GRF4_ORYSJ
ID GRF4_ORYSJ Reviewed; 394 AA.
AC Q6ZIK5; A0A0P0VNR1; B9F1Z2; Q70LH5;
DT 03-OCT-2012, integrated into UniProtKB/Swiss-Prot.
DT 05-JUL-2004, sequence version 1.
DT 25-MAY-2022, entry version 86.
DE RecName: Full=Growth-regulating factor 4 {ECO:0000303|PubMed:15295073};
DE Short=OsGRF4 {ECO:0000303|PubMed:15295073};
DE AltName: Full=Protein GRAIN LENGTH AND WIDTH 2 {ECO:0000303|PubMed:27107174};
DE AltName: Full=Protein GRAIN SIZE ON CHROMOSOME 2 {ECO:0000303|PubMed:26187814};
DE AltName: Full=Protein PANICLE TRAITS 2 {ECO:0000303|PubMed:26936408};
DE AltName: Full=Transcription activator GRF4 {ECO:0000305};
GN Name=GRF4 {ECO:0000303|PubMed:15295073};
GN Synonyms=GL2 {ECO:0000303|PubMed:27250747},
GN GLW2 {ECO:0000303|PubMed:27107174}, GS2 {ECO:0000303|PubMed:26187814},
GN PT2 {ECO:0000303|PubMed:26936408};
GN OrderedLocusNames=Os02g0701300 {ECO:0000312|EMBL:BAF09757.1},
GN LOC_Os02g47280 {ECO:0000305};
GN ORFNames=OJ1111_E07.19 {ECO:0000312|EMBL:BAD07524.1},
GN OsJ_08054 {ECO:0000312|EMBL:EEE57634.1};
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 168-392.
RC STRAIN=cv. Nipponbare; TISSUE=Embryo;
RX PubMed=15078336; DOI=10.1111/j.1365-313x.2004.02037.x;
RA Ye R., Yao Q.-H., Xu Z.-H., Xue H.-W.;
RT "Development of an efficient method for the isolation of factors involved
RT in gene transcription during rice embryo development.";
RL Plant J. 38:348-357(2004).
RN [7]
RP IDENTIFICATION, AND GENE FAMILY.
RC STRAIN=cv. Nipponbare;
RX PubMed=15295073; DOI=10.1093/pcp/pch098;
RA Choi D., Kim J.H., Kende H.;
RT "Whole genome analysis of the OsGRF gene family encoding plant-specific
RT putative transcription activators in rice (Oryza sativa L.).";
RL Plant Cell Physiol. 45:897-904(2004).
RN [8]
RP FUNCTION.
RX PubMed=24532604; DOI=10.1104/pp.113.222836;
RA Kuijt S.J., Greco R., Agalou A., Shao J., 't Hoen C.C., Overnaes E.,
RA Osnato M., Curiale S., Meynard D., van Gulik R., de Faria Maraschin S.,
RA Atallah M., de Kam R.J., Lamers G.E., Guiderdoni E., Rossini L.,
RA Meijer A.H., Ouwerkerk P.B.;
RT "Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE
RT HOMEOBOX families of transcription factors.";
RL Plant Physiol. 164:1952-1966(2014).
RN [9]
RP FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, INDUCTION, DOMAIN,
RP POLYMORPHISM, AND VARIANT LYS-163.
RX PubMed=26187814; DOI=10.1016/j.molp.2015.07.002;
RA Hu J., Wang Y., Fang Y., Zeng L., Xu J., Yu H., Shi Z., Pan J., Zhang D.,
RA Kang S., Zhu L., Dong G., Guo L., Zeng D., Zhang G., Xie L., Xiong G.,
RA Li J., Qian Q.;
RT "A rare allele of GS2 enhances grain size and grain yield in rice.";
RL Mol. Plant 8:1455-1465(2015).
RN [10]
RP FUNCTION, ACTIVITY REGULATION, INTERACTION WITH GIF1 AND GSK2, SUBCELLULAR
RP LOCATION, TISSUE SPECIFICITY, INDUCTION, DOMAIN, POLYMORPHISM, AND VARIANT
RP LYS-163.
RX PubMed=27250747; DOI=10.1038/nplants.2015.195;
RA Che R., Tong H., Shi B., Liu Y., Fang S., Liu D., Xiao Y., Hu B., Liu L.,
RA Wang H., Zhao M., Chu C.;
RT "Control of grain size and rice yield by GL2-mediated brassinosteroid
RT responses.";
RL Nat. Plants 2:15195-15195(2015).
RN [11]
RP FUNCTION, INTERACTION WITH GIF1, SUBCELLULAR LOCATION, TISSUE SPECIFICITY,
RP INDUCTION, POLYMORPHISM, AND VARIANT LYS-163.
RX PubMed=27250749; DOI=10.1038/nplants.2015.203;
RA Duan P., Ni S., Wang J., Zhang B., Xu R., Wang Y., Chen H., Zhu X., Li Y.;
RT "Regulation of OsGRF4 by OsmiR396 controls grain size and yield in rice.";
RL Nat. Plants 2:15203-15203(2015).
