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Q9PVE4 (THB_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 116. 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·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Thyroid hormone receptor beta

Short name=TR-beta
Short name=TRb
Alternative name(s):
Nuclear receptor subfamily 1 group A member 2
Thyroid hormone receptor beta-1
Short name=TRbeta1
Gene names
Name:thrb
Synonyms:nr1a2, trb
ORF Names:si:ch211-264a6.2
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length395 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Nuclear hormone receptor that can act as a repressor or activator of transcription. High affinity receptor for the thyroid gland hormone triiodothyronine (T3). Transactivating activity is ligand-dependent, and is repressed in the absence of T3. Ref.1

Subunit structure

Interacts (via the ligand-binding domain) with ncoa2. Ref.8

Subcellular location

Nucleus.

Tissue specificity

Widely expressed in a range of adult tissues including the brain, eye, fin, gill, intestine, liver, swim bladder and ovary. In the eye, expressed in the outer nuclear layer of the retina. Ref.1 Ref.10

Developmental stage

Expressed both maternally and zygotically. Expressed at the 1 cell stage (0 hpf) but disappears by the 2 cell stage. Expressed again from the 16 cell stage onwards. Embryonic expression increases dramatically around the hatching period. High expression then continues until 6 dpf, before declining. Ref.1 Ref.7 Ref.9

Induction

By triiodothyronine (T3) and L-thyroxine (T4). Ref.1 Ref.7

Domain

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

Sequence similarities

Belongs to the nuclear hormone receptor family. NR1 subfamily.

Contains 1 nuclear receptor DNA-binding domain.

Caution

In contrast to Ref.1 and Ref.7, Ref.9 found that triiodothyronine (T3) did not induce expression in the embryo.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9PVE4-1)

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.
Isoform 2 (identifier: Q9PVE4-2)

The sequence of this isoform differs from the canonical sequence as follows:
     172-180: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 395395Thyroid hormone receptor beta
PRO_0000053455

Regions

DNA binding29 – 10678Nuclear receptor
Zinc finger32 – 5221NR C4-type
Zinc finger70 – 8920NR C4-type
Region1 – 3131Modulating Potential
Region149 – 395247Ligand-binding
Compositional bias121 – 1266Poly-Arg

Sites

Binding site2161Thyroid hormone By similarity
Binding site2541Thyroid hormone By similarity
Binding site2651Thyroid hormone; via amide nitrogen By similarity
Binding site3691Thyroid hormone By similarity

Natural variations

Alternative sequence172 – 1809Missing in isoform 2.
VSP_035801

Experimental info

Sequence conflict95 – 962IA → NP in AAB68764. Ref.4
Sequence conflict3471K → Q in AAL06722. Ref.5

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified November 25, 2008. Version 2.
Checksum: 1E18666BCCACFE8A

FASTA39545,155
        10         20         30         40         50         60 
MSEQADKCNS RWKDEAMQNG YIPSYLDKDE LCVVCGDKAT GYHYRCITCE GCKGFFRRTI 

        70         80         90        100        110        120 
QKNLNPTYAC KYEGKCVIDK VTRNQCQECR FKKCIAVGMA TDLVLDDSKR LAKRKLIEEN 

       130        140        150        160        170        180 
RERRRREELQ KTVWDRPEPT QEEWEMIRVV TEAHMATNAQ GNHWKQKRKF LSAVGVKEAK 

       190        200        210        220        230        240 
PEDIGSAPIV NAPEGNKVDI EAFSQFTKII TPAITRVVDF AKKLPMFCEL PCEDQIILLK 

       250        260        270        280        290        300 
GCCMEIMSLR AAVRYDPESD TLTLNGEMAV TRGQLKNGGL GVVSDAIFDL GVSLSSFNLD 

       310        320        330        340        350        360 
DSEVALLQAV ILLSSDRPGL TSVERIERCQ EEFLLAFEHY INYRKHKVAH FWPKLLMKVT 

       370        380        390 
DLRMIGACHA SRFLHMKVEC PTELFPPLFL EVFED 

« Hide

Isoform 2 [UniParc].

