IRX1_XENTR
ID IRX1_XENTR Reviewed; 467 AA.
AC Q6F2E3;
DT 03-NOV-2009, integrated into UniProtKB/Swiss-Prot.
DT 16-AUG-2004, sequence version 1.
DT 03-AUG-2022, entry version 118.
DE RecName: Full=Iroquois-class homeodomain protein irx-1 {ECO:0000250|UniProtKB:P78414};
DE AltName: Full=Iroquois homeobox protein 1 {ECO:0000250|UniProtKB:P78414};
GN Name=irx1 {ECO:0000250|UniProtKB:Q9YGK8};
GN Synonyms=iro1 {ECO:0000312|EMBL:AAT72003.1};
OS Xenopus tropicalis (Western clawed frog) (Silurana tropicalis).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia;
OC Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana.
OX NCBI_TaxID=8364;
RN [1] {ECO:0000312|EMBL:AAT72003.1}
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RA Qin S., Dors M., Johnson E., Bloom S., Hood L., Rowen L.;
RT "Sequence of Xenopus tropicalis development genes.";
RL Submitted (JUL-2004) to the EMBL/GenBank/DDBJ databases.
RN [2] {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).
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. Acts early in
CC neural plate development to induce expression of some but not all
CC proneural genes, and specify a neural precursor state. Also up-
CC regulates repressors that prevent neuronal differentiation. Patterns
CC the neuroectoderm in both the anterior/posterior and dorsal/ventral
CC axes. Acts primarily as a transcriptional repressor during neural
CC development, and binds to the bmp4 promoter to repress gene expression
CC and thus mediate down-regulation of bmp4 by wnt signaling. Controls
CC multiple processes through bmp4-repression including neural plate
CC development, neural crest specification and Spemann organizer
CC development. Involved in the specification of the preplacodal field at
CC the anterior border of the neural plate. Regulates the genetic cascade
CC of interactions that are necessary for positioning the isthmus
CC organizer and the formation of the midbrain-hindbrain boundary.
CC Required during at least two stages of pronephros kidney development;
CC during neurula stages, maintains transcription of key renal genes to
CC define the size and identity of the pronephric anlage, probably in part
CC through regulation of bmp-signaling. Subsequently required for proper
CC formation of the intermediate tubule segment of the pronephros. Acts
CC principally as a transcriptional activator during pronephros
CC development. {ECO:0000269|PubMed:19268445}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255, ECO:0000305}.
CC -!- TISSUE SPECIFICITY: Expressed in the neural plate in overlapping
CC patterns with other irx members, which all share an anterior border of
CC expression. Also expressed in the mesoderm, placodes and notochord.
CC Broadly expressed in the tailbud rhombencephalon (hindbrain). Outside
CC the nervous system and at tailbud stages, expressed in the developing
CC otic vesicle, branchial arches, prospective heart region and
CC pronephros. {ECO:0000269|PubMed:19268445}.
CC -!- SIMILARITY: Belongs to the TALE/IRO homeobox family. {ECO:0000255}.
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DR EMBL; AC149069; AAT72003.1; -; Genomic_DNA.
DR RefSeq; NP_001188351.1; NM_001201422.1.
DR AlphaFoldDB; Q6F2E3; -.
DR SMR; Q6F2E3; -.
DR STRING; 8364.ENSXETP00000061991; -.
DR PaxDb; Q6F2E3; -.
DR Ensembl; ENSXETT00000062451; ENSXETP00000061991; ENSXETG00000006958.
DR GeneID; 100038208; -.
DR KEGG; xtr:100038208; -.
DR CTD; 79192; -.
DR Xenbase; XB-GENE-486817; irx1.
DR eggNOG; KOG0773; Eukaryota.
DR InParanoid; Q6F2E3; -.
DR OMA; HIGNEHI; -.
DR OrthoDB; 827009at2759; -.
DR PhylomeDB; Q6F2E3; -.
DR Proteomes; UP000008143; Chromosome 6.
DR Proteomes; UP000790000; Unplaced.
DR Bgee; ENSXETG00000006958; Expressed in heart and 31 other tissues.
DR GO; GO:0005634; C:nucleus; ISS:UniProtKB.
