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Q62233 (SIX3_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 124. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Homeobox protein SIX3
Alternative name(s):
Sine oculis homeobox homolog 3
Gene names
Name:Six3
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length333 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May be involved in visual system development.

Subcellular location

Nucleus.

Developmental stage

First expressed at E6.5 of embryo development around the anterior border. At E8.5, expression is found over the anterior neural plate. At E9.5, in the diencephalic part of the ventral forebrain, optic vesicles, olfactory placodes and Rathke pouch. In later stages, present in hypothalamus, eyes and pituitary.

Sequence similarities

Belongs to the SIX/Sine oculis homeobox family.

Contains 1 homeobox DNA-binding domain.

Sequence caution

The sequence CAA62379.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   DomainHomeobox
   LigandDNA-binding
   Molecular functionDevelopmental protein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processbrain development

Inferred from mutant phenotype PubMed 12569128. Source: MGI

camera-type eye development

Inferred from genetic interaction PubMed 12072567. Source: MGI

circadian behavior

Inferred from mutant phenotype PubMed 21525287. Source: MGI

diencephalon development

Inferred from genetic interaction PubMed 18094027. Source: MGI

eye development

Inferred from direct assay PubMed 12050133. Source: MGI

forebrain anterior/posterior pattern specification

Inferred from mutant phenotype PubMed 18094027. Source: MGI

lens induction in camera-type eye

Inferred from mutant phenotype PubMed 17066077. Source: MGI

negative regulation of Wnt signaling pathway

Inferred from mutant phenotype PubMed 12569128. Source: MGI

negative regulation of transcription, DNA-templated

Inferred from direct assay PubMed 12050133. Source: MGI

positive regulation of transcription from RNA polymerase II promoter

Inferred from direct assay PubMed 17066077. Source: MGI

protein import into nucleus

Inferred from direct assay PubMed 16024294. Source: MGI

telencephalon development

Inferred from mutant phenotype PubMed 18094027. Source: MGI

transcription from RNA polymerase II promoter

Inferred from direct assay PubMed 12569128PubMed 17066077. Source: GOC

   Cellular_componentnucleus

Inferred from direct assay PubMed 12050133PubMed 16024294Ref.2. Source: MGI

   Molecular_functionDNA binding

Inferred from direct assay PubMed 12050133. Source: MGI

RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity

Inferred from direct assay PubMed 12569128PubMed 17066077. Source: MGI

protein binding

Inferred from physical interaction PubMed 12050133. Source: IntAct

sequence-specific DNA binding

Inferred from direct assay Ref.2. Source: MGI

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

AesP630025EBI-2297327,EBI-646888
groP163712EBI-2297327,EBI-153866From a different organism.
Tle4Q624412EBI-2297327,EBI-2297871

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform SIX3B (identifier: Q62233-1)

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.
Isoform SIX3A (identifier: Q62233-2)

The sequence of this isoform differs from the canonical sequence as follows:
     271-286: LQHQAIGPSGMRSLAE → SVAGTAARPPQA
     287-333: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 333333Homeobox protein SIX3
PRO_0000049300

Regions

DNA binding207 – 26660Homeobox
Compositional bias33 – 7038Gly-rich
Compositional bias264 – 2674Poly-Ala

Natural variations

Alternative sequence271 – 28616LQHQA…RSLAE → SVAGTAARPPQA in isoform SIX3A.
VSP_002291
Alternative sequence287 – 33347Missing in isoform SIX3A.
VSP_002292

Experimental info

Sequence conflict441G → GG Ref.1
Sequence conflict118 – 1192VA → WP in CAA62379. Ref.1
Sequence conflict278 – 33356PSGMR…SECDV → ERDALPGRARLPHARLSRVT VHGGQPDHQCVQPDGARGHR HFDPLGNLQRLGM Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform SIX3B [UniParc].

