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Protein

Homeobox protein six1b

Gene

six1b

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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

Regions

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

GO - Molecular functioni

GO - Biological processi

  • adenohypophysis development Source: ZFIN
  • apoptotic process Source: UniProtKB-KW
  • cell proliferation Source: InterPro
  • extraocular skeletal muscle development Source: ZFIN
  • inner ear development Source: ZFIN
  • peripheral nervous system neuron development Source: ZFIN
  • pharyngeal muscle development Source: ZFIN
  • regulation of skeletal muscle cell proliferation Source: ZFIN
  • skeletal muscle fiber development Source: ZFIN
  • striated muscle cell differentiation Source: ZFIN
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Developmental protein, Repressor

Keywords - Biological processi

Apoptosis, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

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

  • Nucleus By similarity
  • Cytoplasm By similarity

GO - Cellular componenti

Complete GO annotation...

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.

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
Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

Homeobox

Phylogenomic databases

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

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR031278. SIX1.
IPR031701. SIX1_SD.
[Graphical view]
PANTHERiPTHR10390:SF13. PTHR10390:SF13. 1 hit.
PfamiPF00046. Homeobox. 1 hit.
PF16878. SIX1_SD. 1 hit.
[Graphical view]
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

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.

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

PROiQ6NZ04.

Gene expression databases

BgeeiENSDARG00000026473.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR031278. SIX1.
IPR031701. SIX1_SD.
[Graphical view]
PANTHERiPTHR10390:SF13. PTHR10390:SF13. 1 hit.
PfamiPF00046. Homeobox. 1 hit.
PF16878. SIX1_SD. 1 hit.
[Graphical view]
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSIX1B_DANRE
AccessioniPrimary (citable) accession number: Q6NZ04
Secondary accession number(s): Q05FF5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 26, 2013
Last sequence update: July 5, 2004
Last modified: November 2, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

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

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.