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Protein

Retinoic acid receptor gamma

Gene

RARG

Organism
Notophthalmus viridescens (Eastern newt) (Triturus viridescens)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-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 (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi143 – 20866Nuclear receptorPROSITE-ProRule annotationAdd
BLAST
Zinc fingeri143 – 16321NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri179 – 20325NR C4-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Receptor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

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
Retinoic acid receptor delta
Short name:
RAR-delta
Gene namesi
Name:RARG
Synonyms:NR1B3
OrganismiNotophthalmus viridescens (Eastern newt) (Triturus viridescens)
Taxonomic identifieri8316 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaCaudataSalamandroideaSalamandridaePleurodelinaeNotophthalmus

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 505505Retinoic acid receptor gammaPRO_0000019931Add
BLAST

Expressioni

Tissue specificityi

Isoform Delta-1A and Isoform Delta-1B are most abundant in regenerating limbs, tails, and the anterior half of the lower jaw. Isoform Delta-2 is broadly and uniformly distributed.1 Publication

Interactioni

Subunit structurei

Heterodimer; with a RXR molecule. Binds DNA preferentially as a RAR/RXR heterodimer.By similarity

Structurei

3D structure databases

ProteinModelPortaliP18516.
SMRiP18516. Positions 137-215, 235-472.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni52 – 14291ModulatingAdd
BLAST
Regioni209 – 25446HingeAdd
BLAST
Regioni255 – 474220Ligand-bindingAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi131 – 1377Poly-Pro
Compositional biasi219 – 2224Poly-Lys
Compositional biasi419 – 4224Poly-Arg

Domaini

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

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri143 – 16321NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri179 – 20325NR C4-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

HOVERGENiHBG005606.

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.
IPR003078. Retinoic_acid_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR01292. RETNOICACIDR.
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 (3)i

Sequence statusi: Complete.

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

Isoform Delta-1A (identifier: P18516-1) [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
MMKFSDTASC RDGGERPEEE GKGAGGRSKL RMGKEEFTGS VGKEEAAAVA
60 70 80 90 100
SMSSSKDRIC STSTQLSQLH GFPPSMYPFA FSSNMRGSPP FDLTNGGAYF
110 120 130 140 150
RSFPTDLPKE MASLSVETQS TSSEEMVPSS PSPPPPPRVY KPCFVCNDKS
160 170 180 190 200
SGYHYGVSSC EGCKGFFRRS IQKNMVYTCH RDKNCQINKV TRNRCQYCRL
210 220 230 240 250
QKCFEVGMSK EAVRNDRNKK KKEIKEEVVT DSYEMPPEME ALIQKVSKAH
260 270 280 290 300
QETFPSLCQL GKYTTNSSAD HRVQLDLGLW HKFSELATKC IIKIVEFAKR
310 320 330 340 350
LPGFATLTIA DQITLLKAAC LDILMLRICT RYTPEQDTMT FSDGLTLNRT
360 370 380 390 400
QMHNAGFGPL TDLVFAFAEQ LLPLEMDDTE TGLLSAICLI CGDRMDLEEP
410 420 430 440 450
EKVDKLQEPL LEALKIYARR RRPNKPYMFP RMLMKITDLR GISTKGAERA
460 470 480 490 500
ITLKMEIPGP MPPLIREMLE NPEAFEDDAS PPPKSEQKPI KVEEKPGEKT

STKDP
Length:505
Mass (Da):56,629
Last modified:November 1, 1995 - v2
Checksum:i0466F549C962E262
GO
Isoform Delta-2 (identifier: P18516-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-114: MMKFSDTASC...TDLPKEMASL → MYDCMEAFML...FGWPQPASLQ

Show »
Length:441
Mass (Da):49,943
Checksum:i23A9276D837FF254
GO
Isoform Delta-1B (identifier: P18516-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-51: Missing.

Note: Produced by alternative initiation at Met-52 of isoform Delta-1A.
Show »
Length:454
Mass (Da):51,323
Checksum:iC5E11D167EE4A740
GO

Sequence cautioni

The sequence CAA49562 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti281 – 2811H → D (PubMed:2536901).Curated
Sequence conflicti303 – 3031G → S (PubMed:2536901).Curated
Sequence conflicti497 – 4971G → A (PubMed:2536901).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 114114MMKFS…EMASL → MYDCMEAFMLAPHPLYDVTN PGACMLRKARLSPCFGGLDP FGWPQPASLQ in isoform Delta-2. 1 PublicationVSP_003643Add
BLAST
Alternative sequencei1 – 5151Missing in isoform Delta-1B. 2 PublicationsVSP_018770Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X69944 mRNA. Translation: CAA49564.1.
X69944 mRNA. Translation: CAA49565.1.
X69944 mRNA. Translation: CAA49562.1. Different initiation.
X69945 mRNA. Translation: CAA49566.1.
X17586 mRNA. Translation: CAA35603.1.
PIRiS06124.
S31516.

Keywords - Coding sequence diversityi

Alternative initiation, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X69944 mRNA. Translation: CAA49564.1.
X69944 mRNA. Translation: CAA49565.1.
X69944 mRNA. Translation: CAA49562.1. Different initiation.
X69945 mRNA. Translation: CAA49566.1.
X17586 mRNA. Translation: CAA35603.1.
PIRiS06124.
S31516.

3D structure databases

ProteinModelPortaliP18516.
SMRiP18516. Positions 137-215, 235-472.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

HOVERGENiHBG005606.

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.
IPR003078. Retinoic_acid_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR01292. RETNOICACIDR.
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 nameiRARG_NOTVI
AccessioniPrimary (citable) accession number: P18516
Secondary accession number(s): Q04643
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1995
Last modified: October 14, 2015
This is version 106 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Documents

  1. 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.