Last modified December 15, 1998. Version 2.
Checksum: 1AD7D3C4388043B9

FASTA33335,593
        10         20         30         40         50         60 
MVFRSPLDLY SSHFLLPNFA DSHHCSLLLA SSGGGSGASG GGGGAGGGGG GNRAGGGGAG 

        70         80         90        100        110        120 
GAGGGSGGGG SRAPPEELSM FQLPTLNFSP EQVASVCETL EETGDIERLG RFLWSLPVAP 

       130        140        150        160        170        180 
GACEAINKHE SILRARAVVA FHTGNFRDLY HILENHKFTK ESHGKLQAMW LEAHYQEAEK 

       190        200        210        220        230        240 
LRGRPLGPVD KYRVRKKFPL PRTIWDGEQK THCFKERTRS LLREWYLQDP YPNPSKKREL 

       250        260        270        280        290        300 
AQATGLTPTQ VGNWFKNRRQ RDRAAAAKNR LQHQAIGPSG MRSLAEPGCP THGSAESPST 

       310        320        330 
AASPTTSVSS LTERADTGTS ILSVTSSDSE CDV 

« Hide

Isoform SIX3A [UniParc].

Checksum: A549F11FB9A48237
Show »

FASTA28230,456

References

« Hide 'large scale' references
[1]"Six3, a murine homologue of the sine oculis gene, demarcates the most anterior border of the developing neural plate and is expressed during eye development."
Oliver G., Mailhos A., Wehr R., Copeland N.G., Jenkins N.A., Gruss P.
Development 121:4045-4055(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Strain: BALB/c.
Tissue: Embryonic brain.
[2]"Identification and expression of Six family genes in mouse retina."
Kawakami K., Ohto H., Takizawa T., Saito T.
FEBS Lett. 393:259-263(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Strain: BALB/c.
[3]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM SIX3B).
Strain: C57BL/6.
Tissue: Brain.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X90871 mRNA. Translation: CAA62379.1. Different initiation.
D83144 mRNA. Translation: BAA11822.1.
D83145 mRNA. Translation: BAA11823.1.
BC098096 mRNA. Translation: AAH98096.1.
CCDSCCDS50203.1. [Q62233-1]
PIRS74255.
RefSeqNP_035511.2. NM_011381.4. [Q62233-1]
UniGeneMm.370208.
Mm.391586.

3D structure databases

ProteinModelPortalQ62233.
SMRQ62233. Positions 80-268.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid203261. 4 interactions.
DIPDIP-46499N.
IntActQ62233. 3 interactions.
STRING10090.ENSMUSP00000039867.

PTM databases

PhosphoSiteQ62233.

Proteomic databases

PRIDEQ62233.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000175898; ENSMUSP00000135677; ENSMUSG00000038805. [Q62233-1]
ENSMUST00000176081; ENSMUSP00000135312; ENSMUSG00000038805. [Q62233-1]
GeneID20473.
KEGGmmu:20473.
UCSCuc008dtz.2. mouse. [Q62233-1]

Organism-specific databases

CTD6496.
MGIMGI:102764. Six3.

Phylogenomic databases

eggNOGNOG244436.
GeneTreeENSGT00540000070251.
HOVERGENHBG003609.
InParanoidQ4QQQ3.
TreeFamTF315545.

Gene expression databases

ArrayExpressQ62233.
BgeeQ62233.
GenevestigatorQ62233.

Family and domain databases

Gene3D1.10.10.60. 1 hit.
InterProIPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
[Graphical view]
PfamPF00046. Homeobox. 1 hit.
[Graphical view]
SMARTSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMSSF46689. SSF46689. 1 hit.
PROSITEPS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio298587.
PROQ62233.
SOURCESearch...

Entry information

Entry nameSIX3_MOUSE
AccessionPrimary (citable) accession number: Q62233
Secondary accession number(s): P70176, P70177, Q4QQQ3
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: December 15, 1998
Last modified: July 9, 2014
This is version 124 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot