Q62233 (SIX3_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Homeobox protein SIX3

Alternative name(s):
Sine oculis homeobox homolog 3

Gene names

Name:

Six3

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	333 AA.
Sequence status	Complete.
Protein existence	Evidence 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 component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	circadian behavior Inferred from mutant phenotype PubMed 21525287. Source: MGI diencephalon development Inferred from genetic interaction PubMed 18094027. 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 receptor signaling pathway Inferred from mutant phenotype PubMed 12569128. Source: MGI negative regulation of transcription, DNA-dependent 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
Cellular_component	nucleus Inferred from direct assay PubMed 12050133PubMed 16024294Ref.2. Source: MGI
Molecular_function	RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity Inferred from direct assay PubMed 12569128PubMed 17066077. Source: MGI sequence-specific DNA binding Inferred from direct assay Ref.2. Source: MGI
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
Aes	P63002	5	EBI-2297327,EBI-646888
gro	P16371	2	EBI-2297327,EBI-153866	From a different organism.
Tle4	Q62441	2	EBI-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 key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 333	333	Homeobox protein SIX3		PRO_0000049300
Regions
	DNA binding	207 – 266	60	Homeobox
	Compositional bias	33 – 70	38	Gly-rich
	Compositional bias	264 – 267	4	Poly-Ala
Natural variations
	Alternative sequence	271 – 286	16	LQHQA…RSLAE → SVAGTAARPPQA in isoform SIX3A.		VSP_002291
	Alternative sequence	287 – 333	47	Missing in isoform SIX3A.		VSP_002292
Experimental info
	Sequence conflict	44	1	G → GG Ref.1
	Sequence conflict	118 – 119	2	VA → WP in CAA62379. Ref.1
	Sequence conflict	278 – 333	56	PSGMR…SECDV → ERDALPGRARLPHARLSRVT VHGGQPDHQCVQPDGARGHR HFDPLGNLQRLGM Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform SIX3B [UniParc]. Last modified December 15, 1998. Version 2. Checksum: 1AD7D3C4388043B9	FASTA	333	35,593
	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
	Isoform SIX3A [UniParc]. Checksum: A549F11FB9A48237	FASTA	282	30,456
	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 AQATGLTPTQ VGNWFKNRRQ RDRAAAAKNR SVAGTAARPP QA

References

	« Hide 'large scale' referencesShow '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.
IPI	IPI00123350. IPI00986785.
PIR	S74255.
RefSeq	NP_035511.2. NM_011381.4.
UniGene	Mm.370208. Mm.391586.
3D structure databases
ProteinModelPortal	Q62233.
SMR	Q62233. Positions 220-261.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-46499N.
IntAct	Q62233. 3 interactions.
STRING	10090.ENSMUSP00000039867.
PTM databases
PhosphoSite	Q62233.
Proteomic databases
PRIDE	Q62233.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000175898; ENSMUSP00000135677; ENSMUSG00000038805.
GeneID	20473.
KEGG	mmu:20473.
UCSC	uc008dtz.2. mouse.
Organism-specific databases
CTD	6496.
MGI	MGI:102764. Six3.
Phylogenomic databases
eggNOG	NOG244436.
GeneTree	ENSGT00540000070251.
HOVERGEN	HBG003609.
InParanoid	Q4QQQ3.
OrthoDB	EOG4ZKJMW.
Gene expression databases
ArrayExpress	Q62233.
Bgee	Q62233.
Genevestigator	Q62233.
GermOnline	ENSMUSG00000038805. Mus musculus.
Family and domain databases
Gene3D	1.10.10.60. 1 hit.
InterPro	IPR001356. Homeodomain. IPR009057. Homeodomain-like. [Graphical view]
Pfam	PF00046. Homeobox. 1 hit. [Graphical view]
SMART	SM00389. HOX. 1 hit. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 1 hit.
PROSITE	PS00027. HOMEOBOX_1. False negative. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	298587.
SOURCE	Search...

Entry information

Entry name

SIX3_MOUSE

Accession

Primary (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:	May 29, 2013
This is version 113 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program