DR GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IBA:GO_Central.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0000976; F:transcription cis-regulatory region binding; ISS:UniProtKB.
DR GO; GO:0007420; P:brain development; ISS:UniProtKB.
DR GO; GO:0048468; P:cell development; IBA:GO_Central.
DR GO; GO:0001708; P:cell fate specification; ISS:UniProtKB.
DR GO; GO:0021953; P:central nervous system neuron differentiation; IEA:Ensembl.
DR GO; GO:0009953; P:dorsal/ventral pattern formation; ISS:UniProtKB.
DR GO; GO:0031076; P:embryonic camera-type eye development; IEA:Ensembl.
DR GO; GO:0035118; P:embryonic pectoral fin morphogenesis; IEA:Ensembl.
DR GO; GO:0042462; P:eye photoreceptor cell development; IEA:Ensembl.
DR GO; GO:0042472; P:inner ear morphogenesis; IEA:Ensembl.
DR GO; GO:0072005; P:maintenance of kidney identity; ISS:UniProtKB.
DR GO; GO:0007498; P:mesoderm development; ISS:UniProtKB.
DR GO; GO:0030917; P:midbrain-hindbrain boundary development; ISS:UniProtKB.
DR GO; GO:0030514; P:negative regulation of BMP signaling pathway; ISS:UniProtKB.
DR GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; ISS:UniProtKB.
DR GO; GO:0045892; P:negative regulation of transcription, DNA-templated; ISS:UniProtKB.
DR GO; GO:0014036; P:neural crest cell fate specification; ISS:UniProtKB.
DR GO; GO:0022008; P:neurogenesis; ISS:UniProtKB.
DR GO; GO:0030182; P:neuron differentiation; IBA:GO_Central.
DR GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; ISS:UniProtKB.
DR GO; GO:0045893; P:positive regulation of transcription, DNA-templated; ISS:UniProtKB.
DR GO; GO:0009954; P:proximal/distal pattern formation; ISS:UniProtKB.
DR GO; GO:0072196; P:proximal/distal pattern formation involved in pronephric nephron development; ISS:UniProtKB.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0060042; P:retina morphogenesis in camera-type eye; IEA:Ensembl.
DR GO; GO:0039005; P:specification of pronephric tubule identity; ISS:UniProtKB.
DR GO; GO:0060062; P:Spemann organizer formation at the dorsal lip of the blastopore; ISS: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 Activator; Developmental protein; Differentiation; DNA-binding; Homeobox;
KW Neurogenesis; Nucleus; Reference proteome; Repressor; Transcription;
KW Transcription regulation.
FT CHAIN 1..467
FT /note="Iroquois-class homeodomain protein irx-1"
FT /id="PRO_0000388715"
FT DNA_BIND 126..188
FT /note="Homeobox; TALE-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 198..307
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 319..342
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 410..467
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 211..241
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 242..262
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 280..300
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 319..341
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 417..433
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 435..467
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 467 AA; 50716 MW; 2BDBFD283772829D CRC64;
MSFPQLGYPQ YLSAGQAAVY GGERPGVLAA AAAAAAAAAA AGSGRPTGAD LGSSSTAAVT
SVLGMYASPY SAPNYSAFLP YTTDLTLFSQ MGSQYELKDN PGVHPATFAA HTTPGYYPYG
QFQYGDPGRP KNATRESTST LKAWLNEHRK NPYPTKGEKI MLAIITKMTL TQVSTWFANA
RRRLKKENKV TWGARSKEDD NIFGSDTEGD HEKNEDDEEI DLESIDIDKI DDNDGEQSNE
EEDEKLEHLR QGEKESFKKE SEVMIPSSDG LKSKDSLSLG KESSDTSNTR IVSPGGQGNI
QVPPHNKPKI WSLAETATSP DGALKSSPPP SQANHTSPPI QHPAFLPSHG LYTCQIGKFH
NWTNGAFLTQ SSLINMRSLL GVNPHHVAHH NHHHLQAHQQ APLLATNLSS LSSDKTPERT
SPKHSDRENL PRTESPPQLK PSFQAVRENT LSQQEGTSRI LTALPSA
