IRX5_XENLA
ID IRX5_XENLA Reviewed; 474 AA.
AC Q90XW5;
DT 03-NOV-2009, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 95.
DE RecName: Full=Iroquois-class homeodomain protein irx-5 {ECO:0000303|PubMed:11455441};
DE AltName: Full=Iroquois homeobox protein 5 {ECO:0000250|UniProtKB:P78411};
GN Name=irx5;
OS Xenopus laevis (African clawed frog).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia;
OC Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus.
OX NCBI_TaxID=8355;
RN [1] {ECO:0000305, ECO:0000312|EMBL:AAK96066.1}
RP NUCLEOTIDE SEQUENCE [MRNA], AND TISSUE SPECIFICITY.
RX PubMed=11455441; DOI=10.1007/s004270100147;
RA Garriock R.J., Vokes S.A., Small E.M., Larson R., Krieg P.A.;
RT "Developmental expression of the Xenopus Iroquois-family homeobox genes,
RT Irx4 and Irx5.";
RL Dev. Genes Evol. 211:257-260(2001).
RN [2] {ECO:0000305}
RP TISSUE SPECIFICITY, AND INDUCTION.
RX PubMed=12701098; DOI=10.1002/dvdy.10287;
RA Theokli C., Morsi El-Kadi A.S., Morgan R.;
RT "TALE class homeodomain gene Irx5 is an immediate downstream target for
RT Hoxb4 transcriptional regulation.";
RL Dev. Dyn. 227:48-55(2003).
RN [3] {ECO:0000305}
RP LACK OF EXPRESSION IN THE PRONEPHROS.
RX PubMed=17875669; DOI=10.1101/gad.450707;
RA Reggiani L., Raciti D., Airik R., Kispert A., Braendli A.W.;
RT "The prepattern transcription factor Irx3 directs nephron segment
RT identity.";
RL Genes Dev. 21:2358-2370(2007).
RN [4] {ECO:0000305}
RP LACK OF REQUIREMENT FOR PRONEPHROS DEVELOPMENT, AND LACK OF EXPRESSION IN
RP THE PRONEPHROS.
RX PubMed=18715948; DOI=10.1242/dev.023697;
RA Alarcon P., Rodriguez-Seguel E., Fernandez-Gonzalez A., Rubio R.,
RA Gomez-Skarmeta J.L.;
RT "A dual requirement for Iroquois genes during Xenopus kidney development.";
RL Development 135:3197-3207(2008).
RN [5] {ECO:0000305}
RP FUNCTION, AND TISSUE SPECIFICITY.
RX PubMed=19268445; DOI=10.1016/j.ydbio.2009.02.028;
RA Rodriguez-Seguel E., Alarcon P., Gomez-Skarmeta J.L.;
RT "The Xenopus Irx genes are essential for neural patterning and define the
RT border between prethalamus and thalamus through mutual antagonism with the
RT anterior repressors Fezf and Arx.";
RL Dev. Biol. 329:258-268(2009).
RN [6]
RP FUNCTION.
RX PubMed=22581230; DOI=10.1038/ng.2259;
RA Bonnard C., Strobl A.C., Shboul M., Lee H., Merriman B., Nelson S.F.,
RA Ababneh O.H., Uz E., Guran T., Kayserili H., Hamamy H., Reversade B.;
RT "Mutations in IRX5 impair craniofacial development and germ cell migration
RT via SDF1.";
RL Nat. Genet. 44:709-713(2012).
CC -!- FUNCTION: Acts partially redundantly with other irx members in neural
CC patterning. Required for formation of the posterior forebrain,
CC midbrain, hindbrain, and to a lesser extent, spinal cord. Patterns the
CC neuroectoderm in both the anterior/posterior and dorsal/ventral axes.
CC Does not appear to play a role in pronephros kidney development.
CC Involved in craniofacial and gonadal development. Modulates the
CC migration of progenitor cell populations in branchial arches and gonads
CC by repressing CXCL12. {ECO:0000269|PubMed:19268445,
CC ECO:0000269|PubMed:22581230}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255, ECO:0000305}.
