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Protein

T-box transcription factor TBX2b

Gene

tbx2b

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the transcriptional regulation of genes required for mesoderm differentiation. Plays a role in the specification of late notochordal precursor cells and formation of the differentiated notochord. Required for cardiac atrioventricular canal formation.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi103 – 276174T-boxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • axial mesoderm development Source: ZFIN
  • brain development Source: ZFIN
  • camera-type eye photoreceptor cell differentiation Source: ZFIN
  • cardiac chamber development Source: ZFIN
  • cell adhesion Source: ZFIN
  • cell migration involved in gastrulation Source: ZFIN
  • cell proliferation Source: ZFIN
  • embryonic heart tube development Source: ZFIN
  • epithalamus development Source: ZFIN
  • heart looping Source: ZFIN
  • neuron fate commitment Source: ZFIN
  • notochord development Source: ZFIN
  • photoreceptor cell development Source: ZFIN
  • photoreceptor cell fate specification Source: ZFIN
  • regulation of heart contraction Source: ZFIN
  • retinal cone cell development Source: ZFIN
  • retinal rod cell development Source: ZFIN
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
T-box transcription factor TBX2b
Short name:
T-box protein 2b
Gene namesi
Name:tbx2b
Synonyms:tbx-c
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 15

Organism-specific databases

ZFINiZDB-GENE-990726-27. tbx2b.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Loss of atrioventricular canal formation and cardiac looping.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 687687T-box transcription factor TBX2bPRO_0000262463Add
BLAST

Proteomic databases

PaxDbiQ7ZTU9.

Expressioni

Tissue specificityi

Expressed in the axial mesoderm, notably, in the notochordal precursor cells immediately before formation of the notochord and in the chordoneural hinge of the tail bud, after the notochord is formed. In addition, its expression is detected in the ventral forebrain, sensory neurons, fin buds and excretory system.1 Publication

Developmental stagei

Expression seen in many tissues of ectodermal and mesodermal origin during embryogenesis. First detected at bud stage in the ventral prosencephalon and along the length of the notochord. As segmentation proceeds, expressed in the optic primordia, otic placodes and diffusely in cells over the yolk lying ventrally to the tail bud. Midway through the segmentation period, expression also seen in the acostic and lateral line sensory ganglia. At 22 hpf, found in the most posterior portion of the pronephric ducts (PubMed:10664151). At the end of gastrulation, expression seen in the prospective ventral forebrain, single eye field and the presumptive notochord. At 12 hpf, expression in the midline found only at the posterior end of the notochord where it can be detected until the end of segmentation. At 20 hpf, expression in the eye is restricted to the dorsal retina and also found in the epiphysis, otic vesicles and sensory neurons of cranial ganglia. At 22 hpf, expressed in bud of pectoral fins and at 30 hpf, in a subset of interneurons in the anterior spinal cord (PubMed:10331981).2 Publications

Gene expression databases

BgeeiQ7ZTU9.
ExpressionAtlasiQ7ZTU9. differential.

Interactioni

Protein-protein interaction databases

STRINGi7955.ENSDARP00000107769.

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili654 – 68128Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi562 – 5709Poly-Ala

Sequence similaritiesi

Contains 1 T-box DNA-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG3585. Eukaryota.
ENOG410XSTS. LUCA.
GeneTreeiENSGT00760000118897.
HOGENOMiHOG000038046.
HOVERGENiHBG000412.
InParanoidiQ7ZTU9.
KOiK10176.
OMAiSPAPEHH.
OrthoDBiEOG7W9RV1.
PhylomeDBiQ7ZTU9.
TreeFamiTF106341.

Family and domain databases

Gene3Di2.60.40.820. 1 hit.
InterProiIPR008967. p53-like_TF_DNA-bd.
IPR022582. TBX.
IPR002070. TF_Brachyury.
IPR001699. TF_T-box.
IPR018186. TF_T-box_CS.
[Graphical view]
PANTHERiPTHR11267. PTHR11267. 1 hit.
PfamiPF00907. T-box. 1 hit.
PF12598. TBX. 1 hit.
[Graphical view]
PRINTSiPR00938. BRACHYURY.
PR00937. TBOX.
SMARTiSM00425. TBOX. 1 hit.
[Graphical view]
SUPFAMiSSF49417. SSF49417. 1 hit.
PROSITEiPS01283. TBOX_1. 1 hit.
PS01264. TBOX_2. 1 hit.
PS50252. TBOX_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q7ZTU9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRDPVFTGTA MAYHPFHAHR PTDFPMSAFL AAAQPSFFPA LTLPPGALTK
60 70 80 90 100
PIPDHTLAGA AEAGLHPALS HHHQAAHLRS LKSLEPEEEV EDDPKVTLEA
110 120 130 140 150
KDLWDQFHKL GTEMVITKSG RRMFPPFKVR INGLDKKAKY ILLMDIVAAD
160 170 180 190 200
DCRYKFHNSR WMVAGKADPE MPKRMYIHPD SPATGEQWMA KPVAFHKLKL
210 220 230 240 250
TNNISDKHGF TILNSMHKYQ PRFHIVRAND ILKLPYSTFR TYVFPETDFI
260 270 280 290 300
AVTAYQNDKI TQLKIDNNPF AKGFRDTGNG RREKRKQLTL PSLRMYEDQC
310 320 330 340 350
KVDRDGADSD ASSSEPTTGR DAGHSPGPVS SPLRFNRGSR DDKTCTDSEH
360 370 380 390 400
EMDHQNDRCG GSSSPAPEPS SPFRSRSEDW GREKPIAEKK DDYPDSRKTS
410 420 430 440 450
DSIFSIRNLE KDKLESRSRK DTDSSKKDTE NSGISGSKDS FSPLMVQTES
460 470 480 490 500
PSHFGAGHLQ SLALSGLHSQ QFFNPLNTGQ PLLFHPGQFA MAPGAFSAMG
510 520 530 540 550
MGHLLASVSG AGGLENGSLS AQGTGSTPSP FPFHLSQHML ASQGIPMPTF
560 570 580 590 600
GGLFPYPYTY MAAAAAAASA LPASSSTASS LSRNPFLSSS TRPRLRFNPY
610 620 630 640 650
QLPVSIPQST NLLTTGLPSG LNPSSESSKC GSREASPVPD HKSGASQRNG
660 670 680
SPKTTMKESI NELQNIQRLV SGLESQRETS SPRDSPK
Length:687
Mass (Da):75,335
Last modified:April 20, 2010 - v4
Checksum:iAC57238D05744256
GO

