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Homeobox protein six1b (Homeobox protein six1a) (Sine oculis homeobox homolog 1a) (Sine oculis homeobox homolog 1b)

 SIX1B_DANRE             Reviewed;         284 AA.
Q6NZ04; Q05FF5;
26-JUN-2013, integrated into UniProtKB/Swiss-Prot.
05-JUL-2004, sequence version 1.
31-JAN-2018, entry version 113.
RecName: Full=Homeobox protein six1b;
AltName: Full=Homeobox protein six1a;
AltName: Full=Sine oculis homeobox homolog 1a;
AltName: Full=Sine oculis homeobox homolog 1b;
Name=six1b; Synonyms=six1, six1a;
Danio rerio (Zebrafish) (Brachydanio rerio).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
Cyprinidae; Danio.
NCBI_TaxID=7955;
[1]
NUCLEOTIDE SEQUENCE [MRNA], AND DEVELOPMENTAL STAGE.
PubMed=15254912; DOI=10.1002/dvdy.20093;
Bessarab D.A., Chong S.W., Korzh V.;
"Expression of zebrafish six1 during sensory organ development and
myogenesis.";
Dev. Dyn. 230:781-786(2004).
[2]
NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, DISRUPTION PHENOTYPE, AND
DEVELOPMENTAL STAGE.
PubMed=17035528; DOI=10.1523/JNEUROSCI.1025-06.2006;
Bricaud O., Collazo A.;
"The transcription factor six1 inhibits neuronal and promotes hair
cell fate in the developing zebrafish (Danio rerio) inner ear.";
J. Neurosci. 26:10438-10451(2006).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=Tuebingen;
PubMed=23594743; DOI=10.1038/nature12111;
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.;
"The zebrafish reference genome sequence and its relationship to the
human genome.";
Nature 496:498-503(2013).
[4]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
TISSUE=Embryo;
NIH - Zebrafish Gene Collection (ZGC) project;
Submitted (FEB-2004) to the EMBL/GenBank/DDBJ databases.
[5]
FUNCTION, DEVELOPMENTAL STAGE, AND DISRUPTION PHENOTYPE.
PubMed=18789916; DOI=10.1016/j.ydbio.2008.08.015;
Bessarab D.A., Chong S.W., Srinivas B.P., Korzh V.;
"Six1a is required for the onset of fast muscle differentiation in
zebrafish.";
Dev. Biol. 323:216-228(2008).
[6]
FUNCTION, DEVELOPMENTAL STAGE, AND DISRUPTION PHENOTYPE.
PubMed=19409884; DOI=10.1016/j.ydbio.2009.04.029;
Lin C.Y., Chen W.T., Lee H.C., Yang P.H., Yang H.J., Tsai H.J.;
"The transcription factor Six1a plays an essential role in the
craniofacial myogenesis of zebrafish.";
Dev. Biol. 331:152-166(2009).
[7]
FUNCTION, DNA-BINDING, INTERACTION WITH EYA1, AND MUTAGENESIS OF
ARG-110; TYR-129 AND GLU-133.
PubMed=21745464; DOI=10.1016/j.ydbio.2011.06.035;
Bricaud O., Collazo A.;
"Balancing cell numbers during organogenesis: Six1a differentially
affects neurons and sensory hair cells in the inner ear.";
Dev. Biol. 357:191-201(2011).
[8]
FUNCTION, AND DISRUPTION PHENOTYPE.
PubMed=23444384; DOI=10.1242/jcs.119917;
Nord H., Skalman L.N., von Hofsten J.;
"Six1 regulates proliferation of Pax7+ muscle progenitors in
zebrafish.";
J. Cell Sci. 126:1868-1880(2013).
-!- FUNCTION: Transcription factor that is involved in the regulation
of cell proliferation, apoptosis and embryonic development.
Depending on context, functions as transcriptional repressor or
activator. Transcriptional activation is enhanced by eya1 (in
vitro). Plays an important role in the development of the inner
ear, where it promotes hair cell proliferation and inhibits
proliferation of neural progenitor cells. Required for normal
myogenesis. Plays a role in the development of fast muscle fibers
throughout the body, as well as the development of craniofacial
muscles. Required for normal expression of myod1 and myog during
myogenesis. {ECO:0000269|PubMed:17035528,
ECO:0000269|PubMed:18789916, ECO:0000269|PubMed:19409884,
ECO:0000269|PubMed:21745464, ECO:0000269|PubMed:23444384}.
-!- SUBUNIT: Interacts with eya1. {ECO:0000305|PubMed:21745464}.
-!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250|UniProtKB:Q15475}.
Cytoplasm {ECO:0000250|UniProtKB:Q15475}.
-!- DEVELOPMENTAL STAGE: First detected at mid-gastrulation. After the
onset of segmentation, detected in cranial placode. At later
stages of development, detected in the olfactory, otic, and
lateral line placodes, in the developing inner ear and in
neuromasts. After 48 hpf, no longer detected in the inner ear, but
continues to be expressed in lateral line neuromasts. In addition,
detected in the pituitary, branchial arches, somites, pectoral
fin, ventral abdomen muscle, and the cranial muscles of the eye
and lower jaw. Detected in developing fast muscle.
{ECO:0000269|PubMed:15254912, ECO:0000269|PubMed:17035528,
ECO:0000269|PubMed:18789916, ECO:0000269|PubMed:19409884}.
-!- DISRUPTION PHENOTYPE: Morpholino knockdown of the protein
increases both cell proliferation and apoptosis in the otocyst.
Increases proliferation of neuronal cells and decreases the number
of cells destined to form hair cells. Disrupts myogenesis by
interfering with the proliferation of dermomyotomal cells
expressing pax7 and loss of myog expression.
