TCP13_ARATH
ID TCP13_ARATH Reviewed; 355 AA.
AC Q9S7W5; Q8LEB5;
DT 29-APR-2008, integrated into UniProtKB/Swiss-Prot.
DT 01-MAY-2000, sequence version 1.
DT 03-AUG-2022, entry version 122.
DE RecName: Full=Transcription factor TCP13;
DE AltName: Full=Plastid transcription factor 1;
DE AltName: Full=TFPD;
GN Name=TCP13; Synonyms=PTF1; OrderedLocusNames=At3g02150;
GN ORFNames=F14P3.20, F1C9.6;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY, AND
RP SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia;
RX PubMed=11161017; DOI=10.1104/pp.125.2.595;
RA Baba K., Nakano T., Yamagishi K., Yoshida S.;
RT "Involvement of a nuclear-encoded basic helix-loop-helix protein in
RT transcription of the light-responsive promoter of psbD.";
RL Plant Physiol. 125:595-603(2001).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130713; DOI=10.1038/35048706;
RA Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B.,
RA Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M.,
RA Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V.,
RA Choisne N., Artiguenave F., Robert C., Brottier P., Wincker P.,
RA Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H.,
RA Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H.,
RA Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A.,
RA Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H.,
RA Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J.,
RA Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B.,
RA Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D.,
RA de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E.,
RA Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G.,
RA Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X.,
RA Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M.,
RA Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B.,
RA Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J.,
RA Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C.,
RA Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y.,
RA Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K.,
RA Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A.,
RA Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T.,
RA Watanabe A., Yamada M., Yasuda M., Tabata S.;
RT "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.";
RL Nature 408:820-822(2000).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=17307924; DOI=10.1105/tpc.106.048934;
RA Aguilar-Martinez J.A., Poza-Carrion C., Cubas P.;
RT "Arabidopsis BRANCHED1 acts as an integrator of branching signals within
RT axillary buds.";
RL Plant Cell 19:458-472(2007).
RN [7]
RP FUNCTION, AND TISSUE SPECIFICITY.
RX PubMed=17307931; DOI=10.1105/tpc.106.044792;
RA Koyama T., Furutani M., Tasaka M., Ohme-Takagi M.;
RT "TCP transcription factors control the morphology of shoot lateral organs
RT via negative regulation of the expression of boundary-specific genes in
RT Arabidopsis.";
RL Plant Cell 19:473-484(2007).
RN [8]
RP INTERACTION WITH AHL27 AND AHL29.
RX PubMed=24218605; DOI=10.1073/pnas.1219277110;
RA Zhao J., Favero D.S., Peng H., Neff M.M.;
RT "Arabidopsis thaliana AHL family modulates hypocotyl growth redundantly by
RT interacting with each other via the PPC/DUF296 domain.";
RL Proc. Natl. Acad. Sci. U.S.A. 110:E4688-E4697(2013).
RN [9]
RP INTERACTION WITH SPL.
RX PubMed=25527103; DOI=10.1016/j.jgg.2014.08.009;
RA Chen G.H., Sun J.Y., Liu M., Liu J., Yang W.C.;
RT "SPOROCYTELESS is a novel embryophyte-specific transcription repressor that
RT interacts with TPL and TCP proteins in Arabidopsis.";
RL J. Genet. Genomics 41:617-625(2014).
RN [10]
RP FUNCTION, INTERACTION WITH SPL, AND DEVELOPMENTAL STAGE.
RX PubMed=25378179; DOI=10.1038/cr.2014.145;
RA Wei B., Zhang J., Pang C., Yu H., Guo D., Jiang H., Ding M., Chen Z.,
RA Tao Q., Gu H., Qu L.J., Qin G.;
RT "The molecular mechanism of sporocyteless/nozzle in controlling Arabidopsis
RT ovule development.";
RL Cell Res. 25:121-134(2015).
RN [11]
RP INTERACTION WITH KIN10; KIN11 AND FLZ3.
