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Q9PVE4

- THB_DANRE

UniProt

Q9PVE4 - THB_DANRE

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Protein
Thyroid hormone receptor beta
Gene
thrb, nr1a2, trb, si:ch211-264a6.2
Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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 T3.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei216 – 2161Thyroid hormone By similarity
Binding sitei254 – 2541Thyroid hormone By similarity
Binding sitei265 – 2651Thyroid hormone; via amide nitrogen By similarity
Binding sitei369 – 3691Thyroid hormone By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi29 – 10678Nuclear receptor
Add
BLAST
Zinc fingeri32 – 5221NR C4-type
Add
BLAST
Zinc fingeri70 – 8920NR C4-type
Add
BLAST

GO - Molecular functioni

  1. protein binding Source: UniProtKB
  2. sequence-specific DNA binding Source: InterPro
  3. steroid hormone receptor activity Source: InterPro
  4. thyroid hormone binding Source: UniProtKB
  5. thyroid hormone receptor activity Source: UniProtKB
  6. zinc ion binding Source: InterPro

GO - Biological processi

  1. intracellular receptor signaling pathway Source: GOC
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:
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 namesi
Name:thrb
Synonyms:nr1a2, trb
ORF Names:si:ch211-264a6.2
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437: Chromosome 19

Organism-specific databases

ZFINiZDB-GENE-990415-268. thrb.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 395395Thyroid hormone receptor beta
PRO_0000053455Add
BLAST

Expressioni

Tissue specificityi

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.2 Publications

Developmental stagei

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.3 Publications

Inductioni

By triiodothyronine (T3) and L-thyroxine (T4).2 Publications

Gene expression databases

BgeeiQ9PVE4.

Interactioni

Subunit structurei

Interacts (via the ligand-binding domain) with ncoa2.1 Publication

Structurei

3D structure databases

ProteinModelPortaliQ9PVE4.
SMRiQ9PVE4. Positions 29-117, 136-394.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 3131Modulating Reviewed prediction
Add
BLAST
Regioni149 – 395247Ligand-binding
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi121 – 1266Poly-Arg

Domaini

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

Sequence similaritiesi

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiNOG272726.
GeneTreeiENSGT00740000114969.
HOGENOMiHOG000010313.
HOVERGENiHBG005606.
KOiK08362.
OMAiLYEVHPA.
OrthoDBiEOG7TBC2V.
PhylomeDBiQ9PVE4.

Family and domain databases

Gene3Di1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProiIPR008946. 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]
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR00398. STRDHORMONER.
PR00047. STROIDFINGER.
PR00546. THYROIDHORMR.
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 (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q9PVE4-1) [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

MSEQADKCNS RWKDEAMQNG YIPSYLDKDE LCVVCGDKAT GYHYRCITCE    50
GCKGFFRRTI QKNLNPTYAC KYEGKCVIDK VTRNQCQECR FKKCIAVGMA 100
TDLVLDDSKR LAKRKLIEEN RERRRREELQ KTVWDRPEPT QEEWEMIRVV 150
TEAHMATNAQ GNHWKQKRKF LSAVGVKEAK PEDIGSAPIV NAPEGNKVDI 200
EAFSQFTKII TPAITRVVDF AKKLPMFCEL PCEDQIILLK GCCMEIMSLR 250
AAVRYDPESD TLTLNGEMAV TRGQLKNGGL GVVSDAIFDL GVSLSSFNLD 300
DSEVALLQAV ILLSSDRPGL TSVERIERCQ EEFLLAFEHY INYRKHKVAH 350
FWPKLLMKVT DLRMIGACHA SRFLHMKVEC PTELFPPLFL EVFED 395
Length:395
Mass (Da):45,155
Last modified:November 25, 2008 - v2
Checksum:i1E18666BCCACFE8A
GO
Isoform 2 (identifier: Q9PVE4-2) [UniParc]FASTAAdd to Basket

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

Show »
Length:386
Mass (Da):44,285
Checksum:iAAFA044D31425D92
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei172 – 1809Missing in isoform 2.
VSP_035801

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti95 – 962IA → NP in AAB68764. 1 Publication
Sequence conflicti347 – 3471K → Q in AAL06722. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
RefSeqiNP_571415.1. NM_131340.1. [Q9PVE4-2]
XP_005159560.1. XM_005159503.1. [Q9PVE4-2]
XP_005159561.1. XM_005159504.1. [Q9PVE4-2]
UniGeneiDr.80868.

Genome annotation databases

EnsembliENSDART00000151766; ENSDARP00000126275; ENSDARG00000021163. [Q9PVE4-1]
GeneIDi30607.
KEGGidre:30607.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
RefSeqi NP_571415.1. NM_131340.1. [Q9PVE4-2 ]
XP_005159560.1. XM_005159503.1. [Q9PVE4-2 ]
XP_005159561.1. XM_005159504.1. [Q9PVE4-2 ]
UniGenei Dr.80868.

3D structure databases

ProteinModelPortali Q9PVE4.
SMRi Q9PVE4. Positions 29-117, 136-394.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSDART00000151766 ; ENSDARP00000126275 ; ENSDARG00000021163 . [Q9PVE4-1 ]
GeneIDi 30607.
KEGGi dre:30607.

Organism-specific databases

CTDi 7068.
ZFINi ZDB-GENE-990415-268. thrb.

Phylogenomic databases

eggNOGi NOG272726.
GeneTreei ENSGT00740000114969.
HOGENOMi HOG000010313.
HOVERGENi HBG005606.
KOi K08362.
OMAi LYEVHPA.
OrthoDBi EOG7TBC2V.
PhylomeDBi Q9PVE4.

Miscellaneous databases

NextBioi 20806972.
PROi Q9PVE4.

Gene expression databases

Bgeei Q9PVE4.

Family and domain databases

Gene3Di 1.10.565.10. 1 hit.
3.30.50.10. 1 hit.
InterProi IPR008946. 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 ]
Pfami PF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view ]
PRINTSi PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
PR00546. THYROIDHORMR.
SMARTi SM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view ]
SUPFAMi SSF48508. SSF48508. 1 hit.
PROSITEi PS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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. 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. 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.

Entry informationi

Entry nameiTHB_DANRE
AccessioniPrimary (citable) accession number: Q9PVE4
Secondary accession number(s): A3QJW1
, B3DIF2, O42560, Q90Y31
Entry historyi
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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Caution

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

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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