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Transcription factor TCP13 (Plastid transcription factor 1) (TFPD)

 TCP13_ARATH             Reviewed;         355 AA.
Q9S7W5; Q8LEB5;
29-APR-2008, integrated into UniProtKB/Swiss-Prot.
01-MAY-2000, sequence version 1.
27-SEP-2017, entry version 96.
RecName: Full=Transcription factor TCP13;
AltName: Full=Plastid transcription factor 1;
AltName: Full=TFPD;
Name=TCP13; Synonyms=PTF1; OrderedLocusNames=At3g02150;
ORFNames=F14P3.20, F1C9.6;
Arabidopsis thaliana (Mouse-ear cress).
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae;
Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae;
Arabidopsis.
NCBI_TaxID=3702;
[1]
NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY,
AND SUBCELLULAR LOCATION.
STRAIN=cv. Columbia;
PubMed=11161017; DOI=10.1104/pp.125.2.595;
Baba K., Nakano T., Yamagishi K., Yoshida S.;
"Involvement of a nuclear-encoded basic helix-loop-helix protein in
transcription of the light-responsive promoter of psbD.";
Plant Physiol. 125:595-603(2001).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Columbia;
PubMed=11130713; DOI=10.1038/35048706;
Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M.,
Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B.,
Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P.,
De Simone V., Choisne N., Artiguenave F., Robert C., Brottier P.,
Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F.,
Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V.,
Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S.,
Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G.,
Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B.,
Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G.,
Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J.,
Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D.,
Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D.,
de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E.,
Monfort A., Argiriou A., Flores M., Liguori R., Vitale D.,
Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W.,
Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J.,
Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P.,
Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S.,
Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V.,
Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C.,
Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E.,
Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y.,
Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A.,
Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T.,
Watanabe A., Yamada M., Yasuda M., Tabata S.;
"Sequence and analysis of chromosome 3 of the plant Arabidopsis
thaliana.";
Nature 408:820-822(2000).
[3]
GENOME REANNOTATION.
STRAIN=cv. Columbia;
The Arabidopsis Information Portal (Araport);
Submitted (MAY-2016) to the EMBL/GenBank/DDBJ databases.
[4]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
STRAIN=cv. Columbia;
PubMed=14593172; DOI=10.1126/science.1088305;
Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J.,
Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F.,
Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.,
Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J.,
Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y.,
Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P.,
Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F.,
Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M.,
Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J.,
Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T.,
Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y.,
Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.;
"Empirical analysis of transcriptional activity in the Arabidopsis
genome.";
Science 302:842-846(2003).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
Feldmann K.A.;
"Full-length cDNA from Arabidopsis thaliana.";
Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
[6]
GENE FAMILY, AND NOMENCLATURE.
PubMed=17307924; DOI=10.1105/tpc.106.048934;
Aguilar-Martinez J.A., Poza-Carrion C., Cubas P.;
"Arabidopsis BRANCHED1 acts as an integrator of branching signals
within axillary buds.";
Plant Cell 19:458-472(2007).
[7]
FUNCTION, AND TISSUE SPECIFICITY.
PubMed=17307931; DOI=10.1105/tpc.106.044792;
Koyama T., Furutani M., Tasaka M., Ohme-Takagi M.;
"TCP transcription factors control the morphology of shoot lateral
organs via negative regulation of the expression of boundary-specific
genes in Arabidopsis.";
Plant Cell 19:473-484(2007).
[8]
INTERACTION WITH AHL27 AND AHL29.
PubMed=24218605; DOI=10.1073/pnas.1219277110;
Zhao J., Favero D.S., Peng H., Neff M.M.;
"Arabidopsis thaliana AHL family modulates hypocotyl growth
redundantly by interacting with each other via the PPC/DUF296
domain.";
Proc. Natl. Acad. Sci. U.S.A. 110:E4688-E4697(2013).
[9]
INTERACTION WITH SPL.
PubMed=25527103; DOI=10.1016/j.jgg.2014.08.009;
Chen G.H., Sun J.Y., Liu M., Liu J., Yang W.C.;
"SPOROCYTELESS is a novel embryophyte-specific transcription repressor
that interacts with TPL and TCP proteins in Arabidopsis.";
J. Genet. Genomics 41:617-625(2014).
[10]
FUNCTION, INTERACTION WITH SPL, AND DEVELOPMENTAL STAGE.