RN [12]
RP FUNCTION, SUBCELLULAR LOCATION, INDUCTION, POLYMORPHISM, AND VARIANT
RP LYS-163.
RX PubMed=26936408; DOI=10.1111/jipb.12473;
RA Sun P., Zhang W., Wang Y., He Q., Shu F., Liu H., Wang J., Wang J.,
RA Yuan L., Deng H.;
RT "OsGRF4 controls grain shape, panicle length and seed shattering in rice.";
RL J. Integr. Plant Biol. 58:836-847(2016).
RN [13]
RP FUNCTION, INTERACTION WITH GIF1, SUBCELLULAR LOCATION, TISSUE SPECIFICITY,
RP INDUCTION, DOMAIN, POLYMORPHISM, AND VARIANT LYS-163.
RX PubMed=27107174; DOI=10.1111/pbi.12569;
RA Li S., Gao F., Xie K., Zeng X., Cao Y., Zeng J., He Z., Ren Y., Li W.,
RA Deng Q., Wang S., Zheng A., Zhu J., Liu H., Wang L., Li P.;
RT "The OsmiR396c-OsGRF4-OsGIF1 regulatory module determines grain size and
RT yield in rice.";
RL Plant Biotechnol. J. 14:2134-2146(2016).
CC -!- FUNCTION: Transcription activator that plays a role in the regulation
CC of meristematic function in leaves, stems and inflorescences
CC (PubMed:24532604). Transcription activator that plays a regulatory role
CC in grain development (PubMed:26187814, PubMed:27250747,
CC PubMed:27250749, PubMed:26936408, PubMed:27107174). Positively
CC regulates grain size by promoting cell division and expansion, leading
CC to increased grain length and width (PubMed:26187814, PubMed:27250747,
CC PubMed:27250749, PubMed:26936408, PubMed:27107174). Positively
CC regulates the expression of genes promoting cell proliferation
CC (PubMed:26187814, PubMed:26936408). Activates the expression of
CC expansin genes to promote cell expansion and grain size
CC (PubMed:27250747). May promote grain size by activating brassinosteroid
CC responses (PubMed:27250747). Component of a network formed by the
CC microRNA396 (miRNA396), the GRFs and their interacting factors (GIFs)
CC acting in the regulation of meristem function, at least partially
CC through the control of cell proliferation (Probable). Component of the
CC miRNA396c-GRF4-GIF1 regulatory module that plays an important role in
CC grain size determination (Probable) (PubMed:27250747, PubMed:27250749,
CC PubMed:27107174). {ECO:0000269|PubMed:24532604,
CC ECO:0000269|PubMed:26187814, ECO:0000269|PubMed:26936408,
CC ECO:0000269|PubMed:27107174, ECO:0000269|PubMed:27250747,
CC ECO:0000269|PubMed:27250749, ECO:0000305|PubMed:26187814,
CC ECO:0000305|PubMed:27107174, ECO:0000305|PubMed:27250747,
CC ECO:0000305|PubMed:27250749}.
CC -!- ACTIVITY REGULATION: Transactivation activity is repressed by GSK2.
CC {ECO:0000269|PubMed:27250747}.
CC -!- SUBUNIT: Interacts with GIF1 (PubMed:27250747, PubMed:27250749,
CC PubMed:27107174). Interacts with GSK2 (PubMed:27250747).
CC {ECO:0000269|PubMed:27107174, ECO:0000269|PubMed:27250747,
CC ECO:0000269|PubMed:27250749}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU01002,
CC ECO:0000269|PubMed:26187814, ECO:0000269|PubMed:26936408,
CC ECO:0000269|PubMed:27107174, ECO:0000269|PubMed:27250747,
CC ECO:0000269|PubMed:27250749}.
CC -!- TISSUE SPECIFICITY: Expressed in stems (PubMed:27107174). Expressed in
CC panicles (PubMed:26187814, PubMed:27250747, PubMed:27250749,
CC PubMed:27107174). {ECO:0000269|PubMed:26187814,
CC ECO:0000269|PubMed:27107174, ECO:0000269|PubMed:27250747,
CC ECO:0000269|PubMed:27250749}.
CC -!- INDUCTION: The microRNA396c negatively regulates GRF4 at the
CC transcriptional level. {ECO:0000269|PubMed:26187814,
CC ECO:0000269|PubMed:26936408, ECO:0000269|PubMed:27107174,
CC ECO:0000269|PubMed:27250747}.
CC -!- DOMAIN: The QLQ domain and WRC domain may be involved in protein-
CC protein interaction and DNA-binding, respectively (Probable). The C-
CC terminal region downstream of the QLQ and WRC domains is necessary for
CC transactivation activity (PubMed:26187814, PubMed:27250747,
CC PubMed:27107174). {ECO:0000269|PubMed:26187814,
CC ECO:0000269|PubMed:27107174, ECO:0000269|PubMed:27250747, ECO:0000305}.
CC -!- POLYMORPHISM: A two nucleotide mutation at the miRNA396c target site
CC results in elevated transcript levels of GRF4, and the accumulation of
CC GRF4 leads to enlarged cell size and increased cell number, which in
CC turn results in enhanced grain weight and yield.
