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A2T928 (RARGB_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 47. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Retinoic acid receptor gamma-B

Short name=RAR-gamma-B
Alternative name(s):
Nuclear receptor subfamily 1 group B member 3-B
Gene names
Name:rargb
Synonyms:nr1b3b
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length489 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

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. Required for hindbrain development. Ref.2

Subunit structure

Heterodimer; with an rxr molecule By similarity. Binds DNA preferentially as a rar/rxr heterodimer By similarity.

Subcellular location

Nucleus By similarity.

Developmental stage

Expressed both maternally and zygotically. Expressed ubiquitously throughout gastrulation. At the tailbud stage, expressed at higher levels in the anterior and tailbud. Also expressed in migrating cranial neural crest cells. Ref.1 Ref.2

Sequence similarities

Belongs to the nuclear hormone receptor family. NR1 subfamily.

Contains 1 nuclear receptor DNA-binding domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 489489Retinoic acid receptor gamma-B
PRO_0000299171

Regions

DNA binding62 – 13776Nuclear receptor
Zinc finger65 – 8521NR C4-type
Zinc finger101 – 12020NR C4-type
Compositional bias53 – 597Poly-Pro
Compositional bias141 – 1444Poly-Lys
Compositional bias342 – 3454Poly-Arg

Sequences

Sequence LengthMass (Da)Tools
A2T928 [UniParc].

Last modified March 6, 2007. Version 1.
Checksum: F181AE31C836F2C8

FASTA48955,571
        10         20         30         40         50         60 
MRDVFREATP MTCRSPLPDL RDMMEKLTVF EPTIDSTVET QSTSSEEMIP SSPSPPPPPR 

        70         80         90        100        110        120 
VYKPCFVCQD KSSGYHYGVS SCEGCKGFFR RSIQKNMVYT CHRDKNCQIN KVTRNRCQYC 

       130        140        150        160        170        180 
RLRKCFEVGM SKEAVRNDRN KKKKDVKEEV VLPESYELSG ELEELVNKVS KAHRETFPSL 

       190        200        210        220        230        240 
CQLGKYTTNS SADHRVQLDL GLWDKFSELS TKCIIKIVEF AKRLPGFTSL TIADQITLLK 

       250        260        270        280        290        300 
SACLDILMLR ICTRYTPEQD TMTFSDGLTL NRTQMHNAGF GPLTDLVFAF AGQLLPLEMD 

       310        320        330        340        350        360 
DTETGLLSAI CLICGDRMDL EEPHRVDQLQ EPLLEALKIY ARRRRPNKPH MFPRMLMKVT 

       370        380        390        400        410        420 
DLRGISTKGA ERAITLKMEI PGPMPPLIRE MLENPEIFED SSDSNDSGAA AVVPAPNIKR 

       430        440        450        460        470        480 
MGQRQAAWVK GERPEWVRGR RRGSKSRYKA GFKAGKARSR DSPDNNGEIR QGDERSEMSV 


RAEQDFALE 

« Hide

References

[1]"Comparison of the expression patterns of newly identified zebrafish retinoic acid and retinoid X receptors."
Waxman J.S., Yelon D.
Dev. Dyn. 236:587-595(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], DEVELOPMENTAL STAGE.
Tissue: Embryo.
[2]"Combinatorial roles for zebrafish retinoic acid receptors in the hindbrain, limbs and pharyngeal arches."
Linville A., Radtke K., Waxman J.S., Yelon D., Schilling T.F.
Dev. Biol. 325:60-70(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: DEVELOPMENTAL STAGE, INDUCTION, FUNCTION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
EF028131 mRNA. Translation: ABM89228.1.
RefSeqNP_001076779.1. NM_001083310.1.
UniGeneDr.135572.

3D structure databases

ProteinModelPortalA2T928.
SMRA2T928. Positions 59-137, 158-395.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING7955.ENSDARP00000052545.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID100034753.
KEGGdre:100034753.

Organism-specific databases

CTD100034753.
ZFINZDB-GENE-070314-1. rargb.

Phylogenomic databases

eggNOGNOG297448.
HOVERGENHBG005606.
PhylomeDBA2T928.

Family and domain databases

Gene3D1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProIPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR003078. Retinoic_acid_rcpt.
IPR001723. Str_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSPR01292. RETNOICACIDR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
SMARTSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMSSF48508. SSF48508. 1 hit.
PROSITEPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio20788475.

Entry information

Entry nameRARGB_DANRE
AccessionPrimary (citable) accession number: A2T928
Entry history
Integrated into UniProtKB/Swiss-Prot: August 21, 2007
Last sequence update: March 6, 2007
Last modified: April 16, 2014
This is version 47 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families