PubMed=25378179; DOI=10.1038/cr.2014.145;
Wei B., Zhang J., Pang C., Yu H., Guo D., Jiang H., Ding M., Chen Z.,
Tao Q., Gu H., Qu L.J., Qin G.;
"The molecular mechanism of sporocyteless/nozzle in controlling
Arabidopsis ovule development.";
Cell Res. 25:121-134(2015).
-!- FUNCTION: Plays a pivotal role in the control of morphogenesis of
shoot organs by negatively regulating the expression of boundary-
specific genes such as CUC genes, probably through the induction
of miRNA (e.g. miR164). Binds to the 3'-ACC-5' repeats in the
light-responsive promoter (LRP) of psbD, and activates its
transcription. Participates in ovule develpment (PubMed:25378179).
{ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931,
ECO:0000269|PubMed:25378179}.
-!- SUBUNIT: Interacts with AHL27 and AHL29 (PubMed:24218605).
Interacts with SPL (PubMed:25527103, PubMed:25378179).
{ECO:0000269|PubMed:24218605, ECO:0000269|PubMed:25378179,
ECO:0000269|PubMed:25527103}.
-!- INTERACTION:
Q9SFD5:ADA2A; NbExp=4; IntAct=EBI-4424877, EBI-979206;
Q9LNV5:At1g07360; NbExp=3; IntAct=EBI-4424877, EBI-2430550;
Q56XU4:At1g19860; NbExp=3; IntAct=EBI-4424877, EBI-15197415;
C0SUZ3:At1g35490; NbExp=3; IntAct=EBI-4424877, EBI-15192249;
Q9ZW36:At2g29580; NbExp=3; IntAct=EBI-4424877, EBI-15195245;
Q9FGW7:At5g63350; NbExp=3; IntAct=EBI-4424877, EBI-4458988;
O04292:ATHB-9; NbExp=3; IntAct=EBI-4424877, EBI-1536772;
Q7XJU2:BHLH153; NbExp=3; IntAct=EBI-4424877, EBI-4427748;
Q8RU59:bZIP48; NbExp=3; IntAct=EBI-4424877, EBI-943044;
A9LNK9:CPSF30; NbExp=3; IntAct=EBI-4424877, EBI-962511;
P46601:HAT2; NbExp=5; IntAct=EBI-4424877, EBI-4448195;
Q05466:HAT4; NbExp=3; IntAct=EBI-4424877, EBI-4428728;
Q8VY64:NFYA4; NbExp=3; IntAct=EBI-4424877, EBI-4461713;
Q4PSE2:NFYC8; NbExp=3; IntAct=EBI-4424877, EBI-15191571;
Q9LXU1:PIM1; NbExp=3; IntAct=EBI-4424877, EBI-15193025;
O82239:RFI2; NbExp=3; IntAct=EBI-4424877, EBI-4425094;
O81836:SPL; NbExp=3; IntAct=EBI-4424877, EBI-1113588;
Q9LQZ5:SRS5; NbExp=3; IntAct=EBI-4424877, EBI-15194925;
Q93Z00:TCP14; NbExp=6; IntAct=EBI-4424877, EBI-4424563;
Q6X7J9:WOX4; NbExp=3; IntAct=EBI-4424877, EBI-4459694;
Q9LDT3:YAB4; NbExp=3; IntAct=EBI-4424877, EBI-1115523;
Q39266:ZFP7; NbExp=3; IntAct=EBI-4424877, EBI-4426163;
P93751:ZFP8; NbExp=3; IntAct=EBI-4424877, EBI-15193377;
-!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-
ProRule:PRU00701, ECO:0000269|PubMed:11161017}. Plastid,
chloroplast {ECO:0000269|PubMed:11161017}.