CC {ECO:0000269|PubMed:26187814, ECO:0000269|PubMed:26936408,
CC ECO:0000269|PubMed:27107174, ECO:0000269|PubMed:27250747,
CC ECO:0000269|PubMed:27250749}.
CC -!- MISCELLANEOUS: Plants over-expressing GRF4 exhibit increased grain
CC length, width and weight (PubMed:27107174). Plants silencing GRF4
CC exhibit dwarfism, delayed growth and inflorescence formation
CC (PubMed:24532604). {ECO:0000269|PubMed:24532604,
CC ECO:0000269|PubMed:27107174}.
CC -!- SIMILARITY: Belongs to the GRF family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAS80470.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=EEE57634.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AP003994; BAD07524.1; -; Genomic_DNA.
DR EMBL; AP008208; BAF09757.1; -; Genomic_DNA.
DR EMBL; AP014958; BAS80470.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CM000139; EEE57634.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AK063983; BAG88946.1; -; mRNA.
DR EMBL; AJ566408; CAD97478.1; -; mRNA.
DR EMBL; BK004859; DAA05208.1; -; Genomic_DNA.
DR RefSeq; XP_015624297.1; XM_015768811.1.
DR AlphaFoldDB; Q6ZIK5; -.
DR STRING; 39947.Q6ZIK5; -.
DR PRIDE; Q6ZIK5; -.
DR EnsemblPlants; Os02t0701300-01; Os02t0701300-01; Os02g0701300.
DR GeneID; 4330436; -.
DR Gramene; Os02t0701300-01; Os02t0701300-01; Os02g0701300.
DR KEGG; osa:4330436; -.
DR InParanoid; Q6ZIK5; -.
DR OrthoDB; 1097140at2759; -.
DR PlantReactome; R-OSA-9035605; Regulation of seed size.
DR Proteomes; UP000000763; Chromosome 2.
DR Proteomes; UP000007752; Chromosome 2.
DR Proteomes; UP000059680; Chromosome 2.
DR ExpressionAtlas; Q6ZIK5; baseline and differential.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0005524; F:ATP binding; IEA:InterPro.
DR GO; GO:0008283; P:cell population proliferation; IMP:UniProtKB.
DR GO; GO:0048366; P:leaf development; IMP:UniProtKB.
DR GO; GO:0045893; P:positive regulation of transcription, DNA-templated; IDA:UniProtKB.
DR GO; GO:0048316; P:seed development; IMP:UniProtKB.
DR GO; GO:0006351; P:transcription, DNA-templated; IEA:InterPro.
DR InterPro; IPR014978; Gln-Leu-Gln_QLQ.
DR InterPro; IPR031137; GRF.
DR InterPro; IPR014977; WRC_dom.
DR PANTHER; PTHR31602; PTHR31602; 1.
DR Pfam; PF08880; QLQ; 1.
DR Pfam; PF08879; WRC; 1.
DR SMART; SM00951; QLQ; 1.
DR PROSITE; PS51666; QLQ; 1.
DR PROSITE; PS51667; WRC; 1.
PE 1: Evidence at protein level;
KW Activator; Nucleus; Reference proteome; Transcription;
KW Transcription regulation.
FT CHAIN 1..394
FT /note="Growth-regulating factor 4"
FT /id="PRO_0000419305"
FT DOMAIN 64..99
FT /note="QLQ"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01001"
FT DOMAIN 125..169
FT /note="WRC"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01002"
FT REGION 156..180
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 130..140
FT /note="Bipartite nuclear localization signal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01002"
FT MOTIF 158..165
FT /note="Bipartite nuclear localization signal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01002"
FT VARIANT 163
FT /note="S -> K (increased grain length, width and weight)"
FT /evidence="ECO:0000269|PubMed:26187814,
FT ECO:0000269|PubMed:26936408, ECO:0000269|PubMed:27107174,
FT ECO:0000269|PubMed:27250747, ECO:0000269|PubMed:27250749"
SQ SEQUENCE 394 AA; 41836 MW; 3E71912F42AC1F6E CRC64;
MAMPYASLSP AVADHRSSPA AATASLLPFC RSTPLSAGGG GVAMGEDAPM TARWPPAAAA
RLPPFTAAQY EELEQQALIY KYLVAGVPVP PDLVLPIRRG LDSLAARFYN HPALGYGPYF
GKKLDPEPGR CRRTDGKKWR CSKEAAPDSK YCERHMHRGR NRSRKPVETQ LVAQSQPPSS
VVGSAAAPLA AASNGSSFQN HSLYPAIAGS NGGGGGRNMP SSFGSALGSQ LHMDNAAPYA
AVGGGTGKDL RYTAYGTRSL ADEQSQLITE AINTSIENPW RLLPSQNSPF PLSSYSQLGA
LSDLGQNTPS SLSKVQRQPL SFFGNDYAAV DSVKQENQTL RPFFDEWPKG RDSWSDLADE
NANLSSFSGT QLSISIPMAS SDFSAASSRS TNGD
