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Protein

Iroquois-class homeodomain protein IRX-4

Gene

Irx4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Likely to be an important mediator of ventricular differentiation during cardiac development.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi144 – 20562Homeobox; TALE-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. sequence-specific DNA binding Source: InterPro

GO - Biological processi

  1. cell differentiation Source: UniProtKB-KW
  2. establishment of organ orientation Source: Ensembl
  3. heart development Source: MGI
  4. regulation of transcription from RNA polymerase II promoter Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Iroquois-class homeodomain protein IRX-4
Alternative name(s):
Homeodomain protein IRXA3
Iroquois homeobox protein 4
Gene namesi
Name:Irx4
Synonyms:Irxa3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 13

Organism-specific databases

MGIiMGI:1355275. Irx4.

Subcellular locationi

Nucleus Curated

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
  2. transcription factor complex Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 515515Iroquois-class homeodomain protein IRX-4PRO_0000049158Add
BLAST

Proteomic databases

PRIDEiQ9QY61.

PTM databases

PhosphoSiteiQ9QY61.

Expressioni

Tissue specificityi

Expressed in the developing central nervous system, skin, and vibrissae, but predominantly expressed in the cardiac ventricles of the developing heart. Not expressed in the developing metanephric kidney or adult kidney.2 Publications

Gene expression databases

BgeeiQ9QY61.
CleanExiMM_IRX4.
GenevestigatoriQ9QY61.

Interactioni

Subunit structurei

Interacts with the vitamin D receptor VDR but doesn't affect its transactivation activity.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ9QY61.
SMRiQ9QY61. Positions 152-201.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi119 – 1224Poly-Ala
Compositional biasi224 – 2296Poly-Glu
Compositional biasi376 – 3838Poly-Ala

Sequence similaritiesi

Belongs to the TALE/IRO homeobox family.Curated
Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG310996.
GeneTreeiENSGT00750000117365.
HOGENOMiHOG000234546.
HOVERGENiHBG006180.
InParanoidiQ9QY61.
OMAiTTLRNWV.
OrthoDBiEOG7J1802.
PhylomeDBiQ9QY61.
TreeFamiTF319371.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR008422. Homeobox_KN_domain.
IPR009057. Homeodomain-like.
IPR003893. Iroquois_homeo.
[Graphical view]
PfamiPF05920. Homeobox_KN. 1 hit.
[Graphical view]
SMARTiSM00389. HOX. 1 hit.
SM00548. IRO. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9QY61-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSYPQFGYPY SSAPQFLMTT NSLSTCCESG GRTLADSGPA ASAQAPVYCP
60 70 80 90 100
VYESRLLATA RHELNSAAAL GVYGSPYGSS QGYGNYVTYG SEASAFYSLN
110 120 130 140 150
SFESKDGTGS SHAGLPPTAA AAYYPYEPAL SQYPYDRYGT VDSGTRRKNA
160 170 180 190 200
TRETTSTLKA WLQEHRKNPY PTKGEKIMLA IITKMTLTQV STWFANARRR
210 220 230 240 250
LKKENKMTWP PRNKCADEKR PYGEGEEEEA GEEESREEPL KSAKSEGHAG
260 270 280 290 300
KDDKELELSD LEDFDPLDAE TSECELKTPF QSLDSGPERI PASSDGPGTG
310 320 330 340 350
KEASTTLRMP LGTAGGAVMD GDLERARNCL RSTVVVPDSG AEGGPPACEA
360 370 380 390 400
KLTFAQAGAP PNLETKPRIW SLAHTATAAA ATALSQTEFP SCMLKRQGPT
410 420 430 440 450
GVSATTPASS PAVTAPSGAL DRHQDSPVTS LRNWVDGVFH DPILRHSTLN
460 470 480 490 500
QAWATAKGAL LDPGPLGRNL GAGTNVLTTP LACSFPPTVP QDVPPAGASR
510
ELLATPKAGG KPFCT
Length:515
Mass (Da):54,701
Last modified:May 1, 2000 - v1
Checksum:iA3E7C67B7D5334BE
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti215 – 2151C → Y in BAE21235 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF124732 mRNA. Translation: AAF23886.1.
AK132571 mRNA. Translation: BAE21235.1.
CH466563 Genomic DNA. Translation: EDL37045.1.
BC126942 mRNA. Translation: AAI26943.1.
CCDSiCCDS26629.1.
RefSeqiNP_061373.1. NM_018885.2.
XP_006517355.1. XM_006517292.1.
XP_006517356.1. XM_006517293.1.
XP_006517357.1. XM_006517294.1.
XP_006517358.1. XM_006517295.1.
XP_006517359.1. XM_006517296.1.
UniGeneiMm.103784.

