2F1482D7194
GO
Isoform 2 (identifier: P18911-2) [UniParc] [UniParc]FASTAAdd to basket
Also known as: B

The sequence of this isoform differs from the canonical sequence as follows:
     1-61: MATNKERLFA...PDLPKEMASL → MYDCMESFVP...FAWAQPASLQ

Show »
Length:447
Mass (Da):49,849
Checksum:i75E0BCB50BC9AD3B
GO
Isoform 3 (identifier: P18911-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-62: MATNKERLFA...DLPKEMASLS → MHKGDNSGHQ...LSSHAAFHSA

Show »
Length:434
Mass (Da):48,708
Checksum:iD0885E92CB7B2966
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
D3YZY4D3YZY4_MOUSE
Retinoic acid receptor gamma
Rarg
227Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti63V → E in BAE28323 (PubMed:16141072).Curated1
Sequence conflicti78P → A in BAE28323 (PubMed:16141072).Curated1
Sequence conflicti176S → L in AAH13709 (PubMed:15489334).Curated1
Sequence conflicti369 – 372RPSQ → DPAK in AAA40035 (PubMed:2157970).Curated4
Sequence conflicti369 – 372RPSQ → DPAK in AAA40036 (PubMed:2157970).Curated4

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0310811 – 62MATNK…MASLS → MHKGDNSGHQQVPRKRGHGM RVLLLSFCLSSHAAFHSA in isoform 3. 1 PublicationAdd BLAST62
Alternative sequenceiVSP_0310821 – 61MATNK…EMASL → MYDCMESFVPGPRRLYGAAG PGAGLLRRATGSSCFAGLES FAWAQPASLQ in isoform 2. 2 PublicationsAdd BLAST61

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15848 mRNA Translation: CAA33845.1
M34475 mRNA Translation: AAA40036.1
M34476 mRNA Translation: AAA40035.1
AK148064 mRNA Translation: BAE28323.1
BC012923 mRNA Translation: AAH12923.1
BC013709 mRNA Translation: AAH13709.1
M32068 mRNA Translation: AAA40032.1
M32069 mRNA Translation: AAA40033.1
M32070 mRNA Translation: AAA40034.1
CCDSiCCDS27875.1 [P18911-1]
CCDS37226.1 [P18911-2]
PIRiB34714
S05052 A34714
RefSeqiNP_001036192.1, NM_001042727.2 [P18911-2]
NP_035374.3, NM_011244.4 [P18911-1]
XP_006520713.1, XM_006520650.1 [P18911-1]
XP_011243827.1, XM_011245525.2 [P18911-1]
UniGeneiMm.1273

Genome annotation databases

EnsembliENSMUST00000043172; ENSMUSP00000048838; ENSMUSG00000001288 [P18911-1]
ENSMUST00000063339; ENSMUSP00000067266; ENSMUSG00000001288 [P18911-2]
GeneIDi19411
KEGGimmu:19411
UCSCiuc007xvc.2 mouse [P18911-2]
uc007xvd.2 mouse [P18911-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15848 mRNA Translation: CAA33845.1
M34475 mRNA Translation: AAA40036.1
M34476 mRNA Translation: AAA40035.1
AK148064 mRNA Translation: BAE28323.1
BC012923 mRNA Translation: AAH12923.1
BC013709 mRNA Translation: AAH13709.1
M32068 mRNA Translation: AAA40032.1
M32069 mRNA Translation: AAA40033.1
M32070 mRNA Translation: AAA40034.1
CCDSiCCDS27875.1 [P18911-1]
CCDS37226.1 [P18911-2]
PIRiB34714
S05052 A34714
RefSeqiNP_001036192.1, NM_001042727.2 [P18911-2]
NP_035374.3, NM_011244.4 [P18911-1]
XP_006520713.1, XM_006520650.1 [P18911-1]
XP_011243827.1, XM_011245525.2 [P18911-1]
UniGeneiMm.1273

3D structure databases

ProteinModelPortaliP18911
SMRiP18911
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi202595, 4 interactors
DIPiDIP-42822N
IntActiP18911, 2 interactors
MINTiP18911
STRINGi10090.ENSMUSP00000048838

Chemistry databases

BindingDBiP18911
ChEMBLiCHEMBL4177
GuidetoPHARMACOLOGYi592

PTM databases

iPTMnetiP18911
PhosphoSitePlusiP18911

Proteomic databases

MaxQBiP18911
PaxDbiP18911
PeptideAtlasiP18911
PRIDEiP18911

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000043172; ENSMUSP00000048838; ENSMUSG00000001288 [P18911-1]
ENSMUST00000063339; ENSMUSP00000067266; ENSMUSG00000001288 [P18911-2]
GeneIDi19411
KEGGimmu:19411
UCSCiuc007xvc.2 mouse [P18911-2]
uc007xvd.2 mouse [P18911-1]

Organism-specific databases

CTDi5916
MGIiMGI:97858 Rarg

Phylogenomic databases

eggNOGiKOG3575 Eukaryota
ENOG410XRZC LUCA
GeneTreeiENSGT00870000136372
HOGENOMiHOG000010312
HOVERGENiHBG005606
InParanoidiP18911
KOiK08529
OMAiQKVSKAH
OrthoDBiEOG091G0XCQ
PhylomeDBiP18911
TreeFamiTF328382

Enzyme and pathway databases

ReactomeiR-MMU-383280 Nuclear Receptor transcription pathway
R-MMU-5362517 Signaling by Retinoic Acid

Miscellaneous databases

PROiPR:P18911
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000001288 Expressed in 330 organ(s), highest expression level in cranium
CleanExiMM_RARG
ExpressionAtlasiP18911 baseline and differential
GenevisibleiP18911 MM

Family and domain databases

Gene3Di3.30.50.10, 1 hit
InterProiView protein in InterPro
IPR035500 NHR_like_dom_sf
IPR000536 Nucl_hrmn_rcpt_lig-bd
IPR001723 Nuclear_hrmn_rcpt
IPR003078 Retinoic_acid_rcpt
IPR001628 Znf_hrmn_rcpt
IPR013088 Znf_NHR/GATA
PfamiView protein in Pfam
PF00104 Hormone_recep, 1 hit
PF00105 zf-C4, 1 hit
PRINTSiPR01292 RETNOICACIDR
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
ProtoNetiSearch...

Entry informationi

Entry nameiRARG_MOUSE
AccessioniPrimary (citable) accession number: P18911
Secondary accession number(s): P20787
, Q3UG86, Q62149, Q91VK5, Q91YX2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: February 5, 2008
Last modified: November 7, 2018
This is version 187 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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