ID   HXD1_MOUSE              Reviewed;         328 AA.
AC   Q01822; Q0VBQ9;
DT   01-APR-1993, integrated into UniProtKB/Swiss-Prot.
DT   16-OCT-2013, sequence version 2.
DT   24-JAN-2024, entry version 155.
DE   RecName: Full=Homeobox protein Hox-D1;
DE   AltName: Full=Homeobox protein Hox-4.9;
GN   Name=Hoxd1; Synonyms=Hox-4.9, Hoxd-1;
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 [MRNA].
RC   STRAIN=ICR;
RX   PubMed=1356009; DOI=10.1016/0925-4773(92)90038-l;
RA   Frohman M.A., Martin G.R.;
RT   "Isolation and analysis of embryonic expression of Hox-4.9, a member of the
RT   murine labial-like gene family.";
RL   Mech. Dev. 38:55-67(1992).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=C57BL/6J;
RX   PubMed=19468303; DOI=10.1371/journal.pbio.1000112;
RA   Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X.,
RA   Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y.,
RA   Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S.,
RA   Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R.,
RA   Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K.,
RA   Eichler E.E., Ponting C.P.;
RT   "Lineage-specific biology revealed by a finished genome assembly of the
RT   mouse.";
RL   PLoS Biol. 7:E1000112-E1000112(2009).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RA   Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.;
RL   Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases.
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   TISSUE=Brain;
RX   PubMed=15489334; DOI=10.1101/gr.2596504;
RG   The MGC Project Team;
RT   "The status, quality, and expansion of the NIH full-length cDNA project:
RT   the Mammalian Gene Collection (MGC).";
RL   Genome Res. 14:2121-2127(2004).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 219-328.
RC   STRAIN=ICR X Swiss Webster; TISSUE=Liver;
RX   PubMed=1348361; DOI=10.1073/pnas.89.7.2883;
RA   Nazarali A., Kim Y., Nirenberg M.;
RT   "Hox-1.11 and Hox-4.9 homeobox genes.";
RL   Proc. Natl. Acad. Sci. U.S.A. 89:2883-2887(1992).
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. Acts on the
CC       anterior body structures.
CC   -!- SUBCELLULAR LOCATION: Nucleus.
CC   -!- DEVELOPMENTAL STAGE: Is first detected at the end of the late streak
CC       stage in presumptive lateral and extraembryonic mesoderm. During early
CC       neurogenesis, it is detected solely in lateral mesoderm. By late
CC       neurogenesis and through mid-gestation, it is found in a restricted
CC       region of presumed trunk neural crest and the dermatome.
CC   -!- SIMILARITY: Belongs to the Antp homeobox family. Labial subfamily.
CC       {ECO:0000305}.
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DR   EMBL; X60034; CAA42637.1; -; mRNA.
DR   EMBL; AL928733; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR   EMBL; CH466519; EDL27181.1; -; Genomic_DNA.
DR   EMBL; BC120537; AAI20538.1; -; mRNA.
DR   EMBL; BC120539; AAI20540.1; -; mRNA.
DR   EMBL; M87802; AAA37853.1; -; Genomic_DNA.
DR   CCDS; CCDS16147.1; -.
DR   PIR; A56553; A56553.
DR   RefSeq; NP_034597.2; NM_010467.2.
DR   AlphaFoldDB; Q01822; -.
DR   SMR; Q01822; -.
DR   BioGRID; 200391; 1.
DR   IntAct; Q01822; 1.
DR   STRING; 10090.ENSMUSP00000043078; -.
DR   PhosphoSitePlus; Q01822; -.
DR   PaxDb; 10090-ENSMUSP00000043078; -.
DR   Antibodypedia; 33916; 202 antibodies from 21 providers.
DR   DNASU; 15429; -.
DR   Ensembl; ENSMUST00000047793.6; ENSMUSP00000043078.4; ENSMUSG00000042448.6.
DR   GeneID; 15429; -.
DR   KEGG; mmu:15429; -.