Sequence cautioni

The sequence AAD44194.1 differs from that shown. Reason: Frameshift at position 663. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti368 – 3681E → K in AAF59835 (PubMed:10664151).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF179405 mRNA. Translation: AAF59835.1.
BC051603 mRNA. Translation: AAH51603.2.
AF136946 mRNA. Translation: AAD44194.1. Frameshift.
RefSeqiNP_571126.1. NM_131051.1.
UniGeneiDr.8233.

Genome annotation databases

EnsembliENSDART00000122101; ENSDARP00000107769; ENSDARG00000006120.
GeneIDi30253.
KEGGidre:30253.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF179405 mRNA. Translation: AAF59835.1.
BC051603 mRNA. Translation: AAH51603.2.
AF136946 mRNA. Translation: AAD44194.1. Frameshift.
RefSeqiNP_571126.1. NM_131051.1.
UniGeneiDr.8233.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000107769.

Proteomic databases

PaxDbiQ7ZTU9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000122101; ENSDARP00000107769; ENSDARG00000006120.
GeneIDi30253.
KEGGidre:30253.

Organism-specific databases

CTDi30253.
ZFINiZDB-GENE-990726-27. tbx2b.

Phylogenomic databases

eggNOGiKOG3585. Eukaryota.
ENOG410XSTS. LUCA.
GeneTreeiENSGT00760000118897.
HOGENOMiHOG000038046.
HOVERGENiHBG000412.
InParanoidiQ7ZTU9.
KOiK10176.
OMAiSPAPEHH.
OrthoDBiEOG7W9RV1.
PhylomeDBiQ7ZTU9.
TreeFamiTF106341.

Miscellaneous databases

PROiQ7ZTU9.

Gene expression databases

BgeeiQ7ZTU9.
ExpressionAtlasiQ7ZTU9. differential.

Family and domain databases

Gene3Di2.60.40.820. 1 hit.
InterProiIPR008967. p53-like_TF_DNA-bd.
IPR022582. TBX.
IPR002070. TF_Brachyury.
IPR001699. TF_T-box.
IPR018186. TF_T-box_CS.
[Graphical view]
PANTHERiPTHR11267. PTHR11267. 1 hit.
PfamiPF00907. T-box. 1 hit.
PF12598. TBX. 1 hit.
[Graphical view]
PRINTSiPR00938. BRACHYURY.
PR00937. TBOX.
SMARTiSM00425. TBOX. 1 hit.
[Graphical view]
SUPFAMiSSF49417. SSF49417. 1 hit.
PROSITEiPS01283. TBOX_1. 1 hit.
PS01264. TBOX_2. 1 hit.
PS50252. TBOX_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The evolution of paired appendages in vertebrates: T-box genes in the zebrafish."
    Ruvinsky I., Oates A.C., Silver L.M., Ho R.K.
    Dev. Genes Evol. 210:82-91(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], DEVELOPMENTAL STAGE.
  2. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: SJD.
  3. "Zebrafish tbx-c functions during formation of midline structures."
    Dheen T., Sleptsova-Friedrich I., Xu Y., Clark M., Lehrach H., Gong Z., Korzh V.
    Development 126:2703-2713(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 10-682, FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
  4. "Foxn4 directly regulates tbx2b expression and atrioventricular canal formation."
    Chi N.C., Shaw R.M., De Val S., Kang G., Jan L.Y., Black B.L., Stainier D.Y.
    Genes Dev. 22:734-739(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN HEART DEVELOPMENT, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiTBX2_DANRE
AccessioniPrimary (citable) accession number: Q7ZTU9
Secondary accession number(s): Q9IAL0, Q9W7B7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2006
Last sequence update: April 20, 2010
Last modified: June 8, 2016
This is version 93 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.