RF2A_ORYSJ
ID RF2A_ORYSJ Reviewed; 380 AA.
AC Q69IL4; A0A0P0XPP9; O24181;
DT 05-JUL-2005, integrated into UniProtKB/Swiss-Prot.
DT 13-SEP-2004, sequence version 1.
DT 03-AUG-2022, entry version 102.
DE RecName: Full=Transcription factor RF2a;
GN Name=RF2a; OrderedLocusNames=Os09g0516200, LOC_Os09g34060;
GN ORFNames=OSJNBb0034B12.8, P0450E05.33;
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] (ISOFORM 2), FUNCTION, SUBCELLULAR LOCATION, AND
RP TISSUE SPECIFICITY.
RC STRAIN=cv. Taipei 309;
RX PubMed=9311985; DOI=10.1093/emboj/16.17.5247;
RA Yin Y., Zhu Q., Dai S., Lamb C., Beachy R.N.;
RT "RF2a, a bZIP transcriptional activator of the phloem-specific rice tungro
RT bacilliform virus promoter, functions in vascular development.";
RL EMBO J. 16:5247-5259(1997).
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=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 MRNA] (ISOFORM 1).
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 [5]
RP FUNCTION.
RX PubMed=11390974; DOI=10.1073/pnas.121186398;
RA Petruccelli S., Dai S., Carcamo R., Yin Y., Chen S., Beachy R.N.;
RT "Transcription factor RF2a alters expression of the rice tungro bacilliform
RT virus promoter in transgenic tobacco plants.";
RL Proc. Natl. Acad. Sci. U.S.A. 98:7635-7640(2001).
RN [6]
RP INTERACTION WITH TBP2.
RX PubMed=11971135; DOI=10.1105/tpc.010364;
RA Zhu Q., Ordiz M.I., Dabi T., Beachy R.N., Lamb C.;
RT "Rice TATA binding protein interacts functionally with transcription factor
RT IIB and the RF2a bZIP transcriptional activator in an enhanced plant in
RT vitro transcription system.";
RL Plant Cell 14:795-803(2002).
RN [7]
RP FUNCTION, AND INTERACTION WITH TBP2.
RX PubMed=12855676; DOI=10.1074/jbc.m304862200;
RA Dai S., Petruccelli S., Ordiz M.I., Zhang Z., Chen S., Beachy R.N.;
RT "Functional analysis of RF2a, a rice transcription factor.";
RL J. Biol. Chem. 278:36396-36402(2003).
RN [8]
RP FUNCTION, SUBUNIT, INTERACTION WITH RF2B, AND TISSUE SPECIFICITY.
RX PubMed=14704272; DOI=10.1073/pnas.0307687100;
RA Dai S., Zhang Z., Chen S., Beachy R.N.;
RT "RF2b, a rice bZIP transcription activator, interacts with RF2a and is
RT involved in symptom development of rice tungro disease.";
RL Proc. Natl. Acad. Sci. U.S.A. 101:687-692(2004).
CC -!- FUNCTION: Transcription factor probably involved in vascular
CC development and shoot tissue organization. Binds to the DNA sequence
CC 5'-CCGAGTGTGCCCCTGG-3' present in the promoter region Box II of the
CC phloem-specific rice tungro bacilliform virus (RTBV) promoter. May
CC regulate tissue-specific expression of the RTBV promoter and virus
CC replication. {ECO:0000269|PubMed:11390974, ECO:0000269|PubMed:12855676,
CC ECO:0000269|PubMed:14704272, ECO:0000269|PubMed:9311985}.
CC -!- SUBUNIT: Binds DNA as a homodimer or as a heterodimer with RF2b. The
CC heterodimer binds stronger to DNA than the homodimer. Interacts with
CC TBP2. {ECO:0000269|PubMed:11971135, ECO:0000269|PubMed:12855676,
CC ECO:0000269|PubMed:14704272}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00978,
CC ECO:0000269|PubMed:9311985}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q69IL4-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q69IL4-2; Sequence=VSP_014413;
CC -!- TISSUE SPECIFICITY: Expressed at high levels in levels in leaf sheath,
CC moderate levels in leaf blade, but not in roots. Predominantly
CC expressed in vascular tissues. {ECO:0000269|PubMed:14704272,
CC ECO:0000269|PubMed:9311985}.
