ID TIP2_ORYSJ Reviewed; 379 AA.
AC Q5JNS0; A0A0P0V176;
DT 09-JUL-2014, integrated into UniProtKB/Swiss-Prot.
DT 15-FEB-2005, sequence version 1.
DT 30-NOV-2016, entry version 84.
DE RecName: Full=Transcription factor TIP2;
DE AltName: Full=Basic helix-loop-helix protein 142 {ECO:0000305};
DE Short=OsbHLH142 {ECO:0000303|PubMed:16896230};
DE AltName: Full=Basic helix-loop-helix protein TIP2;
DE AltName: Full=TDR INTERACTING PROTEIN2;
GN Name=TIP2; Synonyms=BHLH142 {ECO:0000305};
GN OrderedLocusNames=LOC_Os01g18870, Os01g0293100; ORFNames=P0706B05.43;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza.
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.,
RA Okamoto M., Ando T., Aoki H., Arita K., Hamada M., Harada C.,
RA Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M.,
RA Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K.,
RA Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I.,
RA Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y.,
RA Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M.,
RA Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M.,
RA Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K.,
RA Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K.,
RA Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y.,
RA 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.,
RA McCombie W.R., Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S.,
RA Childs K.L., Davidson R.M., Lin H., Quesada-Ocampo L.,
RA Vaillancourt B., Sakai H., Lee S.S., Kim J., Numa H., Itoh T.,
RA Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using
RT next generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [5]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=16896230; DOI=10.1104/pp.106.080580;
RA Li X., Duan X., Jiang H., Sun Y., Tang Y., Yuan Z., Guo J., Liang W.,
RA Chen L., Yin J., Ma H., Wang J., Zhang D.;
RT "Genome-wide analysis of basic/helix-loop-helix transcription factor
RT family in rice and Arabidopsis.";
RL Plant Physiol. 141:1167-1184(2006).
RN [6]
RP FUNCTION, INTERACTION WITH TDR, SUBCELLULAR LOCATION, TISSUE
RP SPECIFICITY, AND DISRUPTION PHENOTYPE.
RC STRAIN=cv. 9522;
RX PubMed=24755456; DOI=10.1105/tpc.114.123745;
RA Fu Z., Yu J., Cheng X., Zong X., Xu J., Chen M., Li Z., Zhang D.,
RA Liang W.;
RT "The rice basic helix-loop-helix transcription factor TDR INTERACTING
RT PROTEIN2 is a central switch in early anther development.";
RL Plant Cell 26:1512-1524(2014).
RN [7]
RP FUNCTION, AND INTERACTION WITH TDR.
RX PubMed=24894043; DOI=10.1105/tpc.114.126292;
RA Ko S.S., Li M.J., Sun-Ben Ku M., Ho Y.C., Lin Y.J., Chuang M.H.,
RA Hsing H.X., Lien Y.C., Yang H.T., Chang H.C., Chan M.T.;
RT "The bHLH142 transcription factor coordinates with TDR1 to modulate
RT the expression of EAT1 and regulate pollen development in rice.";
RL Plant Cell 26:2486-2504(2014).
CC -!- FUNCTION: Transcription factor that binds to the E-box-containing
CC promoter regions of the transcription factors TDR and EAT1,
CC activating their expression. May have a role in specifying the
CC cell pattern of the inner anther walls and functioning in meiosis
CC progression. Required for male reproduction (PubMed:24755456).
CC Acts downstream of UDT1 and GAMYB, but upstream of TDR1 and EAT1
CC in pollen development (PubMed:24894043).
CC {ECO:0000269|PubMed:24755456, ECO:0000269|PubMed:24894043}.
CC -!- SUBUNIT: Homodimer (By similarity). Interacts with TDR, but not
CC with EAT1 (PubMed:24755456, PubMed:24894043). {ECO:0000250,
CC ECO:0000269|PubMed:24755456, ECO:0000269|PubMed:24894043}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-
CC ProRule:PRU00981, ECO:0000269|PubMed:24755456}.
CC -!- TISSUE SPECIFICITY: Highly expressed in anthers; strong expression
CC in the middle layer and tapetum, and weak expression in the
CC endothecium. {ECO:0000269|PubMed:24755456}.
CC -!- DEVELOPMENTAL STAGE: In anthers, expressed from the meiosis stage
CC to mitosis, with maximum levels at stages 7 and 8, when meiosis
CC initiates, and when endothecium and the middle layer become
CC condensed, respectively.
