Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Iroquois-class homeodomain protein IRX-3

Gene

Irx3

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Transcription factor. Involved in SHH-dependent neural patterning. Together with NKX2-2 and NKX6-1 acts to restrict the generation of motor neurons to the appropriate region of the neural tube. Belongs to the class I proteins of neuronal progenitor factors, which are repressed by SHH signals. Involved in the transcriptional repression of MNX1 in non-motor neuron cells.2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi130 – 192Homeobox; TALE-typePROSITE-ProRule annotationAdd BLAST63

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDevelopmental protein, DNA-binding, Repressor
Biological processTranscription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Iroquois-class homeodomain protein IRX-3
Alternative name(s):
Homeodomain protein IRXB1
Iroquois homeobox protein 3
Gene namesi
Name:Irx3
Synonyms:Irxb1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:1197522 Irx3

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

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000491561 – 507Iroquois-class homeodomain protein IRX-3Add BLAST507

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei326PhosphoserineCombined sources1
Modified residuei329PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiP81067
PRIDEiP81067

PTM databases

iPTMnetiP81067
PhosphoSitePlusiP81067

Expressioni

Tissue specificityi

Expressed by neural progenitor cells in discrete domains of the ventral neural tube. Also expressed in specific and overlapping patterns with Irx1 and Irx2 in the developing and adult metanephric kidney. In the adult metanephros, renal expression is confined to the S3 segment of the proximal tubule, in the loop of Henle.2 Publications

Developmental stagei

The earliest expressed of the Irx family, with expression seen in trophectoderm-derived extraembryonic tissues from E6.5, including expression in the chorionic ectoderm at E8.0. Embryonic expression starts at the end of gastrulation (E7.5) in the ectodermal layer which gives rise to the nervous system. At E8.0, expression is confined to the thickening neural ectoderm corresponding to the future mesencephalon (midbrain) and rhombencephalon (hindbrain) and from E8.5 onwards, expression also includes the rostral part of the closing neural tube. After neural tube closure at E9.5, expression predominates in the CNS in the midbrain, hindbrain and spinal cord. Also expressed in a number of tissues outside of the CNS including ectodermal layer of the branchial arches. Expressed in the prospective limb buds of the lateral plate mesoderm, and from E10.5 onwards a gradient exists along the dorsoventral and proximodistal axes of developing limbs. Expressed in the notochord at stage E9.0. At E9.5 found in the cephalic mesoderm surrounding the optic vesicle. Around E10.5, expression in the head mesoderm extends into the nasal pits. By E12.5, still expressed in the mesenchyme, and expressions begins in specific subsets of post-mitotic cells in the neuroretina. As development ensues, expression increases in the neuroretina and mesenchymal expression gradually decreases. At E16.5, expressed exclusively in the inner neuroblast layers of the neuroretina. In the developing heart, first expressed in the trabecules of embryonic ventricles at E9.5, and from then onwards localizes specifically to the trabeculated myocardium of the ventricles.4 Publications

Gene expression databases

BgeeiENSMUSG00000031734 Expressed in 301 organ(s), highest expression level in stria vascularis of cochlear duct
CleanExiMM_IRX3
GenevisibleiP81067 MM

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000091002

Structurei

3D structure databases

ProteinModelPortaliP81067
SMRiP81067
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi24 – 29Poly-Gly6
Compositional biasi64 – 73Poly-Ala10
Compositional biasi204 – 260Glu-richAdd BLAST57
Compositional biasi315 – 429Pro-richAdd BLAST115
Compositional biasi379 – 461Ala-richAdd BLAST83

Sequence similaritiesi

Belongs to the TALE/IRO homeobox family.Curated

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiKOG0773 Eukaryota
ENOG410XPMQ LUCA
GeneTreeiENSGT00750000117365
HOGENOMiHOG000234546
HOVERGENiHBG006180
InParanoidiP81067
OMAiNWTNRAF
OrthoDBiEOG091G0N9R
PhylomeDBiP81067
TreeFamiTF319371

Family and domain databases

CDDicd00086 homeodomain, 1 hit
InterProiView protein in InterPro
IPR009057 Homeobox-like_sf
IPR017970 Homeobox_CS
IPR001356 Homeobox_dom
IPR008422 Homeobox_KN_domain
IPR003893 Iroquois_homeo
PfamiView protein in Pfam
PF05920 Homeobox_KN, 1 hit
SMARTiView protein in SMART
SM00389 HOX, 1 hit
SM00548 IRO, 1 hit
SUPFAMiSSF46689 SSF46689, 1 hit
PROSITEiView protein in PROSITE
PS00027 HOMEOBOX_1, 1 hit
PS50071 HOMEOBOX_2, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: P81067-1) [UniParc]FASTAAdd to basket

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.