CC -!- SIMILARITY: Belongs to the bZIP family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AK102795; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; AF005492; AAC49832.1; -; mRNA.
DR EMBL; AP005735; BAD33820.1; -; Genomic_DNA.
DR EMBL; AP006756; BAD34440.1; -; Genomic_DNA.
DR EMBL; AP014965; BAT08959.1; -; Genomic_DNA.
DR EMBL; AP014965; BAT08960.1; -; Genomic_DNA.
DR EMBL; AK102795; -; NOT_ANNOTATED_CDS; mRNA.
DR PIR; T03580; T03580.
DR RefSeq; XP_015612692.1; XM_015757206.1. [Q69IL4-1]
DR AlphaFoldDB; Q69IL4; -.
DR SMR; Q69IL4; -.
DR STRING; 4530.OS09T0516200-01; -.
DR iPTMnet; Q69IL4; -.
DR PaxDb; Q69IL4; -.
DR PRIDE; Q69IL4; -.
DR EnsemblPlants; Os09t0516200-01; Os09t0516200-01; Os09g0516200. [Q69IL4-1]
DR EnsemblPlants; Os09t0516200-02; Os09t0516200-02; Os09g0516200. [Q69IL4-2]
DR GeneID; 4347578; -.
DR Gramene; Os09t0516200-01; Os09t0516200-01; Os09g0516200. [Q69IL4-1]
DR Gramene; Os09t0516200-02; Os09t0516200-02; Os09g0516200. [Q69IL4-2]
DR KEGG; osa:4347578; -.
DR eggNOG; ENOG502QTK9; Eukaryota.
DR HOGENOM; CLU_026205_0_0_1; -.
DR InParanoid; Q69IL4; -.
DR OMA; GTSMMNY; -.
DR OrthoDB; 1304262at2759; -.
DR Proteomes; UP000000763; Chromosome 9.
DR Proteomes; UP000059680; Chromosome 9.
DR ExpressionAtlas; Q69IL4; baseline and differential.
DR Genevisible; Q69IL4; OS.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; IBA:GO_Central.
DR CDD; cd14703; bZIP_plant_RF2; 1.
DR InterPro; IPR004827; bZIP.
DR InterPro; IPR044759; bZIP_RF2.
DR InterPro; IPR046347; bZIP_sf.
DR Pfam; PF00170; bZIP_1; 1.
DR SMART; SM00338; BRLZ; 1.
DR SUPFAM; SSF57959; SSF57959; 1.
DR PROSITE; PS50217; BZIP; 1.
PE 1: Evidence at protein level;
KW Activator; Alternative splicing; DNA-binding; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..380
FT /note="Transcription factor RF2a"
FT /id="PRO_0000076570"
FT DOMAIN 181..244
FT /note="bZIP"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00978"
FT REGION 1..57
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 56..108
FT /note="Activation of RTBV promoter"
FT REGION 183..204
FT /note="Basic motif"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00978"
FT REGION 209..244
FT /note="Leucine-zipper"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00978"
FT REGION 283..357
FT /note="Interaction with TBP2"
FT REGION 326..380
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 326..356
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 112..123
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:9311985"
FT /id="VSP_014413"
FT CONFLICT 172
FT /note="A -> V (in Ref. 1; AAC49832)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 380 AA; 40647 MW; 1E4865FEA305FF4C CRC64;
MNREKSPIPG DGGDGLPPQA TRRAGPPAAA AAAEYDISRM PDFPTRNPGH RRAHSEILSL
PEDLDLCAAG GGDGPSLSDE NDEELFSMFL DVEKLNSTCG ASSEAEAESS SAGAAAAVAA
AAAAAAHGAR PKHQHSLSMD ESMSIKAEEL VGASPGTEGM SSAEAKKAVS AAKLAELALV
DPKRAKRIWA NRQSAARSKE RKMRYIAELE RKVQTLQTEA TTLSAQLALL QRDTSGLTTE
NSELKLRLQT MEQQVHLQDA LNDTLKSEVQ RLKVATGQMA NGGGMMMNFG GMPHQFGGNQ
QMFQNNQAMQ SMLAAHQLQQ LQLHPQAQQQ QVLHPQHQQQ QPLHPLQAQQ LQQAARDLKM
KSPMGGQSQW GDGKSGSSGN
