ID   HXD4A_DANRE             Reviewed;         236 AA.
AC   O57374; Q4PR78;
DT   15-JUL-1999, integrated into UniProtKB/Swiss-Prot.
DT   15-JUL-1999, sequence version 2.
DT   03-AUG-2022, entry version 129.
DE   RecName: Full=Homeobox protein Hox-D4a;
DE            Short=Hox-D4;
GN   Name=hoxd4a; Synonyms=hoxd4;
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 [MRNA], AND DEVELOPMENTAL STAGE.
RC   TISSUE=Embryo;
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).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX   PubMed=12591602; DOI=10.1016/s0925-4773(02)00442-2;
RA   Nolte C., Amores A., Nagy Kovacs E., Postlethwait J., Featherstone M.;
RT   "The role of a retinoic acid response element in establishing the anterior
RT   neural expression border of Hoxd4 transgenes.";
RL   Mech. Dev. 120:325-335(2003).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 63-144.
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).
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.
CC   -!- SUBCELLULAR LOCATION: Nucleus.
CC   -!- DEVELOPMENTAL STAGE: At the 10-somite stage, barely expressed in the
CC       paraxial mesoderm. At the 20-somite stage, expressed in the developing
CC       CNS with an anterior expression limit at the rhombomere 6/7 boundary.
CC       {ECO:0000269|PubMed:9425136}.
CC   -!- SIMILARITY: Belongs to the Antp homeobox family. Deformed subfamily.
CC       {ECO:0000305}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=CAA74883.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR   EMBL; Y14548; CAA74883.1; ALT_INIT; mRNA.
DR   EMBL; AY168642; AAN86981.1; -; Genomic_DNA.
DR   EMBL; DQ060565; AAY67943.1; -; mRNA.
DR   AlphaFoldDB; O57374; -.
DR   SMR; O57374; -.
DR   STRING; 7955.ENSDARP00000076791; -.
DR   PaxDb; O57374; -.
DR   ZFIN; ZDB-GENE-980526-214; hoxd4a.
DR   eggNOG; KOG0489; Eukaryota.
DR   InParanoid; O57374; -.
DR   PRO; PR:O57374; -.
DR   Proteomes; UP000000437; Genome assembly.
DR   Proteomes; UP000814640; Unplaced.
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:0001525; P:angiogenesis; IMP:ZFIN.
DR   GO; GO:0009952; P:anterior/posterior pattern specification; IBA:GO_Central.
DR   GO; GO:0060216; P:definitive hemopoiesis; IMP:ZFIN.
DR   GO; GO:0048704; P:embryonic skeletal system morphogenesis; IBA:GO_Central.
DR   GO; GO:0060215; P:primitive hemopoiesis; IMP:ZFIN.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   GO; GO:0001570; P:vasculogenesis; IMP:ZFIN.
DR   CDD; cd00086; homeodomain; 1.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR017995; Homeobox_antennapedia.
DR   InterPro; IPR001827; Homeobox_Antennapedia_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; 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..236
FT                   /note="Homeobox protein Hox-D4a"
FT                   /id="PRO_0000200214"
FT   DNA_BIND        146..205
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          69..91
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          204..236
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   MOTIF           125..130
FT                   /note="Antp-type hexapeptide"
FT   COMPBIAS        212..236
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        105
FT                   /note="C -> G (in Ref. 3; AAY67943)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   236 AA;  27132 MW;  AAEB8C7F34F17B5E CRC64;
     MAMSSYMVNS KYVDPKFPPC EEYSQNSYIP EQSPGYYSPS QDTDFQHPGI YSRSNYSEQP
     YICSTVQGSS VQPRGHVQDQ ASTPSPFPAQ TEQCPAVQIS GSRTCGQQQN TKTQNGIPTK
     QPAVVYPWMK KVHVTTVNPD YTGPEPKRSR TAYTRQQVLE LEKEFHFNRY LTRRRRIESA
     HTLSLSERQI KIWFQNRRMK WKKDHKLPNT KGRSASVGNQ HAQHAQKDSQ TEITTL