RORAB_DANRE
ID RORAB_DANRE Reviewed; 474 AA.
AC F1QJF4; B0JZJ5; Q7ZU39;
DT 05-DEC-2018, integrated into UniProtKB/Swiss-Prot.
DT 03-MAY-2011, sequence version 1.
DT 03-AUG-2022, entry version 82.
DE RecName: Full=Nuclear receptor ROR-alpha B;
DE AltName: Full=Retinoid-related orphan receptor alpha 1 {ECO:0000303|PubMed:17685489};
DE AltName: Full=Retinoid-related orphan receptor-alpha B;
GN Name=rorab; Synonyms=rora1 {ECO:0000303|PubMed:17685489};
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]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen;
RX PubMed=23594743; DOI=10.1038/nature12111;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC STRAIN=AB;
RG NIH - Zebrafish Gene Collection (ZGC) project;
RL Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP DEVELOPMENTAL STAGE.
RX PubMed=17685489; DOI=10.1002/dvdy.21275;
RA Katsuyama Y., Oomiya Y., Dekimoto H., Motooka E., Takano A., Kikkawa S.,
RA Hibi M., Terashima T.;
RT "Expression of zebrafish ROR alpha gene in cerebellar-like structures.";
RL Dev. Dyn. 236:2694-2701(2007).
CC -!- FUNCTION: Nuclear receptor that binds DNA as a monomer to ROR response
CC elements (RORE) (By similarity). Required for proper cerebellum
CC development (By similarity). {ECO:0000250|UniProtKB:F1QLY4,
CC ECO:0000250|UniProtKB:P35398}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250|UniProtKB:P35398,
CC ECO:0000255|PROSITE-ProRule:PRU00407}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=F1QJF4-1; Sequence=Displayed;
CC Name=2;
CC IsoId=F1QJF4-2; Sequence=VSP_059964;
CC -!- DEVELOPMENTAL STAGE: Detectable from a late gastrula stage (10 hpf).
CC Very weakly expressed in the midbrain region at the 14-somite stage.
CC Expression in the midbrain intensifies and extends along the
CC anterior- posterior axis as embryogenesis proceeded. At 2 dpf, strongly
CC expressed in the developing eyes and midbrain region. At 3 dpf,
CC expressed in the retina. {ECO:0000269|PubMed:17685489}.
CC -!- SIMILARITY: Belongs to the nuclear hormone receptor family.
CC {ECO:0000255, ECO:0000255|RuleBase:RU004334}.
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; BX927082; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CR388046; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BC159203; AAI59204.1; -; mRNA.
DR EMBL; BC051158; AAH51158.1; -; mRNA.
DR RefSeq; NP_957361.1; NM_201067.1.
DR AlphaFoldDB; F1QJF4; -.
DR SMR; F1QJF4; -.
DR STRING; 7955.ENSDARP00000090251; -.
DR Ensembl; ENSDART00000019140; ENSDARP00000015111; ENSDARG00000001910. [F1QJF4-1]
DR GeneID; 554722; -.
DR KEGG; dre:554722; -.
DR CTD; 554722; -.
DR ZFIN; ZDB-GENE-040426-855; rorab.
DR eggNOG; KOG4216; Eukaryota.
DR GeneTree; ENSGT00940000157387; -.
DR HOGENOM; CLU_007368_2_0_1; -.
DR OrthoDB; 583704at2759; -.
DR TreeFam; TF319910; -.
DR Reactome; R-DRE-383280; Nuclear Receptor transcription pathway.
DR PRO; PR:F1QJF4; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 7.
DR Bgee; ENSDARG00000001910; Expressed in retina and 18 other tissues.
DR ExpressionAtlas; F1QJF4; baseline and differential.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
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:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR CDD; cd06968; NR_DBD_ROR; 1.
DR Gene3D; 1.10.565.10; -; 1.
DR Gene3D; 3.30.50.10; -; 1.
DR InterPro; IPR035500; NHR-like_dom_sf.
DR InterPro; IPR044101; NR_DBD_ROR.
DR InterPro; IPR000536; Nucl_hrmn_rcpt_lig-bd.
DR InterPro; IPR001723; Nuclear_hrmn_rcpt.
DR InterPro; IPR003079; ROR_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; PR01293; RORNUCRECPTR.
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 Alternative splicing; Developmental protein; DNA-binding; Metal-binding;
KW Nucleus; Receptor; Reference proteome; Transcription;
KW Transcription regulation; Zinc; Zinc-finger.
FT CHAIN 1..474
FT /note="Nuclear receptor ROR-alpha B"
FT /id="PRO_0000445779"
FT DOMAIN 223..461
FT /note="NR LBD"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01189"
FT DNA_BIND 14..89
FT /note="Nuclear receptor"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 17..37
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 53..72
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT REGION 98..144
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 450..461
FT /note="AF-2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01189"
FT COMPBIAS 98..126
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 127..144
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 473..474
FT /note="EA -> FMYTAFSQSSPATLCPNGTV (in isoform 2)"
FT /evidence="ECO:0000303|Ref.2"
FT /id="VSP_059964"
FT CONFLICT 43
FT /note="R -> G (in Ref. 2; AAH51158)"
FT /evidence="ECO:0000305"
FT CONFLICT 412
FT /note="K -> Q (in Ref. 2; AAH51158)"
FT /evidence="ECO:0000305"
FT CONFLICT 434
FT /note="R -> H (in Ref. 2; AAH51158)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 474 AA; 53570 MW; 24AC3FC36CB66381 CRC64;
MYLMITAMKA QIESIPCKIC GDKSSGIHYG VITCEGCKGF FRRSQQGTVS YSCPRQKSCL
IDRTSRNRCQ HCRLQKCLAV GMSRDAVKFG RMSKKQRDSL FAEVQKHRQQ QQDDKTGDES
EKNQESQAPG EAEPLTPSYA LSSSGVTEIP DDLSGYVNGQ TQEEGKADSA IGGFYLDIQP
SPDQSGLDMD GIKLEPVCDL SSDSGLDQYC CYSNGDASPP HDDLEHLSEN ICKSHLETCQ
YLREELQPSN WQTVLQSNLE AYQKKSQEDM WQLCAVKVTE AVQYVVEFAK RIDGFMELCQ
NDQIVLLKAG SLEVVFVRMC RAYNSQNNTV FFDSKYAGPE VFKALGCDDL ISSVFEFAKS
LNSLQLSEDE IGLFSAYVLM SADRSWLQEK TRVEKLQQKI KIALQNLLQK NKRDEGILTK
LVCKVSTVRM LCRRHMEKLS AFRALYPEMV HTRFPPLYKE LFGSDFEQIL PQEA