« Hide
        10         20         30         40         50
MSFPQLGYQY IRPLYPPERP GAAGGGGGGS SAGGRSGPGA GASELAASGS
60 70 80 90 100
LSNVLSSVYG APYAAAAAAA AAAQGYGAFL PYATELPIFP QLGAQYELKD
110 120 130 140 150
SPGVQHPATA AAFPHPHPAF YPYGQYQFGD PSRPKNATRE STSTLKAWLN
160 170 180 190 200
EHRKNPYPTK GEKIMLAIIT KMTLTQVSTW FANARRRLKK ENKMTWAPRS
210 220 230 240 250
RTDEEGNAYG SEREEEDEEE DEEESKRELE MEEEELAGEE EDTGGEGLAD
260 270 280 290 300
DDEDEEIDLE NLDSAAAGSE LTLAGAAHRN GDFGLGPISD CKTSDSDDSS
310 320 330 340 350
EGLEDRPLSV LSLAPPPPPV ARAPASPPSP PSSLDPCAPA PAPSSALQKP
360 370 380 390 400
KIWSLAETAT SPDNPRRSPP GAGGSPPGAA VAPPTLQLSP AAAAAAAAAH
410 420 430 440 450
RLVSAPLGKF PAWTNRPFPG PPAGPRPHPL SMLGSAPQHL LGLPGAAGHP
460 470 480 490 500
AAAAAAYARP AEPESGTDRC SALEVEKKLL KTAFQPVPRR PQNHLDAALV

LSALSSS
Length:507
Mass (Da):52,693
Last modified:November 3, 2009 - v2
Checksum:i04FD67E8F5C29AB6
GO
Isoform 2 (identifier: P81067-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     468-507: DRCSALEVEK...ALVLSALSSS → GDKKNIAVVP...NFSTIFKSLY

Note: No experimental confirmation available.
Show »
Length:522
Mass (Da):54,893
Checksum:i65929DB6FC66C07E
GO

Sequence cautioni

The sequence CAA75233 differs from that shown. Reason: Frameshift at positions 239 and 254.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti494H → R in CAA75233 (PubMed:9486539).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_038351468 – 507DRCSA…ALSSS → GDKKNIAVVPWKWRKSYSRQ LSSRCQGGHRTIWTLLWSYQ LSPRLNFSTIFKSLY in isoform 2. 1 PublicationAdd BLAST40

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y15001 mRNA Translation: CAA75233.1 Frameshift.
AK143023 mRNA Translation: BAE25251.1
CH466525 Genomic DNA Translation: EDL11081.1
BC085500 mRNA Translation: AAH85500.1
CCDSiCCDS57630.1 [P81067-2]
CCDS57631.1 [P81067-1]
RefSeqiNP_001240751.1, NM_001253822.1 [P81067-2]
NP_032419.2, NM_008393.3 [P81067-1]
UniGeneiMm.238044

Genome annotation databases

EnsembliENSMUST00000093312; ENSMUSP00000091002; ENSMUSG00000031734 [P81067-2]
ENSMUST00000175795; ENSMUSP00000135488; ENSMUSG00000031734 [P81067-1]
GeneIDi16373
KEGGimmu:16373
UCSCiuc009msu.2 mouse [P81067-1]
uc009msv.2 mouse [P81067-2]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y15001 mRNA Translation: CAA75233.1 Frameshift.
AK143023 mRNA Translation: BAE25251.1
CH466525 Genomic DNA Translation: EDL11081.1
BC085500 mRNA Translation: AAH85500.1
CCDSiCCDS57630.1 [P81067-2]
CCDS57631.1 [P81067-1]
RefSeqiNP_001240751.1, NM_001253822.1 [P81067-2]
NP_032419.2, NM_008393.3 [P81067-1]
UniGeneiMm.238044

3D structure databases

ProteinModelPortaliP81067
SMRiP81067
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000091002

PTM databases

iPTMnetiP81067
PhosphoSitePlusiP81067

Proteomic databases

PaxDbiP81067
PRIDEiP81067

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000093312; ENSMUSP00000091002; ENSMUSG00000031734 [P81067-2]
ENSMUST00000175795; ENSMUSP00000135488; ENSMUSG00000031734 [P81067-1]
GeneIDi16373
KEGGimmu:16373
UCSCiuc009msu.2 mouse [P81067-1]
uc009msv.2 mouse [P81067-2]

Organism-specific databases

CTDi79191
MGIiMGI:1197522 Irx3

Phylogenomic databases

eggNOGiKOG0773 Eukaryota
ENOG410XPMQ LUCA
GeneTreeiENSGT00750000117365
HOGENOMiHOG000234546
HOVERGENiHBG006180
InParanoidiP81067
OMAiNWTNRAF
OrthoDBiEOG091G0N9R
PhylomeDBiP81067
TreeFamiTF319371

Miscellaneous databases

PROiPR:P81067
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000031734 Expressed in 301 organ(s), highest expression level in stria vascularis of cochlear duct
CleanExiMM_IRX3
GenevisibleiP81067 MM

Family and domain databases

CDDicd00086 homeodomain, 1 hit
InterProiView protein in InterPro
IPR009057 Homeobox-like_sf
IPR017970 Homeobox_CS
IPR001356 Homeobox_dom
IPR008422 Homeobox_KN_domain
IPR003893 Iroquois_homeo
PfamiView protein in Pfam
PF05920 Homeobox_KN, 1 hit
SMARTiView protein in SMART
SM00389 HOX, 1 hit
SM00548 IRO, 1 hit
SUPFAMiSSF46689 SSF46689, 1 hit
PROSITEiView protein in PROSITE
PS00027 HOMEOBOX_1, 1 hit
PS50071 HOMEOBOX_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiIRX3_MOUSE
AccessioniPrimary (citable) accession number: P81067
Secondary accession number(s): Q3UPZ3, Q5U3K8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: November 3, 2009
Last modified: November 7, 2018
This is version 120 of the entry and version 2 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
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

We'd like to inform you that we have updated our Privacy Notice to comply with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018.

Do not show this banner again