RX DOI=10.1016/j.cpb.2015.10.004;
RA Nietzsche M., Landgraf R., Tohge T., Boernke F.;
RT "A protein-protein interaction network linking the energy-sensor kinase
RT SnRK1 to multiple signaling pathways in Arabidopsis thaliana.";
RL Curr. Plant Biol. 5:36-44(2016).
CC -!- FUNCTION: Plays a pivotal role in the control of morphogenesis of shoot
CC organs by negatively regulating the expression of boundary-specific
CC genes such as CUC genes, probably through the induction of miRNA (e.g.
CC miR164). Binds to the 3'-ACC-5' repeats in the light-responsive
CC promoter (LRP) of psbD, and activates its transcription. Participates
CC in ovule develpment (PubMed:25378179). {ECO:0000269|PubMed:11161017,
CC ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179}.
CC -!- SUBUNIT: Interacts with AHL27 and AHL29 (PubMed:24218605). Interacts
CC with SPL (PubMed:25527103, PubMed:25378179). Interacts with KIN10;
CC KIN11 and FLZ3 (Ref.11). {ECO:0000269|PubMed:24218605,
CC ECO:0000269|PubMed:25378179, ECO:0000269|PubMed:25527103,
CC ECO:0000269|Ref.11}.
CC -!- INTERACTION:
CC Q9S7W5; Q9SFD5: ADA2A; NbExp=4; IntAct=EBI-4424877, EBI-979206;
CC Q9S7W5; Q9LNV5: At1g07360; NbExp=3; IntAct=EBI-4424877, EBI-2430550;
CC Q9S7W5; Q56XU4: At1g19860; NbExp=3; IntAct=EBI-4424877, EBI-15197415;
CC Q9S7W5; C0SUZ3: At1g35490; NbExp=3; IntAct=EBI-4424877, EBI-15192249;
CC Q9S7W5; Q9ZW36: At2g29580; NbExp=3; IntAct=EBI-4424877, EBI-15195245;
CC Q9S7W5; Q9FGW7: At5g63350; NbExp=3; IntAct=EBI-4424877, EBI-4458988;
CC Q9S7W5; O04292: ATHB-9; NbExp=3; IntAct=EBI-4424877, EBI-1536772;
CC Q9S7W5; Q7XJU2: BHLH153; NbExp=3; IntAct=EBI-4424877, EBI-4427748;
CC Q9S7W5; Q8RU59: bZIP48; NbExp=3; IntAct=EBI-4424877, EBI-943044;
CC Q9S7W5; Q8S307: BZR1; NbExp=4; IntAct=EBI-4424877, EBI-1803261;
CC Q9S7W5; A9LNK9: CPSF30; NbExp=3; IntAct=EBI-4424877, EBI-962511;
CC Q9S7W5; Q9SU72: EDS1; NbExp=3; IntAct=EBI-4424877, EBI-1390454;
CC Q9S7W5; Q94ID6: ERF12; NbExp=5; IntAct=EBI-4424877, EBI-4446727;
CC Q9S7W5; O80340: ERF4; NbExp=5; IntAct=EBI-4424877, EBI-966009;
CC Q9S7W5; Q9MAI5: ERF8; NbExp=5; IntAct=EBI-4424877, EBI-2000137;
CC Q9S7W5; Q9FE67: ERF9; NbExp=3; IntAct=EBI-4424877, EBI-4431933;
CC Q9S7W5; Q9LQT8: GAI; NbExp=4; IntAct=EBI-4424877, EBI-963606;
CC Q9S7W5; P46601: HAT2; NbExp=5; IntAct=EBI-4424877, EBI-4448195;
CC Q9S7W5; Q05466: HAT4; NbExp=3; IntAct=EBI-4424877, EBI-4428728;
CC Q9S7W5; A0A2H1ZEF6: IAA15; NbExp=3; IntAct=EBI-4424877, EBI-25524519;
CC Q9S7W5; P93830: IAA17; NbExp=5; IntAct=EBI-4424877, EBI-632243;
