GAMYB_ORYSJ
ID GAMYB_ORYSJ Reviewed; 553 AA.
AC Q0JIC2; B7ETP5; P93417; Q5VQR2; Q8SA38;
DT 11-SEP-2007, integrated into UniProtKB/Swiss-Prot.
DT 03-OCT-2006, sequence version 1.
DT 03-AUG-2022, entry version 110.
DE RecName: Full=Transcription factor GAMYB;
DE AltName: Full=OsGAMyb;
GN Name=GAMYB {ECO:0000303|PubMed:14688295};
GN Synonyms=GAM1, MYBGA {ECO:0000305};
GN OrderedLocusNames=Os01g0812000, LOC_Os01g59660;
GN ORFNames=OsJ_003732, P0425G02.18-1, P0425G02.18-2;
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 [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12447438; DOI=10.1038/nature01184;
RA Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.,
RA Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M.,
RA Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T.,
RA Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S.,
RA Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H.,
RA Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y.,
RA Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S.,
RA Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y.,
RA Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S.,
RA Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H.,
RA Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.;
RT "The genome sequence and structure of rice chromosome 1.";
RL Nature 420:312-316(2002).
RN [2]
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 [3]
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 [4]
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 [5]
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 [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
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 [7]
RP FUNCTION, DISRUPTION PHENOTYPE, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE,
RP AND INDUCTION.
RX PubMed=14688295; DOI=10.1105/tpc.017327;
RA Kaneko M., Inukai Y., Ueguchi-Tanaka M., Itoh H., Izawa T., Kobayashi Y.,
RA Hattori T., Miyao A., Hirochika H., Ashikari M., Matsuoka M.;
RT "Loss-of-function mutations of the rice GAMYB gene impair alpha-amylase
RT expression in aleurone and flower development.";
RL Plant Cell 16:33-44(2004).
RN [8]
RP FUNCTION, DEVELOPMENTAL STAGE, AND DISRUPTION PHENOTYPE.
RX PubMed=19454733; DOI=10.1105/tpc.108.062935;
RA Aya K., Ueguchi-Tanaka M., Kondo M., Hamada K., Yano K., Nishimura M.,
RA Matsuoka M.;
RT "Gibberellin modulates anther development in rice via the transcriptional
RT regulation of GAMYB.";
RL Plant Cell 21:1453-1472(2009).
RN [9]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RX PubMed=20590996; DOI=10.1111/j.1744-7909.2010.00959.x;
RA Liu Z., Bao W., Liang W., Yin J., Zhang D.;
RT "Identification of gamyb-4 and analysis of the regulatory role of GAMYB in
RT rice anther development.";
RL J. Integr. Plant Biol. 52:670-678(2010).
RN [10]
RP FUNCTION, AND INTERACTION WITH MYBS1.
RX PubMed=22773748; DOI=10.1105/tpc.112.097741;
RA Hong Y.F., Ho T.H., Wu C.F., Ho S.L., Yeh R.H., Lu C.A., Chen P.W.,
RA Yu L.C., Chao A., Yu S.M.;
RT "Convergent starvation signals and hormone crosstalk in regulating nutrient
RT mobilization upon germination in cereals.";
RL Plant Cell 24:2857-2873(2012).
CC -!- FUNCTION: Transcriptional activator of gibberellin-dependent alpha-
CC amylase expression in aleurone cells. Involved in pollen and floral
CC organs development. May bind to the 5'-TAACAAA-3' box of alpha-amylase
CC promoter. Required for anther development (PubMed:19454733,
CC PubMed:20590996). Functions in parallel with UDT1 to regulate early
CC anther development. Functions upstream of the transcription factor TDR
CC and may positively regulate its transcription (PubMed:20590996).
