ID   HXD3_MOUSE              Reviewed;         433 AA.
AC   P09027; Q3UUD3;
DT   01-NOV-1988, integrated into UniProtKB/Swiss-Prot.
DT   03-MAR-2009, sequence version 4.
DT   24-JAN-2024, entry version 193.
DE   RecName: Full=Homeobox protein Hox-D3;
DE   AltName: Full=Homeobox protein Hox-4.1;
DE   AltName: Full=Homeobox protein MH-19;
GN   Name=Hoxd3; Synonyms=Hox-4.1, Hoxd-3;
OS   Mus musculus (Mouse).
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC   Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC   Murinae; Mus; Mus.
OX   NCBI_TaxID=10090;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX   PubMed=7916214; DOI=10.1016/0167-4781(94)90276-3;
RA   Brown W.M., Zhou L., Taylor G.R.;
RT   "The nucleotide sequence of the murine Hox-D3 (Hox-4.1) gene reveals
RT   extensive identity with the human protein.";
RL   Biochim. Biophys. Acta 1219:219-222(1994).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [MRNA].
RX   PubMed=7710686; DOI=10.1089/dna.1995.14.295;
RA   Bedford M., Orr-Urtreger A., Arman E., Lonai P.;
RT   "Analysis of the Hoxd-3 gene: structure and localization of its sense and
RT   natural antisense transcripts.";
RL   DNA Cell Biol. 14:295-304(1995).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], DEVELOPMENTAL STAGE, AND TISSUE
RP   SPECIFICITY.
RC   STRAIN=ICR X Swiss Webster; TISSUE=Liver;
RX   PubMed=8710855; DOI=10.1073/pnas.93.16.8247;
RA   Tan D.-P., Shao X., Pu L., Guo V., Nirenberg M.;
RT   "Sequence and expression of the murine Hoxd-3 homeobox gene.";
RL   Proc. Natl. Acad. Sci. U.S.A. 93:8247-8252(1996).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=C57BL/6J; TISSUE=Spinal cord;
RX   PubMed=16141072; DOI=10.1126/science.1112014;
RA   Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA   Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA   Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA   Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA   Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA   Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA   Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA   Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA   Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA   Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA   Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA   Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA   Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA   Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA   Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA   Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA   Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA   Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA   Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA   Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA   Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA   Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA   Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA   Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA   Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA   van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA   Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA   Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA   Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA   Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA   Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA   Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA   Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA   Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT   "The transcriptional landscape of the mammalian genome.";
RL   Science 309:1559-1563(2005).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 182-303.
RX   PubMed=2890503; DOI=10.1089/dna.1987.6.409;
RA   Lonai P., Arman E., Czosnek H., Ruddle F.H., Blatt C.;
RT   "New murine homeoboxes: structure, chromosomal assignment, and differential
RT   expression in adult erythropoiesis.";
RL   DNA 6:409-418(1987).
RN   [6]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 179-335.
RA   Lonai P.;
RL   Submitted (DEC-1987) to the EMBL/GenBank/DDBJ databases.
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   -!- TISSUE SPECIFICITY: Detected in adult kidney, but not in other adult
CC       tissues tested. {ECO:0000269|PubMed:8710855}.
CC   -!- DEVELOPMENTAL STAGE: Detected in 12-, 14-, and 17-day-old mouse embryos
CC       in the posterior half of the myelencephalon, spinal cord, dorsal root
CC       ganglia, first cervical vertebra, thyroid gland, kidney tubules,
CC       esophagus, stomach, and intestines. {ECO:0000269|PubMed:8710855}.
CC   -!- SIMILARITY: Belongs to the Antp homeobox family. {ECO:0000305}.
CC   -!- CAUTION: It is uncertain whether Met-1 or Met-17 is the initiator.
CC       {ECO:0000305}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=AAB60683.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC       Sequence=AAC52779.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC       Sequence=AAC52780.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC       Sequence=BAE23694.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC       Sequence=CAA51975.1; Type=Frameshift; Evidence={ECO:0000305};
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DR   EMBL; U03485; AAB60683.1; ALT_INIT; Genomic_DNA.
