HXA4A_DANRE
ID HXA4A_DANRE Reviewed; 245 AA.
AC Q9PWL5; O42371; Q05784; Q0P3T8; Q1L970; Q4PRB0;
DT 01-FEB-2005, integrated into UniProtKB/Swiss-Prot.
DT 11-JUL-2006, sequence version 2.
DT 03-AUG-2022, entry version 137.
DE RecName: Full=Homeobox protein Hox-A4a;
DE AltName: Full=Homeobox protein Zf-26;
DE AltName: Full=Hoxx4;
GN Name=hoxa4a; Synonyms=hoxx4, zf26;
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=9831563; DOI=10.1126/science.282.5394.1711;
RA Amores A., Force A., Yan Y.-L., Joly L., Amemiya C., Fritz A., Ho R.K.,
RA Langeland J., Prince V.E., Wang Y.-L., Westerfield M., Ekker M.,
RA Postlethwait J.H.;
RT "Zebrafish hox clusters and vertebrate genome evolution.";
RL Science 282:1711-1714(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen;
RX PubMed=23594743; DOI=10.1038/nature12111;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RG NIH - Zebrafish Gene Collection (ZGC) project;
RL Submitted (AUG-2006) to the EMBL/GenBank/DDBJ databases.
RN [4]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 68-148.
RC STRAIN=Tuebingen;
RX PubMed=16174031; DOI=10.1111/j.1525-142x.2005.05042.x;
RA Corredor-Adamez M., Welten M.C.M., Spaink H.P., Jeffery J.E., Schoon R.T.,
RA de Bakker M.A.G., Bagowski C.P., Meijer A.H., Verbeek F.J.,
RA Richardson M.K.;
RT "Genomic annotation and transcriptome analysis of the zebrafish (Danio
RT rerio) hox complex with description of a novel member, hoxb13a.";
RL Evol. Dev. 7:362-375(2005).
RN [5]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 147-201.
RX PubMed=1681510; DOI=10.1093/nar/19.19.5434;
RA Runstadler J.A., Kocher T.D.;
RT "A new antennepedia-class gene from the zebrafish.";
RL Nucleic Acids Res. 19:5434-5434(1991).
RN [6]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 157-245, AND DEVELOPMENTAL STAGE.
RC TISSUE=Embryo;
RX PubMed=9425135; DOI=10.1242/dev.125.3.393;
RA Prince V.E., Moens C.B., Kimmel C.B., Ho R.K.;
RT "Zebrafish hox genes: expression in the hindbrain region of wild-type and
RT mutants of the segmentation gene, valentino.";
RL Development 125:393-406(1998).
RN [7]
RP DEVELOPMENTAL STAGE.
RX PubMed=9425136; DOI=10.1242/dev.125.3.407;
RA Prince V.E., Joly L., Ekker M., Ho R.K.;
RT "Zebrafish hox genes: genomic organization and modified colinear expression
RT patterns in the trunk.";
RL Development 125:407-420(1998).
CC -!- FUNCTION: Sequence-specific transcription factor which is part of a
CC developmental regulatory system that provides cells with specific
CC positional identities on the anterior-posterior axis. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00108}.
CC -!- DEVELOPMENTAL STAGE: First expressed at the 1-somite stage. At the 10-
CC somite stage, weakly expressed in the paraxial mesoderm with an
CC anterior expression limit at somite 1. At the 20-somite stage,
CC expressed within the developing CNS with an anterior expression limit
CC adjacent to the rhombomere 7/8 boundary. {ECO:0000269|PubMed:9425135,
CC ECO:0000269|PubMed:9425136}.
CC -!- SIMILARITY: Belongs to the Antp homeobox family. Deformed subfamily.
CC {ECO:0000305}.
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DR EMBL; AF071246; AAD15939.1; -; Genomic_DNA.
DR EMBL; CR382300; CAK10850.1; -; Genomic_DNA.
DR EMBL; BC122457; AAI22458.1; -; mRNA.
DR EMBL; DQ060533; AAY67911.1; -; mRNA.
DR EMBL; M76382; AAA50034.1; -; Genomic_DNA.
DR EMBL; Y13947; CAA74285.1; -; mRNA.
DR PIR; S34415; S34415.
DR RefSeq; NP_571610.1; NM_131535.1.
DR AlphaFoldDB; Q9PWL5; -.
DR SMR; Q9PWL5; -.
DR PaxDb; Q9PWL5; -.
DR Ensembl; ENSDART00000169074; ENSDARP00000134767; ENSDARG00000103862.
DR GeneID; 58050; -.
DR KEGG; dre:58050; -.
DR CTD; 58050; -.
DR ZFIN; ZDB-GENE-000823-4; hoxa4a.
DR GeneTree; ENSGT00940000159522; -.
DR HOGENOM; CLU_061398_0_0_1; -.
DR InParanoid; Q9PWL5; -.
DR OrthoDB; 1154159at2759; -.
DR PhylomeDB; Q9PWL5; -.
DR TreeFam; TF352857; -.
DR PRO; PR:Q9PWL5; -.
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 19.
DR Bgee; ENSDARG00000103862; Expressed in pharyngeal gill and 49 other tissues.
DR ExpressionAtlas; Q9PWL5; baseline.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
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:0009952; P:anterior/posterior pattern specification; IBA:GO_Central.
DR GO; GO:0048704; P:embryonic skeletal system morphogenesis; IBA:GO_Central.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR CDD; cd00086; homeodomain; 1.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017995; Homeobox_antennapedia.
DR InterPro; IPR001827; Homeobox_Antennapedia_CS.
DR InterPro; IPR017970; Homeobox_CS.
DR InterPro; IPR001356; Homeobox_dom.
DR InterPro; IPR020479; Homeobox_metazoa.
DR Pfam; PF00046; Homeodomain; 1.
DR PRINTS; PR00025; ANTENNAPEDIA.
DR PRINTS; PR00024; HOMEOBOX.
DR SMART; SM00389; HOX; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR PROSITE; PS00032; ANTENNAPEDIA; 1.
DR PROSITE; PS00027; HOMEOBOX_1; 1.
DR PROSITE; PS50071; HOMEOBOX_2; 1.
PE 2: Evidence at transcript level;
KW Developmental protein; DNA-binding; Homeobox; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..245
FT /note="Homeobox protein Hox-A4a"
FT /id="PRO_0000200053"
FT DNA_BIND 147..206
FT /note="Homeobox"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT REGION 34..99
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 205..245
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 126..131
FT /note="Antp-type hexapeptide"
FT COMPBIAS 54..72
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 79..99
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 212..245
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 214..232
FT /note="RSSSSAPSNHHVKTDATQQ -> APRALHPPTITWKRTPLS (in Ref.
FT 1; AAD15939)"
FT /evidence="ECO:0000305"
FT CONFLICT 226
FT /note="K -> E (in Ref. 6; CAA74285)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 245 AA; 28288 MW; 1AF7F6F0C13B4F10 CRC64;
MIMSSYLINS NYIEPSFPPC EEYHQNGYMP VSSDYYERPK DPGFPHHEEA SYPRSNYQEQ
SYDYGNVSTN DLNDFSDRHH AQPQSVSQNH GPRLTTESCV GSDGNKDCSL VSDALPGSQK
SKEPVVYPWM KKVHVNTVTA SYSGGVPKRS RTAYTRQQAL ELEKEFHFNR YLTRRRRVEI
AHTMCLSERQ VKIWFQNRRM KWKKDHKLPN TKIRSSSSAP SNHHVKTDAT QQQQTLLPTP
CSSNL