CC Q9S7W5; O24410: IAA20; NbExp=3; IntAct=EBI-4424877, EBI-632272;
CC Q9S7W5; Q9C5X0: IAA34; NbExp=3; IntAct=EBI-4424877, EBI-3946459;
CC Q9S7W5; Q38827: IAA9; NbExp=3; IntAct=EBI-4424877, EBI-632216;
CC Q9S7W5; Q8VY64: NFYA4; NbExp=3; IntAct=EBI-4424877, EBI-4461713;
CC Q9S7W5; Q4PSE2: NFYC8; NbExp=3; IntAct=EBI-4424877, EBI-15191571;
CC Q9S7W5; Q9LUA3: NIMIN-2; NbExp=3; IntAct=EBI-4424877, EBI-541107;
CC Q9S7W5; Q9FNZ4: NIMIN-3; NbExp=3; IntAct=EBI-4424877, EBI-541115;
CC Q9S7W5; Q9LXU1: PIM1; NbExp=3; IntAct=EBI-4424877, EBI-15193025;
CC Q9S7W5; Q9FJ49: PYL12; NbExp=3; IntAct=EBI-4424877, EBI-2363244;
CC Q9S7W5; Q8S8E3: PYL6; NbExp=3; IntAct=EBI-4424877, EBI-2363192;
CC Q9S7W5; Q84MC7: PYL9; NbExp=3; IntAct=EBI-4424877, EBI-2349513;
CC Q9S7W5; O82239: RFI2; NbExp=3; IntAct=EBI-4424877, EBI-4425094;
CC Q9S7W5; Q9SLH3: RGA; NbExp=3; IntAct=EBI-4424877, EBI-963624;
CC Q9S7W5; Q8GXW1: RGL2; NbExp=3; IntAct=EBI-4424877, EBI-963665;
CC Q9S7W5; Q9LF53: RGL3; NbExp=3; IntAct=EBI-4424877, EBI-15681313;
CC Q9S7W5; O81836: SPL; NbExp=3; IntAct=EBI-4424877, EBI-1113588;
CC Q9S7W5; Q9LQZ5: SRS5; NbExp=3; IntAct=EBI-4424877, EBI-15194925;
CC Q9S7W5; Q93Z00: TCP14; NbExp=6; IntAct=EBI-4424877, EBI-4424563;
CC Q9S7W5; Q6X7J9: WOX4; NbExp=3; IntAct=EBI-4424877, EBI-4459694;
CC Q9S7W5; Q9LDT3: YAB4; NbExp=3; IntAct=EBI-4424877, EBI-1115523;
CC Q9S7W5; Q39266: ZFP7; NbExp=3; IntAct=EBI-4424877, EBI-4426163;
CC Q9S7W5; P93751: ZFP8; NbExp=3; IntAct=EBI-4424877, EBI-15193377;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00701,
CC ECO:0000269|PubMed:11161017}. Plastid, chloroplast
CC {ECO:0000269|PubMed:11161017}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q9S7W5-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9S7W5-2; Sequence=VSP_033116;
CC -!- TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the
CC vascular region, in leaves, buds, flowers and immature siliques, and,
CC to a lower extent, in roots. {ECO:0000269|PubMed:11161017,
CC ECO:0000269|PubMed:17307931}.
CC -!- DEVELOPMENTAL STAGE: Expressed during ovule development
CC (PubMed:25378179). {ECO:0000269|PubMed:25378179}.
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DR EMBL; AB014465; BAA88760.1; -; mRNA.
DR EMBL; AC009755; AAF02122.1; -; Genomic_DNA.
DR EMBL; AC011664; AAF14823.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE73769.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE73770.1; -; Genomic_DNA.
DR EMBL; BT001982; AAN71993.1; -; mRNA.
DR EMBL; BT008839; AAP68278.1; -; mRNA.
DR EMBL; AY085519; AAM62743.1; -; mRNA.