Genome annotation databases

EnsembliENSMUST00000022095; ENSMUSP00000022095; ENSMUSG00000021604.
ENSMUST00000176684; ENSMUSP00000134738; ENSMUSG00000021604.
GeneIDi50916.
KEGGimmu:50916.
UCSCiuc007rdf.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF124732 mRNA. Translation: AAF23886.1.
AK132571 mRNA. Translation: BAE21235.1.
CH466563 Genomic DNA. Translation: EDL37045.1.
BC126942 mRNA. Translation: AAI26943.1.
CCDSiCCDS26629.1.
RefSeqiNP_061373.1. NM_018885.2.
XP_006517355.1. XM_006517292.1.
XP_006517356.1. XM_006517293.1.
XP_006517357.1. XM_006517294.1.
XP_006517358.1. XM_006517295.1.
XP_006517359.1. XM_006517296.1.
UniGeneiMm.103784.

3D structure databases

ProteinModelPortaliQ9QY61.
SMRiQ9QY61. Positions 152-201.
ModBaseiSearch...
MobiDBiSearch...

PTM databases

PhosphoSiteiQ9QY61.

Proteomic databases

PRIDEiQ9QY61.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000022095; ENSMUSP00000022095; ENSMUSG00000021604.
ENSMUST00000176684; ENSMUSP00000134738; ENSMUSG00000021604.
GeneIDi50916.
KEGGimmu:50916.
UCSCiuc007rdf.2. mouse.

Organism-specific databases

CTDi50805.
MGIiMGI:1355275. Irx4.

Phylogenomic databases

eggNOGiNOG310996.
GeneTreeiENSGT00750000117365.
HOGENOMiHOG000234546.
HOVERGENiHBG006180.
InParanoidiQ9QY61.
OMAiTTLRNWV.
OrthoDBiEOG7J1802.
PhylomeDBiQ9QY61.
TreeFamiTF319371.

Miscellaneous databases

NextBioi307915.
PROiQ9QY61.
SOURCEiSearch...

Gene expression databases

BgeeiQ9QY61.
CleanExiMM_IRX4.
GenevestigatoriQ9QY61.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR008422. Homeobox_KN_domain.
IPR009057. Homeodomain-like.
IPR003893. Iroquois_homeo.
[Graphical view]
PfamiPF05920. Homeobox_KN. 1 hit.
[Graphical view]
SMARTiSM00389. HOX. 1 hit.
SM00548. IRO. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cardiac expression of the ventricle-specific homeobox gene Irx4 is modulated by Nkx2-5 and dHand."
    Bruneau B.G., Bao Z.-Z., Tanaka M., Schott J.-J., Izumo S., Cepko C.L., Seidman J.G., Seidman C.E.
    Dev. Biol. 217:266-277(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROBABLE FUNCTION, TISSUE SPECIFICITY.
    Tissue: Embryonic heart.
  2. "Patterning the embryonic heart: identification of five mouse Iroquois homeobox genes in the developing heart."
    Christoffels V.M., Keijser A.G.M., Houweling A.C., Clout D.E.W., Moorman A.F.M.
    Dev. Biol. 224:263-274(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    Strain: FVB/N.
    Tissue: Embryonic heart.
  3. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Head.
  4. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "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].
  6. "The prepattern transcription factor Irx3 directs nephron segment identity."
    Reggiani L., Raciti D., Airik R., Kispert A., Braendli A.W.
    Genes Dev. 21:2358-2370(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: LACK OF RENAL EXPRESSION.

Entry informationi

Entry nameiIRX4_MOUSE
AccessioniPrimary (citable) accession number: Q9QY61
Secondary accession number(s): A0JNT5, Q3V1B6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 16, 2002
Last sequence update: May 1, 2000
Last modified: January 7, 2015
This is version 101 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.