CC -!- TISSUE SPECIFICITY: Early in gastrulation, expressed in cells beneath
CC the blastopore lip. Subsequently expressed in the neural plate in
CC overlapping patterns with other irx members, which all share an
CC anterior border of expression. At the time of neural tube closure
CC (stage 19) in regions of the midbrain, hindbrain, neural tube and optic
CC vesicle, where expression continues during tailbud stages. In stage 34,
CC expressed throughout the eye retina. Does not appear to be expressed in
CC the developing heart or pronephros. {ECO:0000269|PubMed:11455441,
CC ECO:0000269|PubMed:12701098, ECO:0000269|PubMed:17875669,
CC ECO:0000269|PubMed:18715948, ECO:0000269|PubMed:19268445}.
CC -!- INDUCTION: By hoxb4 and hoxb5. Down-regulated by hoxb9.
CC {ECO:0000269|PubMed:12701098}.
CC -!- SIMILARITY: Belongs to the TALE/IRO homeobox family. {ECO:0000255}.
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DR EMBL; AF338158; AAK96066.1; -; mRNA.
DR RefSeq; NP_001079223.1; NM_001085754.1.
DR AlphaFoldDB; Q90XW5; -.
DR SMR; Q90XW5; -.
DR GeneID; 373841; -.
DR KEGG; xla:373841; -.
DR CTD; 373841; -.
DR Xenbase; XB-GENE-865076; irx5.L.
DR OrthoDB; 264921at2759; -.
DR Proteomes; UP000186698; Chromosome 4L.
DR Bgee; 373841; Expressed in internal ear and 9 other tissues.
DR GO; GO:0005737; C:cytoplasm; ISS:UniProtKB.
DR GO; GO:0005634; C:nucleus; ISS:UniProtKB.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IEA:InterPro.
DR GO; GO:0007420; P:brain development; IMP:UniProtKB.
DR GO; GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
DR GO; GO:0009953; P:dorsal/ventral pattern formation; IMP:UniProtKB.
DR GO; GO:0048701; P:embryonic cranial skeleton morphogenesis; IMP:UniProtKB.
DR GO; GO:0008406; P:gonad development; IMP:UniProtKB.
DR GO; GO:0009954; P:proximal/distal pattern formation; IMP:UniProtKB.
DR CDD; cd00086; homeodomain; 1.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017970; Homeobox_CS.
DR InterPro; IPR001356; Homeobox_dom.
DR InterPro; IPR008422; Homeobox_KN_domain.
DR InterPro; IPR003893; Iroquois_homeo.
DR Pfam; PF05920; Homeobox_KN; 1.
DR SMART; SM00389; HOX; 1.
DR SMART; SM00548; IRO; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR PROSITE; PS00027; HOMEOBOX_1; 1.
DR PROSITE; PS50071; HOMEOBOX_2; 1.
PE 2: Evidence at transcript level;
KW Developmental protein; Differentiation; DNA-binding; Homeobox;
KW Neurogenesis; Nucleus; Reference proteome; Transcription;
KW Transcription regulation.
FT CHAIN 1..474
FT /note="Iroquois-class homeodomain protein irx-5"
FT /id="PRO_0000388721"
FT DNA_BIND 109..171
FT /note="Homeobox; TALE-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 174..222
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 252..294
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 453..474
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 195..222
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 274..294
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 474 AA; 51757 MW; 094450C6A0D02730 CRC64;
MSYPQGYLYQ PSASLALYSC PAYSTTVISG PRTDELGRSP SGSAFSPYAG STAFTASSAG
FSSPLQYSGD PAAAFTSYVG SPYDHSAGMA GSLEYHPYAA PLGIYAYGDP AYRKNASRDA
TATLKAWLNE HRKNPYPTKG EKIMLAIITK MTLTQVSTWF ANARRRLKKE NKMTWTPRNR
SEDEDDDENI DLEKNEEDDP SKLEENGNQD GDAGDQKRSP DGVDFVRLEG EVHLGKELDQ
TRNNSELNEL DERNGHLSNS SSPPTPPLCP PDQSPQAQED QNLHGHTHQS IQQLLHHSNQ
PHPLDLVNRN TSVQHGPVTN NATSVIHSPP ASTSKPKLWS LAEIATSSDK VKERSNAAEV
AGTTAAKSMV VSASSPSRSP SAQCHFPNNT VLSRPLYYSI PFYPGYTNYG TFSHLHSHHG
PSSSVNSTYH FNGINQPVLN KAEGLAKECK HISQSQDDLN KGTPYEMKKG MSSI