{ECO:0000269|PubMed:17035528, ECO:0000269|PubMed:18789916,
ECO:0000269|PubMed:19409884, ECO:0000269|PubMed:23444384}.
-!- SIMILARITY: Belongs to the SIX/Sine oculis homeobox family.
{ECO:0000305}.
-!- CAUTION: Zebrafish has two genes coding for six1 orthologs. This
gene is called six1b by ZFIN and in PubMed:23444384, but has also
been described as six1 (PubMed:17035528) and as six1a
(PubMed:15254912, PubMed:18789916, PubMed:19409884).
{ECO:0000305|PubMed:15254912, ECO:0000305|PubMed:17035528,
ECO:0000305|PubMed:18789916, ECO:0000305|PubMed:19409884}.
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EMBL; AY466110; AAS46283.1; -; mRNA.
EMBL; AY254196; AAO83592.1; -; mRNA.
EMBL; BX649231; -; NOT_ANNOTATED_CDS; Genomic_DNA.
EMBL; BC066396; AAH66396.1; -; mRNA.
RefSeq; NP_996978.1; NM_207095.1.
UniGene; Dr.27681; -.
ProteinModelPortal; Q6NZ04; -.
SMR; Q6NZ04; -.
STRING; 7955.ENSDARP00000028379; -.
PaxDb; Q6NZ04; -.
Ensembl; ENSDART00000036124; ENSDARP00000028379; ENSDARG00000026473.
GeneID; 404627; -.
KEGG; dre:404627; -.
CTD; 404627; -.
ZFIN; ZDB-GENE-040426-2308; six1b.
eggNOG; KOG0775; Eukaryota.
eggNOG; ENOG410XRPB; LUCA.
GeneTree; ENSGT00540000070251; -.
HOGENOM; HOG000261680; -.
HOVERGEN; HBG003609; -.
InParanoid; Q6NZ04; -.
KO; K15614; -.
OMA; AGGNKQN; -.
OrthoDB; EOG091G083I; -.
PhylomeDB; Q6NZ04; -.
TreeFam; TF315545; -.
PRO; PR:Q6NZ04; -.
Proteomes; UP000000437; Chromosome 20.
Bgee; ENSDARG00000026473; -.
GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
GO; GO:0003700; F:DNA binding transcription factor activity; IEA:InterPro.
GO; GO:0043565; F:sequence-specific DNA binding; IEA:InterPro.
GO; GO:0021984; P:adenohypophysis development; IGI:ZFIN.
GO; GO:0006915; P:apoptotic process; IEA:UniProtKB-KW.
GO; GO:0008283; P:cell proliferation; IEA:InterPro.
GO; GO:0002074; P:extraocular skeletal muscle development; IMP:ZFIN.
GO; GO:0048839; P:inner ear development; IMP:ZFIN.
GO; GO:0048935; P:peripheral nervous system neuron development; IMP:ZFIN.
GO; GO:0043282; P:pharyngeal muscle development; IMP:ZFIN.
GO; GO:0014857; P:regulation of skeletal muscle cell proliferation; IMP:ZFIN.
GO; GO:0048741; P:skeletal muscle fiber development; IGI:ZFIN.
GO; GO:0051146; P:striated muscle cell differentiation; IMP:ZFIN.
GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
CDD; cd00086; homeodomain; 1.
InterPro; IPR009057; Homeobox-like_sf.
InterPro; IPR017970; Homeobox_CS.
InterPro; IPR001356; Homeobox_dom.
InterPro; IPR031278; SIX1.
InterPro; IPR031701; SIX1_SD.
PANTHER; PTHR10390:SF13; PTHR10390:SF13; 1.
Pfam; PF00046; Homeobox; 1.
Pfam; PF16878; SIX1_SD; 1.
SMART; SM00389; HOX; 1.
SUPFAM; SSF46689; SSF46689; 1.
PROSITE; PS00027; HOMEOBOX_1; 1.
PROSITE; PS50071; HOMEOBOX_2; 1.
1: Evidence at protein level;
Activator; Apoptosis; Complete proteome; Cytoplasm;
Developmental protein; DNA-binding; Homeobox; Nucleus;
Reference proteome; Repressor; Transcription;
Transcription regulation.
CHAIN 1 284 Homeobox protein six1b.
/FTId=PRO_0000422774.
DNA_BIND 124 183 Homeobox. {ECO:0000255|PROSITE-
ProRule:PRU00108}.
MUTAGEN 110 110 R->W: Abolishes regulation of hair cell
proliferation. No effect on regulation of
neuron proliferation.
{ECO:0000269|PubMed:21745464}.
MUTAGEN 129 129 Y->C: Impairs transcription factor
activity. {ECO:0000269|PubMed:21745464}.
MUTAGEN 133 133 Missing: Impairs transcription factor
activity. {ECO:0000269|PubMed:21745464}.
CONFLICT 107 107 G -> V (in Ref. 2; AAO83592).
{ECO:0000305}.
SEQUENCE 284 AA; 31975 MW; 8953F2AC44CFBE9A CRC64;
MSMLPSFGFT QEQVACVCEV LQQGGNLERL GRFLWSLPAC DHLHKNESVL KAKAVVAFHR
GNFRELYKIL ESHQFSPHNH PKLQQLWLKA HYIEAEKLRG RPLGAVGKYR VRRKFPLPRT
IWDGEETSYC FKEKSRGVLR EWYTHNPYPS PREKRELAEA TGLTTTQVSN WFKNRRQRDR
AAEAKERENS ENNNTGANKQ NQLSPLDGGK SLMSSSEDEF SPPQSPDQNS VLLLQGNMSH
PGASAYSMTG LGAAQSVHGM QGHPHQLQDS LLGPLTSSLV DLGS


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