DR   EMBL; U03496; AAB60683.1; JOINED; Genomic_DNA.
DR   EMBL; X73573; CAA51975.1; ALT_SEQ; mRNA.
DR   EMBL; L24363; AAA37855.1; -; Genomic_DNA.
DR   EMBL; U56400; AAC52779.1; ALT_INIT; mRNA.
DR   EMBL; U56401; AAC52780.1; ALT_INIT; Genomic_DNA.
DR   EMBL; AK138525; BAE23694.1; ALT_INIT; mRNA.
DR   EMBL; M18169; AAA37846.1; ALT_SEQ; Genomic_DNA.
DR   CCDS; CCDS38149.1; -.
DR   PIR; D29585; D29585.
DR   PIR; S34164; S34164.
DR   PIR; S47539; S47539.
DR   RefSeq; NP_034598.2; NM_010468.2.
DR   AlphaFoldDB; P09027; -.
DR   SMR; P09027; -.
DR   BioGRID; 200396; 4.
DR   IntAct; P09027; 4.
DR   STRING; 10090.ENSMUSP00000107614; -.
DR   PhosphoSitePlus; P09027; -.
DR   PaxDb; 10090-ENSMUSP00000107614; -.
DR   ProteomicsDB; 266935; -.
DR   Pumba; P09027; -.
DR   Antibodypedia; 19525; 235 antibodies from 24 providers.
DR   DNASU; 15434; -.
DR   Ensembl; ENSMUST00000047830.8; ENSMUSP00000044809.7; ENSMUSG00000079277.10.
DR   Ensembl; ENSMUST00000111982.8; ENSMUSP00000107613.2; ENSMUSG00000079277.10.
DR   Ensembl; ENSMUST00000111983.9; ENSMUSP00000107614.3; ENSMUSG00000079277.10.
DR   GeneID; 15434; -.
DR   KEGG; mmu:15434; -.
DR   UCSC; uc008kee.1; mouse.
DR   AGR; MGI:96207; -.
DR   CTD; 3232; -.
DR   MGI; MGI:96207; Hoxd3.
DR   VEuPathDB; HostDB:ENSMUSG00000079277; -.
DR   eggNOG; KOG0489; Eukaryota.
DR   GeneTree; ENSGT00940000160027; -.
DR   HOGENOM; CLU_051508_1_0_1; -.
DR   InParanoid; P09027; -.
DR   OMA; YPYGAAH; -.
DR   OrthoDB; 728401at2759; -.
DR   PhylomeDB; P09027; -.
DR   TreeFam; TF315938; -.
DR   BioGRID-ORCS; 15434; 4 hits in 79 CRISPR screens.
DR   ChiTaRS; Hoxd3; mouse.
DR   PRO; PR:P09027; -.
DR   Proteomes; UP000000589; Chromosome 2.
DR   RNAct; P09027; Protein.
DR   Bgee; ENSMUSG00000079277; Expressed in ureteric bud and 100 other cell types or tissues.
DR   ExpressionAtlas; P09027; baseline and differential.
DR   GO; GO:0016235; C:aggresome; ISO:MGI.
DR   GO; GO:0016604; C:nuclear body; ISO:MGI.
DR   GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR   GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR   GO; GO:0001228; F:DNA-binding transcription activator activity, RNA polymerase II-specific; ISO:MGI.
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:0000977; F:RNA polymerase II transcription regulatory region sequence-specific DNA binding; ISO:MGI.
DR   GO; GO:1990837; F:sequence-specific double-stranded DNA binding; ISO:MGI.
DR   GO; GO:0009952; P:anterior/posterior pattern specification; IMP:MGI.
DR   GO; GO:0051216; P:cartilage development; IGI:MGI.
DR   GO; GO:0007160; P:cell-matrix adhesion; ISO:MGI.