Checksum: AAFA044D31425D92
Show »

FASTA38644,285

References

« Hide 'large scale' references
[1]"Temporal expression and T3 induction of thyroid hormone receptors alpha1 and beta1 during early embryonic and larval development in zebrafish, Danio rerio."
Liu Y.-W., Lo L.-J., Chan W.-K.
Mol. Cell. Endocrinol. 159:187-195(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, INDUCTION.
[2]"The zebrafish reference genome sequence and its relationship to the human genome."
Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J. expand/collapse author list , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Tuebingen.
[3]NIH - Zebrafish Gene Collection (ZGC) project
Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
[4]"Ligand binding was acquired during evolution of nuclear receptors."
Escriva H., Safi R., Haenni C., Langlois M.-C., Saumitou-Laprade P., Stehelin D., Capron A., Pierce R., Laudet V.
Proc. Natl. Acad. Sci. U.S.A. 94:6803-6808(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 56-97.
[5]"Molecular cloning and characterization of thyroid hormone receptors in teleost fish."
Marchand O., Safi R., Escriva H., Van Rompaey E., Prunet P., Laudet V.
J. Mol. Endocrinol. 26:51-65(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 70-347 (ISOFORM 1).
[6]"Thyroid hormones in growth and development of fish."
Power D.M., Llewellyn L., Faustino M., Nowell M.A., Bjoernsson B.T., Einarsdottir I.E., Canario A.V.M., Sweeney G.E.
Comp. Biochem. Physiol. 130C:447-459(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
[7]"Thyroid hormones are important for embryonic to larval transitory phase in zebrafish."
Liu Y.-W., Chan W.-K.
Differentiation 70:36-45(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: DEVELOPMENTAL STAGE, INDUCTION.
[8]"Cloning, genomic organization, and expression analysis of zebrafish nuclear receptor coactivator, TIF2."
Tan J.-H., Quek S.-I., Chan W.-K.
Zebrafish 2:33-46(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH NCOA2.
[9]"The effect of 3,5,3'-triiodothyronine supplementation on zebrafish (Danio rerio) embryonic development and expression of iodothyronine deiodinases and thyroid hormone receptors."
Walpita C.N., Van der Geyten S., Rurangwa E., Darras V.M.
Gen. Comp. Endocrinol. 152:206-214(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: DEVELOPMENTAL STAGE.
[10]"Unexpected novel relational links uncovered by extensive developmental profiling of nuclear receptor expression."
Bertrand S., Thisse B., Tavares R., Sachs L., Chaumot A., Bardet P.-L., Escriva H., Duffraisse M., Marchand O., Safi R., Thisse C., Laudet V.
PLoS Genet. 3:E188-E188(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: TISSUE SPECIFICITY.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF109732 mRNA. Translation: AAF14239.1.
BX927163, CR382334 Genomic DNA. Translation: CAN87984.1.
CR382334, BX927163 Genomic DNA. Translation: CAM56478.2.
BC163106 mRNA. Translation: AAI63106.1.
BC163114 mRNA. Translation: AAI63114.1.
U93487 Genomic DNA. Translation: AAB68764.1.
AF302242 mRNA. Translation: AAL06722.1.
RefSeqNP_571415.1. NM_131340.1. [Q9PVE4-2]
XP_005159560.1. XM_005159503.1. [Q9PVE4-2]
XP_005159561.1. XM_005159504.1. [Q9PVE4-2]
UniGeneDr.80868.

3D structure databases

ProteinModelPortalQ9PVE4.
SMRQ9PVE4. Positions 29-117, 136-394.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSDART00000151766; ENSDARP00000126275; ENSDARG00000021163. [Q9PVE4-1]
GeneID30607.
KEGGdre:30607.

Organism-specific databases

CTD7068.
ZFINZDB-GENE-990415-268. thrb.

Phylogenomic databases

eggNOGNOG272726.
GeneTreeENSGT00740000114969.
HOGENOMHOG000010313.
HOVERGENHBG005606.
KOK08362.
OMALYEVHPA.
OrthoDBEOG7TBC2V.
PhylomeDBQ9PVE4.

Gene expression databases

BgeeQ9PVE4.

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.
IPR001723. Str_hrmn_rcpt.
IPR001728. ThyrH_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSPR00398. STRDHORMONER.
PR00047. STROIDFINGER.
PR00546. THYROIDHORMR.
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

NextBio20806972.
PROQ9PVE4.

Entry information

Entry nameTHB_DANRE
AccessionPrimary (citable) accession number: Q9PVE4
Secondary accession number(s): A3QJW1 expand/collapse secondary AC list , B3DIF2, O42560, Q90Y31
Entry history
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 25, 2008
Last modified: June 11, 2014
This is version 116 of the entry and version 2 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