DR RefSeq; NP_566164.1; NM_111082.4. [Q9S7W5-2]
DR RefSeq; NP_850501.1; NM_180170.3. [Q9S7W5-1]
DR AlphaFoldDB; Q9S7W5; -.
DR SMR; Q9S7W5; -.
DR BioGRID; 6394; 239.
DR IntAct; Q9S7W5; 233.
DR STRING; 3702.AT3G02150.2; -.
DR PaxDb; Q9S7W5; -.
DR PRIDE; Q9S7W5; -.
DR ProteomicsDB; 234199; -. [Q9S7W5-1]
DR DNASU; 821061; -.
DR EnsemblPlants; AT3G02150.1; AT3G02150.1; AT3G02150. [Q9S7W5-2]
DR EnsemblPlants; AT3G02150.2; AT3G02150.2; AT3G02150. [Q9S7W5-1]
DR GeneID; 821061; -.
DR Gramene; AT3G02150.1; AT3G02150.1; AT3G02150. [Q9S7W5-2]
DR Gramene; AT3G02150.2; AT3G02150.2; AT3G02150. [Q9S7W5-1]
DR KEGG; ath:AT3G02150; -.
DR Araport; AT3G02150; -.
DR TAIR; locus:2076492; AT3G02150.
DR eggNOG; ENOG502QS1Y; Eukaryota.
DR HOGENOM; CLU_059680_0_0_1; -.
DR InParanoid; Q9S7W5; -.
DR OMA; TNGCVEE; -.
DR OrthoDB; 995789at2759; -.
DR PhylomeDB; Q9S7W5; -.
DR PRO; PR:Q9S7W5; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q9S7W5; baseline and differential.
DR Genevisible; Q9S7W5; AT.
DR GO; GO:0009507; C:chloroplast; IDA:TAIR.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:TAIR.
DR GO; GO:0043565; F:sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0048366; P:leaf development; IGI:TAIR.
DR GO; GO:0010150; P:leaf senescence; IGI:TAIR.
DR GO; GO:0031347; P:regulation of defense response; IMP:TAIR.
DR GO; GO:2000032; P:regulation of secondary shoot formation; IBA:GO_Central.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; TAS:TAIR.
DR InterPro; IPR017887; TF_TCP_subgr.
DR InterPro; IPR005333; Transcription_factor_TCP.
DR PANTHER; PTHR31072; PTHR31072; 3.
DR Pfam; PF03634; TCP; 1.
DR PROSITE; PS51369; TCP; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Chloroplast; Developmental protein; DNA-binding;
KW Nucleus; Plastid; Reference proteome; Transcription;
KW Transcription regulation.
FT CHAIN 1..355
FT /note="Transcription factor TCP13"
FT /id="PRO_0000330787"
FT DOMAIN 74..132
FT /note="TCP"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00701"
FT REGION 1..57
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 329..355
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 14..38
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 39..57
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 329..344
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 279..355
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.5"
FT /id="VSP_033116"
SQ SEQUENCE 355 AA; 39610 MW; 32479DB14FFD8EFC CRC64;
MNIVSWKDAN DEVAGGATTR REREVKEDQE ETEVRATSGK TVIKKQPTSI SSSSSSWMKS
KDPRIVRVSR AFGGKDRHSK VCTLRGLRDR RVRLSVPTAI QLYDLQERLG VDQPSKAVDW
LLDAAKEEID ELPPLPISPE NFSIFNHHQS FLNLGQRPGQ DPTQLGFKIN GCVQKSTTTS
REENDREKGE NDVVYTNNHH VGSYGTYHNL EHHHHHHQHL SLQADYHSHQ LHSLVPFPSQ
ILVCPMTTSP TTTTIQSLFP SSSSAGSGTM ETLDPRQMVS HFQMPLMGNS SSSSSQNIST
LYSLLHGSSS NNGGRDIDNR MSSVQFNRTN STTTANMSRH LGSERCTSRG SDHHM