DR   GO; GO:0006351; P:DNA-templated transcription; ISO:MGI.
DR   GO; GO:0048704; P:embryonic skeletal system morphogenesis; IMP:MGI.
DR   GO; GO:0021615; P:glossopharyngeal nerve morphogenesis; IGI:MGI.
DR   GO; GO:0007219; P:Notch signaling pathway; ISO:MGI.
DR   GO; GO:0010628; P:positive regulation of gene expression; ISO:MGI.
DR   GO; GO:0045666; P:positive regulation of neuron differentiation; IGI:MGI.
DR   GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; ISO:MGI.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   GO; GO:0030878; P:thyroid gland development; IGI:MGI.
DR   CDD; cd00086; homeodomain; 1.
DR   Gene3D; 1.10.10.60; Homeodomain-like; 1.
DR   InterPro; IPR025281; DUF4074.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR001827; Homeobox_Antennapedia_CS.
DR   InterPro; IPR017970; Homeobox_CS.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR020479; Homeobox_metazoa.
DR   PANTHER; PTHR45664:SF5; HOMEOBOX PROTEIN HOX-D3; 1.
DR   PANTHER; PTHR45664; PROTEIN ZERKNUELLT 1-RELATED; 1.
DR   Pfam; PF13293; DUF4074; 1.
DR   Pfam; PF00046; Homeodomain; 1.
DR   PRINTS; PR00024; HOMEOBOX.
DR   SMART; SM00389; HOX; 1.
DR   SUPFAM; SSF46689; Homeodomain-like; 1.
DR   PROSITE; PS00032; ANTENNAPEDIA; 1.
DR   PROSITE; PS00027; HOMEOBOX_1; 1.
DR   PROSITE; PS50071; HOMEOBOX_2; 1.
DR   Genevisible; P09027; MM.
PE   2: Evidence at transcript level;
KW   Developmental protein; DNA-binding; Homeobox; Nucleus; Reference proteome;
KW   Transcription; Transcription regulation.
FT   CHAIN           1..433
FT                   /note="Homeobox protein Hox-D3"
FT                   /id="PRO_0000200205"
FT   DNA_BIND        195..254
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          44..198
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          258..280
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          401..433
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   MOTIF           161..166
FT                   /note="Antp-type hexapeptide"
FT   COMPBIAS        59..73
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        91..111
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        112..135
FT                   /note="Pro residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        146..184
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        187
FT                   /note="D -> N (in Ref. 5 and 6; AAA37846)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        192
FT                   /note="G -> D (in Ref. 5 and 6; AAA37846)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        201
FT                   /note="A -> T (in Ref. 5 and 6; AAA37846)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        289
FT                   /note="Missing (in Ref. 2; CAA51975)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   433 AA;  45976 MW;  0BA0409A7F32F9E6 CRC64;
     MLFEQGQLTL ELPECTMQKA AYYENPGLFG GYGYSKATDT YGYSTPHQPY PPPAAANSLD
     SDYPSSACSI QSSAPLRAPA HKGAELNGSC MRPGTGNSQG GGGGNQPPGL NSEQQPPQPP
     PPPPPTLPPS SPTNPGSGVP AKKTKGGLSA SSSSSTISKQ IFPWMKESRQ NSKQKNSCAT
     SGENCEDKSP PGPASKRVRT AYTSAQLVEL EKEFHFNRYL CRPRRVEMAN LLNLTERQIK
     IWFQNRRMKY KKDQKAKGIL HSPAGQSPER SPPLGGAAGH VAYSGQLPPV PGLAYDAPSP
     PAFAKSQPNM YGLAAYTAPL SSCLPQQKRY PAPEFEPHPM ASNGGGFASA NLQGSPVYVG
     GNFVDSMAPT SGPVFNLGHL SHPSSASVDY SCAAQIPGNH HHGPCDPHPT YTDLSAHHSS
     QGRLPEAPKL THL
//