CC Required for pollen development. Probably required for controlling
CC tapetal cell size and promoting tapetal programmed cell death (PCD)
CC during anther development. Required for exine and Ubisch body formation
CC in anthers. Interacts with the DNA specific motifs of giberrellin-up-
CC regulated genes of anthers and regulates their expression. Positively
CC regulates the expression of the laurate hydroxylase CYP703A3, known to
CC be essential for the development of pollen exine and anther
CC epicuticular layer (PubMed:19454733). Functions with MYBS1 to integrate
CC diverse nutrient starvation and gibberellin (GA) signaling pathways
CC during germination of grains. Sugar, nitrogen and phosphate starvation
CC signals converge and interconnect with GA to promote the co-nuclear
CC import of GAMYB and MYBS1, resulting in the expression of a large set
CC of GA-inducible hydrolases, transporters and regulators that are
CC essential for mobilization of nutrient reserves in the endosperm to
CC support seedling growth (PubMed:22773748).
CC {ECO:0000269|PubMed:14688295, ECO:0000269|PubMed:19454733,
CC ECO:0000269|PubMed:20590996, ECO:0000269|PubMed:22773748}.
CC -!- SUBUNIT: Interacts with MYBS1. {ECO:0000269|PubMed:22773748}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q0JIC2-1, P93417-1;
CC Sequence=Displayed;
CC Name=2;
CC IsoId=Q0JIC2-2, P93417-2;
CC Sequence=VSP_015390, VSP_015391;
CC -!- TISSUE SPECIFICITY: Expressed in aleurone cells, inflorescence shoot
CC apical region, stamen primordia, and tapetum cells of the anther.
CC Expressed at low level in roots and vegetative shoots.
CC {ECO:0000269|PubMed:14688295}.
CC -!- DEVELOPMENTAL STAGE: Expressed in the epithelial layer of the embryo in
CC germinating seed (PubMed:14688295). Expressed in anthers of developing
CC flowers during meiosis, tapetal cell death stage, young microspore
CC stage and vacuolated pollen stage (PubMed:19454733).
CC {ECO:0000269|PubMed:14688295, ECO:0000269|PubMed:19454733}.
CC -!- INDUCTION: By gibberellin in aleurone cells.
CC {ECO:0000269|PubMed:14688295}.
CC -!- DISRUPTION PHENOTYPE: Plants are not defective in root and leaf
CC elongation, but present shortened internodes and defects in pollen and
CC floral development (PubMed:14688295). Delayed flowering
CC (PubMed:19454733). Male sterile. Defective in anther and pollen
CC development (PubMed:19454733, PubMed:20590996).
CC {ECO:0000269|PubMed:14688295, ECO:0000269|PubMed:19454733,
CC ECO:0000269|PubMed:20590996}.
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to intron retention.
CC {ECO:0000305}.
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DR EMBL; AP003247; BAB85242.1; -; Genomic_DNA.
DR EMBL; AP003247; BAD68205.1; -; Genomic_DNA.
DR EMBL; AP008207; BAF06506.1; -; Genomic_DNA.
DR EMBL; AP014957; BAS74878.1; -; Genomic_DNA.
DR EMBL; AP014957; BAS74879.1; -; Genomic_DNA.
DR EMBL; CM000138; EAZ13907.1; -; Genomic_DNA.
DR EMBL; AK063951; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK102841; BAG95742.1; -; mRNA.
DR RefSeq; XP_015622335.1; XM_015766849.1. [Q0JIC2-1]
DR RefSeq; XP_015622336.1; XM_015766850.1. [Q0JIC2-1]
DR AlphaFoldDB; Q0JIC2; -.
DR SMR; Q0JIC2; -.
DR STRING; 4530.OS01T0812000-02; -.
DR PaxDb; Q0JIC2; -.
DR PRIDE; Q0JIC2; -.
DR EnsemblPlants; Os01t0812000-01; Os01t0812000-01; Os01g0812000. [Q0JIC2-1]
DR EnsemblPlants; Os01t0812000-02; Os01t0812000-02; Os01g0812000. [Q0JIC2-1]
DR EnsemblPlants; Os01t0812000-03; Os01t0812000-03; Os01g0812000. [Q0JIC2-2]
DR GeneID; 4327362; -.
