RARGB_DANRE
ID RARGB_DANRE Reviewed; 489 AA.
AC A2T928;
DT 21-AUG-2007, integrated into UniProtKB/Swiss-Prot.
DT 06-MAR-2007, sequence version 1.
DT 03-AUG-2022, entry version 80.
DE RecName: Full=Retinoic acid receptor gamma-B;
DE Short=RAR-gamma-B;
DE AltName: Full=Nuclear receptor subfamily 1 group B member 3-B;
GN Name=rargb {ECO:0000312|EMBL:ABM89228.1}; Synonyms=nr1b3b;
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955;
RN [1] {ECO:0000305, ECO:0000312|EMBL:ABM89228.1}
RP NUCLEOTIDE SEQUENCE [MRNA], AND DEVELOPMENTAL STAGE.
RC TISSUE=Embryo {ECO:0000269|PubMed:17195188};
RX PubMed=17195188; DOI=10.1002/dvdy.21049;
RA Waxman J.S., Yelon D.;
RT "Comparison of the expression patterns of newly identified zebrafish
RT retinoic acid and retinoid X receptors.";
RL Dev. Dyn. 236:587-595(2007).
RN [2]
RP DEVELOPMENTAL STAGE, INDUCTION, AND FUNCTION.
RX PubMed=18929555; DOI=10.1016/j.ydbio.2008.09.022;
RA Linville A., Radtke K., Waxman J.S., Yelon D., Schilling T.F.;
RT "Combinatorial roles for zebrafish retinoic acid receptors in the
RT hindbrain, limbs and pharyngeal arches.";
RL Dev. Biol. 325:60-70(2009).
CC -!- FUNCTION: Receptor for retinoic acid. Retinoic acid receptors bind as
CC heterodimers to their target response elements in response to their
CC ligands, all-trans or 9-cis retinoic acid, and regulate gene expression
CC in various biological processes. The rar/rxr heterodimers bind to the
CC retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3'
CC sites known as DR1-DR5 (By similarity). Required for hindbrain
CC development. {ECO:0000250, ECO:0000269|PubMed:18929555}.
CC -!- SUBUNIT: Heterodimer; with an rxr molecule. Binds DNA preferentially as
CC a rar/rxr heterodimer. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00407}.
CC -!- DEVELOPMENTAL STAGE: Expressed both maternally and zygotically.
CC Expressed ubiquitously throughout gastrulation. At the tailbud stage,
CC expressed at higher levels in the anterior and tailbud. Also expressed
CC in migrating cranial neural crest cells. {ECO:0000269|PubMed:17195188,
CC ECO:0000269|PubMed:18929555}.
CC -!- SIMILARITY: Belongs to the nuclear hormone receptor family. NR1
CC subfamily. {ECO:0000255}.
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DR EMBL; EF028131; ABM89228.1; -; mRNA.
DR RefSeq; NP_001076779.1; NM_001083310.1.
DR AlphaFoldDB; A2T928; -.
DR SMR; A2T928; -.
DR STRING; 7955.ENSDARP00000052545; -.
DR PaxDb; A2T928; -.
DR GeneID; 100034753; -.
DR KEGG; dre:100034753; -.
DR CTD; 100034753; -.
DR ZFIN; ZDB-GENE-070314-1; rargb.
DR eggNOG; KOG3575; Eukaryota.
DR InParanoid; A2T928; -.
DR OrthoDB; 1165737at2759; -.
DR PhylomeDB; A2T928; -.
DR PRO; PR:A2T928; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Unplaced.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0004879; F:nuclear receptor activity; IBA:GO_Central.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0030154; P:cell differentiation; IBA:GO_Central.
DR GO; GO:0071907; P:determination of digestive tract left/right asymmetry; IMP:ZFIN.
DR GO; GO:0061371; P:determination of heart left/right asymmetry; IMP:ZFIN.
DR GO; GO:0003140; P:determination of left/right asymmetry in lateral mesoderm; IMP:ZFIN.
DR GO; GO:0071910; P:determination of liver left/right asymmetry; IMP:ZFIN.
DR GO; GO:0035469; P:determination of pancreatic left/right asymmetry; IMP:ZFIN.
DR GO; GO:0009755; P:hormone-mediated signaling pathway; IBA:GO_Central.
DR GO; GO:0035622; P:intrahepatic bile duct development; IMP:ZFIN.
DR GO; GO:0030514; P:negative regulation of BMP signaling pathway; IMP:ZFIN.
DR GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0048384; P:retinoic acid receptor signaling pathway; IBA:GO_Central.
DR Gene3D; 1.10.565.10; -; 1.
DR Gene3D; 3.30.50.10; -; 1.
DR InterPro; IPR035500; NHR-like_dom_sf.
DR InterPro; IPR000536; Nucl_hrmn_rcpt_lig-bd.
DR InterPro; IPR001723; Nuclear_hrmn_rcpt.
DR InterPro; IPR003078; Retinoic_acid_rcpt.
DR InterPro; IPR001628; Znf_hrmn_rcpt.
DR InterPro; IPR013088; Znf_NHR/GATA.
DR Pfam; PF00104; Hormone_recep; 1.
DR Pfam; PF00105; zf-C4; 1.
DR PRINTS; PR01292; RETNOICACIDR.
DR PRINTS; PR00398; STRDHORMONER.
DR PRINTS; PR00047; STROIDFINGER.
DR SMART; SM00430; HOLI; 1.
DR SMART; SM00399; ZnF_C4; 1.
DR SUPFAM; SSF48508; SSF48508; 1.
DR PROSITE; PS51843; NR_LBD; 1.
DR PROSITE; PS00031; NUCLEAR_REC_DBD_1; 1.
DR PROSITE; PS51030; NUCLEAR_REC_DBD_2; 1.
PE 2: Evidence at transcript level;
KW DNA-binding; Metal-binding; Nucleus; Receptor; Reference proteome;
KW Transcription; Transcription regulation; Zinc; Zinc-finger.
FT CHAIN 1..489
FT /note="Retinoic acid receptor gamma-B"
FT /id="PRO_0000299171"
FT DOMAIN 161..395
FT /note="NR LBD"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01189"
FT DNA_BIND 62..137
FT /note="Nuclear receptor"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 65..85
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 101..120
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT REGION 37..57
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 398..489
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 454..489
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 489 AA; 55571 MW; F181AE31C836F2C8 CRC64;
MRDVFREATP MTCRSPLPDL RDMMEKLTVF EPTIDSTVET QSTSSEEMIP SSPSPPPPPR
VYKPCFVCQD KSSGYHYGVS SCEGCKGFFR RSIQKNMVYT CHRDKNCQIN KVTRNRCQYC
RLRKCFEVGM SKEAVRNDRN KKKKDVKEEV VLPESYELSG ELEELVNKVS KAHRETFPSL
CQLGKYTTNS SADHRVQLDL GLWDKFSELS TKCIIKIVEF AKRLPGFTSL TIADQITLLK
SACLDILMLR ICTRYTPEQD TMTFSDGLTL NRTQMHNAGF GPLTDLVFAF AGQLLPLEMD
DTETGLLSAI CLICGDRMDL EEPHRVDQLQ EPLLEALKIY ARRRRPNKPH MFPRMLMKVT
DLRGISTKGA ERAITLKMEI PGPMPPLIRE MLENPEIFED SSDSNDSGAA AVVPAPNIKR
MGQRQAAWVK GERPEWVRGR RRGSKSRYKA GFKAGKARSR DSPDNNGEIR QGDERSEMSV
RAEQDFALE