CC -!- DISRUPTION PHENOTYPE: Has normal vegetative growth, inflorescence
CC and flower morphology, however has smaller anthers and does not
CC produce mature pollen grains during reproductive stage. After
CC stage 6, during which anther forms four somatic layers, the three
CC inner anther wall layers remain undifferentiated. Meiosis
CC progresses normally from leptotene stage to metaphase I, but is
CC arrasted at anaphase I and no cytokinesis occurs at prophase II,
CC resulting in degenerated meiocytes. {ECO:0000269|PubMed:24755456}.
CC -!- SIMILARITY: Contains 1 bHLH (basic helix-loop-helix) domain.
CC {ECO:0000255|PROSITE-ProRule:PRU00981}.
DR EMBL; AP002482; BAD86887.1; -; Genomic_DNA.
DR EMBL; AP008207; BAF04709.1; -; Genomic_DNA.
DR EMBL; AP014957; BAS71669.1; -; Genomic_DNA.
DR RefSeq; XP_015645943.1; XM_015790457.1.
DR UniGene; Os.54828; -.
DR ProteinModelPortal; Q5JNS0; -.
DR PaxDb; Q5JNS0; -.
DR PRIDE; Q5JNS0; -.
DR EnsemblPlants; OS01T0293100-01; OS01T0293100-01; OS01G0293100.
DR GeneID; 4325164; -.
DR Gramene; OS01T0293100-01; OS01T0293100-01; OS01G0293100.
DR KEGG; osa:4325164; -.
DR eggNOG; ENOG410JSU4; Eukaryota.
DR eggNOG; ENOG41108H2; LUCA.
DR HOGENOM; HOG000071096; -.
DR InParanoid; Q5JNS0; -.
DR OMA; RREMQGD; -.
DR OrthoDB; EOG09360HGX; -.
DR Proteomes; UP000059680; Chromosome 1.
DR Genevisible; Q5JNS0; OS.
DR GO; GO:0005634; C:nucleus; IC:Gramene.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:UniProtKB-KW.
DR GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
DR Gene3D; 4.10.280.10; -; 1.
DR InterPro; IPR011598; bHLH_dom.
DR Pfam; PF00010; HLH; 1.
DR SMART; SM00353; HLH; 1.
DR SUPFAM; SSF47459; SSF47459; 1.
DR PROSITE; PS50888; BHLH; 1.
PE 1: Evidence at protein level;
KW Complete proteome; DNA-binding; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1 379 Transcription factor TIP2.
FT /FTId=PRO_0000429745.
FT DOMAIN 173 222 bHLH. {ECO:0000255|PROSITE-
FT ProRule:PRU00981}.
FT REGION 173 186 Basic motif; degenerate.
FT {ECO:0000255|PROSITE-ProRule:PRU00981}.
FT REGION 187 222 Helix-loop-helix motif.
FT {ECO:0000255|PROSITE-ProRule:PRU00981}.
FT COMPBIAS 25 118 Ala-rich.
CC --------------------------------------------------------------------------
CC The following FT lines are automated annotations from the MyHits database.
CC --------------------------------------------------------------------------
FT MYHIT 180 222 ipfam:HLH [T]
FT MYHIT 173 222 iprf:BHLH [T]
FT MYHIT 179 228 ismart:HLH [T]
SQ SEQUENCE 379 AA; 40706 MW; 88840ACC6D4353B5 CRC64;
MYHPQCELLM PLESLEMDVG QSHLAAAVAA AMPGELNFHL LHSLDAAAAA ASSTAASASS
QPTVDYFFGG ADQQPPPPAA MQYDQLAAPH HHQTVAMLRD YYGGHYPPAA AAAAATEAYF
RGGPRTAGSS SLVFGPADDE SAFMVGPFES SPTPRSGGGR KRSRATAGFH GGGPANGVEK
KEKQRRLRLT EKYNALMLLI PNRTKEDRAT VISDAIEYIQ ELGRTVEELT LLVEKKRRRR
EMQGDVVDAA TSSVVAGMDQ AAESSEGEVM AAAAMGAVAP PPRQAPIRST YIQRRSKETF
VDVRIVEDDV NIKLTKRRRD GCLAAASRAL DDLRLDLVHL SGGKIGDCHI YMFNTKIHSG
SPVFASAVAS RLIEVVDEY
//
|