DR Gramene; Os01t0812000-01; Os01t0812000-01; Os01g0812000. [Q0JIC2-1]
DR Gramene; Os01t0812000-02; Os01t0812000-02; Os01g0812000. [Q0JIC2-1]
DR Gramene; Os01t0812000-03; Os01t0812000-03; Os01g0812000. [Q0JIC2-2]
DR KEGG; osa:4327362; -.
DR eggNOG; KOG0048; Eukaryota.
DR InParanoid; Q0JIC2; -.
DR OMA; VWGLGSC; -.
DR OrthoDB; 1499244at2759; -.
DR PlantReactome; R-OSA-9608575; Reproductive meristem phase change.
DR Proteomes; UP000000763; Chromosome 1.
DR Proteomes; UP000007752; Chromosome 1.
DR Proteomes; UP000059680; Chromosome 1.
DR ExpressionAtlas; Q0JIC2; baseline and differential.
DR Genevisible; Q0JIC2; OS.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0048653; P:anther development; IMP:UniProtKB.
DR GO; GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
DR GO; GO:0009555; P:pollen development; IMP:UniProtKB.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:InterPro.
DR CDD; cd00167; SANT; 2.
DR InterPro; IPR016310; GAMYB-like.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR017930; Myb_dom.
DR InterPro; IPR001005; SANT/Myb.
DR Pfam; PF00249; Myb_DNA-binding; 2.
DR PIRSF; PIRSF001693; Transcription_factor_GAMYB; 1.
DR SMART; SM00717; SANT; 2.
DR SUPFAM; SSF46689; SSF46689; 1.
DR PROSITE; PS51294; HTH_MYB; 2.
PE 1: Evidence at protein level;
KW Activator; Alternative splicing; Developmental protein; Differentiation;
KW DNA-binding; Flowering; Nucleus; Reference proteome; Repeat; Transcription;
KW Transcription regulation.
FT CHAIN 1..553
FT /note="Transcription factor GAMYB"
FT /id="PRO_0000197079"
FT DOMAIN 37..89
FT /note="HTH myb-type 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00625"
FT DOMAIN 90..144
FT /note="HTH myb-type 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00625"
FT DNA_BIND 65..89
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00625"
FT DNA_BIND 117..140
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00625"
FT REGION 1..45
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 464..489
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 465..474
FT /note="AQSTSMGSGE -> GWTLKFLIPL (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_015390"
FT VAR_SEQ 475..553
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_015391"
SQ SEQUENCE 553 AA; 59961 MW; 5E58638ED0D713E9 CRC64;
MYRVKSESDC DMIHQEQMDS PVADDGSSGG SPHRGGGPPL KKGPWTSAED AILVDYVKKH
GEGNWNAVQK NTGLFRCGKS CRLRWANHLR PNLKKGAFTA EEERLIIQLH SKMGNKWARM
AAHLPGRTDN EIKNYWNTRI KRCQRAGLPI YPTSVCNQSS NEDQQCSSDF DCGENLSNDL
LNANGLYLPD FTCDNFIANS EALPYAPHLS AVSISNLLGQ SFASKSCSFM DQVNQTGMLK
QSDGVLPGLS DTINGVISSV DQFSNDSEKL KQAVGFDYLH EANSTSKIIA PFGGALNGSH
AFLNGNFSAS RPTSGPLKME LPSLQDTESD PNSWLKYTVA PALQPTELVD PYLQSPAATP
SVKSECASPR NSGLLEELIH EAQTLRSGKN QQTSVISSSS SVGTPCNTTV LSPEFDMCQE
YWEEQHPGPF LNDCAPFSGN SFTESTPPVS AASPDIFQLS KVSPAQSTSM GSGEQVMGPK
YEPGDTSPHP ENFRPDALFS GNTADPSVFN NAIAMLLGND LSIDCRPVLG DGIMFNSSSW
SNMPHACEMS EFK