-!- ALTERNATIVE PRODUCTS:
Event=Alternative splicing; Named isoforms=2;
Name=1;
IsoId=Q9S7W5-1; Sequence=Displayed;
Name=2;
IsoId=Q9S7W5-2; Sequence=VSP_033116;
Note=No experimental confirmation available.;
-!- TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the
vascular region, in leaves, buds, flowers and immature siliques,
and, to a lower extent, in roots. {ECO:0000269|PubMed:11161017,
ECO:0000269|PubMed:17307931}.
-!- DEVELOPMENTAL STAGE: Expressed during ovule development
(PubMed:25378179). {ECO:0000269|PubMed:25378179}.
-----------------------------------------------------------------------
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EMBL; AB014465; BAA88760.1; -; mRNA.
EMBL; AC009755; AAF02122.1; -; Genomic_DNA.
EMBL; AC011664; AAF14823.1; -; Genomic_DNA.
EMBL; CP002686; AEE73769.1; -; Genomic_DNA.
EMBL; CP002686; AEE73770.1; -; Genomic_DNA.
EMBL; BT001982; AAN71993.1; -; mRNA.
EMBL; BT008839; AAP68278.1; -; mRNA.
EMBL; AY085519; AAM62743.1; -; mRNA.
RefSeq; NP_566164.1; NM_111082.4. [Q9S7W5-2]
RefSeq; NP_850501.1; NM_180170.3. [Q9S7W5-1]
UniGene; At.10505; -.
ProteinModelPortal; Q9S7W5; -.
BioGrid; 6394; 92.
IntAct; Q9S7W5; 218.
STRING; 3702.AT3G02150.2; -.
PaxDb; Q9S7W5; -.
PRIDE; Q9S7W5; -.
DNASU; 821061; -.
EnsemblPlants; AT3G02150.1; AT3G02150.1; AT3G02150. [Q9S7W5-2]
EnsemblPlants; AT3G02150.2; AT3G02150.2; AT3G02150. [Q9S7W5-1]
GeneID; 821061; -.
Gramene; AT3G02150.1; AT3G02150.1; AT3G02150.
Gramene; AT3G02150.2; AT3G02150.2; AT3G02150.
KEGG; ath:AT3G02150; -.
Araport; AT3G02150; -.
TAIR; locus:2076492; AT3G02150.
eggNOG; ENOG410IZD4; Eukaryota.
eggNOG; ENOG410YQU0; LUCA.
HOGENOM; HOG000090535; -.
InParanoid; Q9S7W5; -.
OMA; TNGCVEE; -.
OrthoDB; EOG09360IU2; -.
PhylomeDB; Q9S7W5; -.
PRO; PR:Q9S7W5; -.
Proteomes; UP000006548; Chromosome 3.
Genevisible; Q9S7W5; AT.
GO; GO:0009507; C:chloroplast; IDA:TAIR.
GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
GO; GO:0003700; F:transcription factor activity, sequence-specific DNA binding; ISS:TAIR.
GO; GO:0030154; P:cell differentiation; IGI:TAIR.
GO; GO:0048366; P:leaf development; IGI:TAIR.
GO; GO:0009965; P:leaf morphogenesis; IGI:TAIR.
GO; GO:0045962; P:positive regulation of development, heterochronic; IGI:TAIR.
GO; GO:0031347; P:regulation of defense response; IMP:TAIR.
GO; GO:0006355; P:regulation of transcription, DNA-templated; TAS:TAIR.
GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
InterPro; IPR017887; TF_TCP_subgr.
InterPro; IPR005333; Transcription_factor_TCP.
Pfam; PF03634; TCP; 1.
PROSITE; PS51369; TCP; 1.
1: Evidence at protein level;
Alternative splicing; Chloroplast; Complete proteome;
Developmental protein; DNA-binding; Nucleus; Plastid;
Reference proteome; Transcription; Transcription regulation.
CHAIN 1 355 Transcription factor TCP13.
/FTId=PRO_0000330787.
DOMAIN 74 132 TCP. {ECO:0000255|PROSITE-
ProRule:PRU00701}.
COMPBIAS 199 232 His-rich.
COMPBIAS 257 310 Ser-rich.
VAR_SEQ 279 355 Missing (in isoform 2).
{ECO:0000303|Ref.5}.
/FTId=VSP_033116.
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


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