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Protein

Homeobox protein six1b

Gene

six1b

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

Functioni

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.5 Publications

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).4 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi124 – 183HomeoboxPROSITE-ProRule annotationAdd BLAST60

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, Developmental protein, DNA-binding, Repressor
Biological processApoptosis, Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Homeobox protein six1b
Alternative name(s):
Homeobox protein six1a
Sine oculis homeobox homolog 1a
Sine oculis homeobox homolog 1b
Gene namesi
Name:six1b
Synonyms:six1, six1a
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 20

Organism-specific databases

ZFINiZDB-GENE-040426-2308 six1b

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Disruption phenotypei

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.4 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi110R → W: Abolishes regulation of hair cell proliferation. No effect on regulation of neuron proliferation. 1 Publication1
Mutagenesisi129Y → C: Impairs transcription factor activity. 1 Publication1
Mutagenesisi133Missing : Impairs transcription factor activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004227741 – 284Homeobox protein six1bAdd BLAST284

Proteomic databases

PaxDbiQ6NZ04

Expressioni

Developmental stagei

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.4 Publications

Gene expression databases

BgeeiENSDARG00000026473 Expressed in 48 organ(s), highest expression level in material anatomical entity

Interactioni

Subunit structurei

Interacts with eya1.1 Publication

Protein-protein interaction databases

STRINGi7955.ENSDARP00000028379

Structurei

3D structure databases

ProteinModelPortaliQ6NZ04
SMRiQ6NZ04
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the SIX/Sine oculis homeobox family.Curated

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiKOG0775 Eukaryota
ENOG410XRPB LUCA
GeneTreeiENSGT00540000070251
HOGENOMiHOG000261680
HOVERGENiHBG003609
InParanoidiQ6NZ04
KOiK15614
OMAiAGGNKQN
OrthoDBiEOG091G083I
PhylomeDBiQ6NZ04
TreeFamiTF315545

Family and domain databases

CDDicd00086 homeodomain, 1 hit
InterProiView protein in InterPro
IPR009057 Homeobox-like_sf
IPR017970 Homeobox_CS
IPR001356 Homeobox_dom
IPR031278 SIX1
IPR031701 SIX1_SD
PANTHERiPTHR10390:SF13 PTHR10390:SF13, 1 hit
PfamiView protein in Pfam
PF00046 Homeobox, 1 hit
PF16878 SIX1_SD, 1 hit
SMARTiView protein in SMART
SM00389 HOX, 1 hit
SUPFAMiSSF46689 SSF46689, 1 hit
PROSITEiView protein in PROSITE
PS00027 HOMEOBOX_1, 1 hit
PS50071 HOMEOBOX_2, 1 hit

Sequencei

Sequence statusi: Complete.

Q6NZ04-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSMLPSFGFT QEQVACVCEV LQQGGNLERL GRFLWSLPAC DHLHKNESVL
60 70 80 90 100
KAKAVVAFHR GNFRELYKIL ESHQFSPHNH PKLQQLWLKA HYIEAEKLRG
110 120 130 140 150
RPLGAVGKYR VRRKFPLPRT IWDGEETSYC FKEKSRGVLR EWYTHNPYPS
160 170 180 190 200
PREKRELAEA TGLTTTQVSN WFKNRRQRDR AAEAKERENS ENNNTGANKQ
210 220 230 240 250
NQLSPLDGGK SLMSSSEDEF SPPQSPDQNS VLLLQGNMSH PGASAYSMTG
260 270 280
LGAAQSVHGM QGHPHQLQDS LLGPLTSSLV DLGS
Length:284
Mass (Da):31,975
Last modified:July 5, 2004 - v1
Checksum:i8953F2AC44CFBE9A
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti107G → V in AAO83592 (PubMed:17035528).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY466110 mRNA Translation: AAS46283.1
AY254196 mRNA Translation: AAO83592.1
BX649231 Genomic DNA No translation available.
BC066396 mRNA Translation: AAH66396.1
RefSeqiNP_996978.1, NM_207095.1
UniGeneiDr.27681

Genome annotation databases

EnsembliENSDART00000036124; ENSDARP00000028379; ENSDARG00000026473
GeneIDi404627
KEGGidre:404627

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY466110 mRNA Translation: AAS46283.1
AY254196 mRNA Translation: AAO83592.1
BX649231 Genomic DNA No translation available.
BC066396 mRNA Translation: AAH66396.1
RefSeqiNP_996978.1, NM_207095.1
UniGeneiDr.27681

3D structure databases

ProteinModelPortaliQ6NZ04
SMRiQ6NZ04
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000028379

Proteomic databases

PaxDbiQ6NZ04

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000036124; ENSDARP00000028379; ENSDARG00000026473
GeneIDi404627
KEGGidre:404627

Organism-specific databases

CTDi404627
ZFINiZDB-GENE-040426-2308 six1b

Phylogenomic databases

eggNOGiKOG0775 Eukaryota
ENOG410XRPB LUCA
GeneTreeiENSGT00540000070251
HOGENOMiHOG000261680
HOVERGENiHBG003609
InParanoidiQ6NZ04
KOiK15614
OMAiAGGNKQN
OrthoDBiEOG091G083I
PhylomeDBiQ6NZ04
TreeFamiTF315545

Miscellaneous databases

PROiPR:Q6NZ04

Gene expression databases

BgeeiENSDARG00000026473 Expressed in 48 organ(s), highest expression level in material anatomical entity

Family and domain databases

CDDicd00086 homeodomain, 1 hit
InterProiView protein in InterPro
IPR009057 Homeobox-like_sf
IPR017970 Homeobox_CS
IPR001356 Homeobox_dom
IPR031278 SIX1
IPR031701 SIX1_SD
PANTHERiPTHR10390:SF13 PTHR10390:SF13, 1 hit
PfamiView protein in Pfam
PF00046 Homeobox, 1 hit
PF16878 SIX1_SD, 1 hit
SMARTiView protein in SMART
SM00389 HOX, 1 hit
SUPFAMiSSF46689 SSF46689, 1 hit
PROSITEiView protein in PROSITE
PS00027 HOMEOBOX_1, 1 hit
PS50071 HOMEOBOX_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSIX1B_DANRE
AccessioniPrimary (citable) accession number: Q6NZ04
Secondary accession number(s): Q05FF5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 26, 2013
Last sequence update: July 5, 2004
Last modified: September 12, 2018
This is version 114 of the entry and version 1 of the sequence. See 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
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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