YAB5_ORYSJ
ID YAB5_ORYSJ Reviewed; 266 AA.
AC Q0JBF0; A3AVX3; B7EHI2; Q7XU66;
DT 23-OCT-2007, integrated into UniProtKB/Swiss-Prot.
DT 03-OCT-2006, sequence version 1.
DT 03-AUG-2022, entry version 87.
DE RecName: Full=Protein YABBY 5;
DE AltName: Full=OsYAB3;
DE AltName: Full=OsYABBY5;
GN Name=YAB5; OrderedLocusNames=Os04g0536300, LOC_Os04g45330;
GN ORFNames=OsJ_014945, OSJNBb0020O11.2;
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 [MRNA], TISSUE SPECIFICITY, GENE FAMILY, AND
RP NOMENCLATURE.
RC STRAIN=cv. Nipponbare;
RX PubMed=17216490; DOI=10.1007/s00438-006-0202-0;
RA Toriba T., Harada K., Takamura A., Nakamura H., Ichikawa H., Suzaki T.,
RA Hirano H.-Y.;
RT "Molecular characterization the YABBY gene family in Oryza sativa and
RT expression analysis of OsYABBY1.";
RL Mol. Genet. Genomics 277:457-468(2007).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12447439; DOI=10.1038/nature01183;
RA Feng Q., Zhang Y., Hao P., Wang S., Fu G., Huang Y., Li Y., Zhu J., Liu Y.,
RA Hu X., Jia P., Zhang Y., Zhao Q., Ying K., Yu S., Tang Y., Weng Q.,
RA Zhang L., Lu Y., Mu J., Lu Y., Zhang L.S., Yu Z., Fan D., Liu X., Lu T.,
RA Li C., Wu Y., Sun T., Lei H., Li T., Hu H., Guan J., Wu M., Zhang R.,
RA Zhou B., Chen Z., Chen L., Jin Z., Wang R., Yin H., Cai Z., Ren S., Lv G.,
RA Gu W., Zhu G., Tu Y., Jia J., Zhang Y., Chen J., Kang H., Chen X., Shao C.,
RA Sun Y., Hu Q., Zhang X., Zhang W., Wang L., Ding C., Sheng H., Gu J.,
RA Chen S., Ni L., Zhu F., Chen W., Lan L., Lai Y., Cheng Z., Gu M., Jiang J.,
RA Li J., Hong G., Xue Y., Han B.;
RT "Sequence and analysis of rice chromosome 4.";
RL Nature 420:316-320(2002).
RN [3]
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 [4]
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 [5]
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 [6]
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 [7]
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 [8]
RP FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AND INDUCTION.
RX PubMed=17351053; DOI=10.1104/pp.107.095737;
RA Dai M., Hu Y., Zhao Y., Liu H., Zhou D.-X.;
RT "A WUSCHEL-LIKE HOMEOBOX gene represses a YABBY gene expression required
RT for rice leaf development.";
RL Plant Physiol. 144:380-390(2007).
CC -!- FUNCTION: May be involved in leaf cell growth and differentiation,
CC rather than abaxial cell fate determination.
CC {ECO:0000269|PubMed:17351053}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:17351053}.
CC -!- TISSUE SPECIFICITY: Expressed in leaf primordia, young leaves, floret
CC meristems, floral organ primordia, stamens and carpels. Does not show
CC polar expression pattern. {ECO:0000269|PubMed:17216490,
CC ECO:0000269|PubMed:17351053}.
CC -!- INDUCTION: Repressed by WOX3. {ECO:0000269|PubMed:17351053}.
CC -!- SIMILARITY: Belongs to the YABBY family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=CAD41530.3; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=EAZ31462.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AB274017; BAF45806.1; -; mRNA.
DR EMBL; AL662998; CAD41530.3; ALT_INIT; Genomic_DNA.
DR EMBL; AP008210; BAF15337.1; -; Genomic_DNA.
DR EMBL; AP014960; BAS90256.1; -; Genomic_DNA.
DR EMBL; CM000141; EAZ31462.1; ALT_INIT; Genomic_DNA.
DR EMBL; AK070205; BAG91829.1; -; mRNA.
DR RefSeq; XP_015634596.1; XM_015779110.1.
DR AlphaFoldDB; Q0JBF0; -.
DR SMR; Q0JBF0; -.
DR STRING; 4530.OS04T0536300-01; -.
DR PaxDb; Q0JBF0; -.
DR PRIDE; Q0JBF0; -.
DR EnsemblPlants; Os04t0536300-01; Os04t0536300-01; Os04g0536300.
DR GeneID; 4336518; -.
DR Gramene; Os04t0536300-01; Os04t0536300-01; Os04g0536300.
DR KEGG; osa:4336518; -.
DR eggNOG; ENOG502QQ88; Eukaryota.
DR HOGENOM; CLU_071156_1_0_1; -.
DR InParanoid; Q0JBF0; -.
DR OMA; GECMLFK; -.
DR OrthoDB; 1256251at2759; -.
DR Proteomes; UP000000763; Chromosome 4.
DR Proteomes; UP000007752; Chromosome 4.
DR Proteomes; UP000059680; Chromosome 4.
DR Genevisible; Q0JBF0; OS.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0010158; P:abaxial cell fate specification; IBA:GO_Central.
DR GO; GO:0045165; P:cell fate commitment; IBA:GO_Central.
DR GO; GO:0010154; P:fruit development; IBA:GO_Central.
DR GO; GO:0009944; P:polarity specification of adaxial/abaxial axis; IBA:GO_Central.
DR GO; GO:2000024; P:regulation of leaf development; IBA:GO_Central.
DR GO; GO:1902183; P:regulation of shoot apical meristem development; IBA:GO_Central.
DR Gene3D; 1.10.30.10; -; 1.
DR InterPro; IPR036910; HMG_box_dom_sf.
DR InterPro; IPR006780; YABBY.
DR PANTHER; PTHR31675; PTHR31675; 1.
DR Pfam; PF04690; YABBY; 1.
DR SUPFAM; SSF47095; SSF47095; 1.
PE 2: Evidence at transcript level;
KW Differentiation; Metal-binding; Nucleus; Reference proteome; Zinc;
KW Zinc-finger.
FT CHAIN 1..266
FT /note="Protein YABBY 5"
FT /id="PRO_0000308699"
FT ZN_FING 36..63
FT /note="C4-type"
FT REGION 1..22
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 119..174
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 119..173
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 65
FT /note="N -> K (in Ref. 6; EAZ31462)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 266 AA; 28217 MW; EAC89CEA28DD9BCA CRC64;
MMSSAPETFS LDHLSQHQQQ QPPPLAEQEQ LCYVHCNFCD TILAVGVPCS SLFKTVTVRC
GHCANLLSVN LRGLLLPAAA STANQLPFGQ ALLSPTSPHG LLDEVPSFQA PASLMTEQAS
PNVSSITSSN SSCANNAPAT SMASAANKAT QREPQQPKNA PSANRTSEKR QRVPSAYNRF
IKDEIQRIKA SNPDITHREA FSAAAKNWAH FPHIHFGLMP DQGLKKTGIQ SQDGAGECML
FKDGLYAAAA AAAAATAASS MGVTPF