DR   UCSC; uc008kei.1; mouse.
DR   AGR; MGI:96201; -.
DR   CTD; 3231; -.
DR   MGI; MGI:96201; Hoxd1.
DR   VEuPathDB; HostDB:ENSMUSG00000042448; -.
DR   eggNOG; KOG0489; Eukaryota.
DR   GeneTree; ENSGT00940000161892; -.
DR   HOGENOM; CLU_058839_0_0_1; -.
DR   InParanoid; Q01822; -.
DR   OMA; GPAYDFP; -.
DR   OrthoDB; 728401at2759; -.
DR   PhylomeDB; Q01822; -.
DR   TreeFam; TF317730; -.
DR   BioGRID-ORCS; 15429; 1 hit in 81 CRISPR screens.
DR   PRO; PR:Q01822; -.
DR   Proteomes; UP000000589; Chromosome 2.
DR   RNAct; Q01822; Protein.
DR   Bgee; ENSMUSG00000042448; Expressed in lumbar dorsal root ganglion and 71 other cell types or tissues.
DR   GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR   GO; GO:0005634; C:nucleus; IDA: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:1990837; F:sequence-specific double-stranded DNA binding; ISO:MGI.
DR   GO; GO:0048706; P:embryonic skeletal system development; IMP:MGI.
DR   GO; GO:0030182; P:neuron differentiation; IMP:MGI.
DR   GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR   GO; GO:0019233; P:sensory perception of pain; IMP:MGI.
DR   CDD; cd00086; homeodomain; 1.
DR   Gene3D; 1.10.10.60; Homeodomain-like; 1.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR017970; Homeobox_CS.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR020479; Homeobox_metazoa.
DR   InterPro; IPR046327; HXA1/B1/D1.
DR   PANTHER; PTHR45946:SF1; HOMEOBOX PROTEIN HOX-D1; 1.
DR   PANTHER; PTHR45946; HOMEOBOX PROTEIN ROUGH-RELATED; 1.
DR   Pfam; PF00046; Homeodomain; 1.
DR   PRINTS; PR00024; HOMEOBOX.
DR   SMART; SM00389; HOX; 1.
DR   SUPFAM; SSF46689; Homeodomain-like; 1.
DR   PROSITE; PS00027; HOMEOBOX_1; 1.
DR   PROSITE; PS50071; HOMEOBOX_2; 1.
DR   Genevisible; Q01822; MM.
PE   2: Evidence at transcript level;
KW   Developmental protein; DNA-binding; Homeobox; Nucleus; Reference proteome;
KW   Transcription; Transcription regulation.
FT   CHAIN           1..328
FT                   /note="Homeobox protein Hox-D1"
FT                   /id="PRO_0000200202"
FT   DNA_BIND        229..288
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          304..328
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   MOTIF           204..209
FT                   /note="Antp-type hexapeptide"
FT   CONFLICT        25
FT                   /note="G -> A (in Ref. 1; CAA42637)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        32
FT                   /note="Missing (in Ref. 1; CAA42637)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        48
FT                   /note="S -> N (in Ref. 1; CAA42637)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   328 AA;  34180 MW;  3452480CACED2FF7 CRC64;
     MSSYLEYVSC AAGGGSGGVG GDVLGFAPKF CRADARPVAL QPAFPLGSGD GAFVSCLPLA
     TARPTPSPPA GPAQSPVPQP AAPRYAPCTL EGAYERGAAP ASAAEYGFLG SGPAFDFPGA
     LGRAADEGGA HVHYATSAVF SGGGSFLLSG QVDFAAFGEP GPFPACLKEP ADGHPGPFQT
     VSPAPGACPK PASPTSSLPA AHSTFEWMKV KRNAPKKSKL SEYGATSPPS AIRTNFSTKQ
     LTELEKEFHF NKYLTRARRI EIANCLQLND TQVKIWFQNR RMKQKKRERE GLLATAASVA
     SIKLPRSETS PIKSGRNLGS PSQAQEPS
//