ID   HOX28_ORYSJ             Reviewed;         256 AA.
AC   Q5VPE5; A3B887; Q6Q7D9;
DT   29-APR-2008, integrated into UniProtKB/Swiss-Prot.
DT   07-DEC-2004, sequence version 1.
DT   03-AUG-2022, entry version 114.
DE   RecName: Full=Homeobox-leucine zipper protein HOX28;
DE   AltName: Full=HD-ZIP protein HOX28;
DE   AltName: Full=Homeodomain transcription factor HOX28;
DE   AltName: Full=OsHox28;
GN   Name=HOX28; OrderedLocusNames=Os06g0140400, LOC_Os06g04850;
GN   ORFNames=OsJ_019259, OSJNBa0041F13.45;
OS   Oryza sativa subsp. japonica (Rice).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC   Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX   NCBI_TaxID=39947;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16100779; DOI=10.1038/nature03895;
RG   International rice genome sequencing project (IRGSP);
RT   "The map-based sequence of the rice genome.";
RL   Nature 436:793-800(2005).
RN   [2]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=18089549; DOI=10.1093/nar/gkm978;
RG   The rice annotation project (RAP);
RT   "The rice annotation project database (RAP-DB): 2008 update.";
RL   Nucleic Acids Res. 36:D1028-D1033(2008).
RN   [3]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA   Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA   Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA   Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA   Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT   "Improvement of the Oryza sativa Nipponbare reference genome using next
RT   generation sequence and optical map data.";
RL   Rice 6:4-4(2013).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA   Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA   Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA   Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA   Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA   Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA   Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA   Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA   Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA   Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA   Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA   Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA   Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA   Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA   McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT   "The genomes of Oryza sativa: a history of duplications.";
RL   PLoS Biol. 3:266-281(2005).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=12869764; DOI=10.1126/science.1081288;
RG   The rice full-length cDNA consortium;
RT   "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT   japonica rice.";
RL   Science 301:376-379(2003).
RN   [6]
RP   NUCLEOTIDE SEQUENCE [MRNA] OF 1-132, TISSUE SPECIFICITY, GENE FAMILY, AND
RP   NOMENCLATURE.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=17999151; DOI=10.1007/s11103-007-9255-7;
RA   Agalou A., Purwantomo S., Oevernaes E., Johannesson H., Zhu X., Estiati A.,
RA   de Kam R.J., Engstroem P., Slamet-Loedin I.H., Zhu Z., Wang M., Xiong L.,
RA   Meijer A.H., Ouwerkerk P.B.F.;
RT   "A genome-wide survey of HD-Zip genes in rice and analysis of drought-
RT   responsive family members.";
RL   Plant Mol. Biol. 66:87-103(2008).
CC   -!- FUNCTION: Probable transcription factor. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC   -!- TISSUE SPECIFICITY: Expressed in seedlings, roots, stems and panicles.
CC       {ECO:0000269|PubMed:17999151}.
CC   -!- SIMILARITY: Belongs to the HD-ZIP homeobox family. Class II subfamily.
CC       {ECO:0000305}.
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DR   EMBL; AP003708; BAD68680.1; -; Genomic_DNA.
DR   EMBL; AP008212; BAF18666.1; -; Genomic_DNA.
DR   EMBL; AP014962; BAS96076.1; -; Genomic_DNA.
DR   EMBL; CM000143; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR   EMBL; AK059116; -; NOT_ANNOTATED_CDS; mRNA.
DR   EMBL; AY554033; AAS83421.1; -; mRNA.
DR   RefSeq; XP_015642539.1; XM_015787053.1.
DR   AlphaFoldDB; Q5VPE5; -.
DR   SMR; Q5VPE5; -.
DR   STRING; 4530.OS06T0140400-01; -.
DR   PaxDb; Q5VPE5; -.
DR   PRIDE; Q5VPE5; -.
DR   EnsemblPlants; Os06t0140400-01; Os06t0140400-01; Os06g0140400.
DR   EnsemblPlants; Os06t0140400-02; Os06t0140400-02; Os06g0140400.
DR   GeneID; 4340069; -.
DR   Gramene; Os06t0140400-01; Os06t0140400-01; Os06g0140400.
DR   Gramene; Os06t0140400-02; Os06t0140400-02; Os06g0140400.
DR   KEGG; osa:4340069; -.
DR   eggNOG; KOG0483; Eukaryota.
DR   HOGENOM; CLU_049516_4_0_1; -.
DR   InParanoid; Q5VPE5; -.
DR   OMA; MFPGHPQ; -.
DR   OrthoDB; 1535352at2759; -.
DR   Proteomes; UP000000763; Chromosome 6.
DR   Proteomes; UP000007752; Chromosome 6.
DR   Proteomes; UP000059680; Chromosome 6.
DR   ExpressionAtlas; Q5VPE5; baseline and differential.
DR   Genevisible; Q5VPE5; OS.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0000981; F:DNA-binding transcription factor activity, RNA polymerase II-specific; IEA:InterPro.
DR   GO; GO:0043565; F:sequence-specific DNA binding; IEA:InterPro.
DR   CDD; cd00086; homeodomain; 1.
DR   InterPro; IPR009057; Homeobox-like_sf.
DR   InterPro; IPR017970; Homeobox_CS.
DR   InterPro; IPR001356; Homeobox_dom.
DR   InterPro; IPR003106; Leu_zip_homeo.
DR   Pfam; PF02183; HALZ; 1.
DR   Pfam; PF00046; Homeodomain; 1.
DR   SMART; SM00340; HALZ; 1.
DR   SMART; SM00389; HOX; 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   DNA-binding; Homeobox; Nucleus; Reference proteome; Transcription;
KW   Transcription regulation.
FT   CHAIN           1..256
FT                   /note="Homeobox-leucine zipper protein HOX28"
FT                   /id="PRO_0000331728"
FT   DNA_BIND        91..150
FT                   /note="Homeobox"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00108"
FT   REGION          56..86
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          149..193
FT                   /note="Leucine-zipper"
SQ   SEQUENCE   256 AA;  27017 MW;  EF71BC4F0B2F88BA CRC64;
     MERQGLDLGL SLGLGLTTAA TWPAAGFCLN SGMAEQEVIR RDDVVAATAA EDERFACSPG
     SPVSSGSGKR GSGSGSGDEV DDAGCDVGGG GARKKLRLSK DQAAVLEECF KTHHTLTPKQ
     KVALAKSLNL RPRQVEVWFQ NRRARTKLKQ TEVDCEHLKR WCDQLADDNR RLHKELAELR
     ALKATPTPPA AAPPLTTLTM CLSCKRVANA GVPSPAAAIF PGHPQFLCGF RDHAGAASSS
     YGGASSGLAK AVRAAR