PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

AT3G02150.1

Common Name

F14P3.20, F1C9.6, PTF1, TCP13, TFPD

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

TCP

Protein Properties

Length: 278aa MW: 31236.7 Da PI: 7.2936

Description

plastid transcription factor 1

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G02150.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	106.6	4e-33	72	190	2	105
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg......... 88 g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl +ak++i+el+ ++ s+++++ ++++s + ++ + AT3G02150.1 72 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGVDQPSKAVDWLLDAAKEEIDELPPLPISPENFSifNHHQSFLNLGQRPGQdptqlgfki 169 689******************************************************************99988777777776644444567777777 PP TCP 89 ....kaaksaakskksqksaa 105 ++++++ +++++++ + AT3G02150.1 170 ngcvQKSTTTSREENDREKGE 190 777633333333333322222 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	4.2E-29	74	173	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.314	74	132	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0031347	Biological Process	regulation of defense response
GO:0045962	Biological Process	positive regulation of development, heterochronic
GO:0005634	Cellular Component	nucleus
GO:0009507	Cellular Component	chloroplast
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000056	anatomy	flower bud
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009001	anatomy	fruit
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007131	developmental stage	seedling development stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 278 aa Download sequence Send to blast
MNIVSWKDAN DEVAGGATTR REREVKEDQE ETEVRATSGK TVIKKQPTSI SSSSSSWMKS 60 KDPRIVRVSR AFGGKDRHSK VCTLRGLRDR RVRLSVPTAI QLYDLQERLG VDQPSKAVDW 120 LLDAAKEEID ELPPLPISPE NFSIFNHHQS FLNLGQRPGQ DPTQLGFKIN GCVQKSTTTS 180 REENDREKGE NDVVYTNNHH VGSYGTYHNL EHHHHHHQHL SLQADYHSHQ LHSLVPFPSQ 240 ILVCPMTTSP TTTTIQSLFP SSSSAGSGTM ETLDPRQM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	6e-19	79	133	1	55	Putative transcription factor PCF6
5zkt_B	6e-19	79	133	1	55	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.10505	0.0	bud\| leaf\| seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	186509679	0.0
Genevisible	259129_at	0.0
Expression Atlas	AT3G02150	-
AtGenExpress	AT3G02150	-
ATTED-II	AT3G02150	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	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}.

Functional Description ? help Back to Top
Source	Description
TAIR	a chloroplast trans-acting factor of the psbD light-responsive promoter.TCP gene involved in heterochronic control of leaf differentiation.
UniProt	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00326	DAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G02150.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT3G25710, AT3G27010, AT3G47620, AT4G16780, AT4G17710, AT4G18390, AT4G27330, AT5G08070, AT5G08330, AT5G51910, AT5G60120, AT5G60970, AT1G05710, AT1G14920, AT1G24625, AT1G30210, AT1G35560, AT1G53230, AT1G58100, AT1G69690, AT1G69810, AT1G79430
IntAct	Search Q9S7W5

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G02150

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY085519	0.0	AY085519.1 Arabidopsis thaliana clone 15552 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_850501.1	0.0	plastid transcription factor 1
Swissprot	Q9S7W5	0.0	TCP13_ARATH; Transcription factor TCP13
TrEMBL	A0A178VKM0	0.0	A0A178VKM0_ARATH; TFPD
STRING	AT3G02150.2	0.0	(Arabidopsis thaliana)

Link Out ? help Back to Top
Phytozome	AT3G02150.1
Entrez Gene	821061
iHOP	AT3G02150
wikigenes	AT3G02150

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Suzuki T,Sakurai K,Ueguchi C,Mizuno T Two types of putative nuclear factors that physically interact with histidine-containing phosphotransfer (Hpt) domains, signaling mediators in His-to-Asp phosphorelay, in Arabidopsis thaliana. Plant Cell Physiol., 2001. 42(1): p. 37-45 [PMID:11158442] 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., 2001. 125(2): p. 595-603 [PMID:11161017] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Damerval C,Le Guilloux M,Jager M,Charon C Diversity and evolution of CYCLOIDEA-like TCP genes in relation to flower development in Papaveraceae. Plant Physiol., 2007. 143(2): p. 759-72 [PMID:17189327] Aguilar-Martínez JA,Poza-Carrión C,Cubas P Arabidopsis BRANCHED1 acts as an integrator of branching signals within axillary buds. Plant Cell, 2007. 19(2): p. 458-72 [PMID:17307924] 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, 2007. 19(2): p. 473-84 [PMID:17307931] Catala R, et al. The Arabidopsis E3 SUMO ligase SIZ1 regulates plant growth and drought responses. Plant Cell, 2007. 19(9): p. 2952-66 [PMID:17905899] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Efroni I,Blum E,Goldshmidt A,Eshed Y A protracted and dynamic maturation schedule underlies Arabidopsis leaf development. Plant Cell, 2008. 20(9): p. 2293-306 [PMID:18805992] Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Koyama T,Mitsuda N,Seki M,Shinozaki K,Ohme-Takagi M TCP transcription factors regulate the activities of ASYMMETRIC LEAVES1 and miR164, as well as the auxin response, during differentiation of leaves in Arabidopsis. Plant Cell, 2010. 22(11): p. 3574-88 [PMID:21119060] Mukhtar MS, et al. Independently evolved virulence effectors converge onto hubs in a plant immune system network. Science, 2011. 333(6042): p. 596-601 [PMID:21798943] Arabidopsis Interactome Mapping Consortium Evidence for network evolution in an Arabidopsis interactome map. Science, 2011. 333(6042): p. 601-7 [PMID:21798944] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Danisman S, et al. Analysis of functional redundancies within the Arabidopsis TCP transcription factor family. J. Exp. Bot., 2013. 64(18): p. 5673-85 [PMID:24129704] Zhao J,Favero DS,Peng H,Neff MM 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., 2013. 110(48): p. E4688-97 [PMID:24218605] Mar Large-scale identification of gibberellin-related transcription factors defines group VII ETHYLENE RESPONSE FACTORS as functional DELLA partners. Plant Physiol., 2014. 166(2): p. 1022-32 [PMID:25118255] We Convergent targeting of a common host protein-network by pathogen effectors from three kingdoms of life. Cell Host Microbe, 2014. 16(3): p. 364-75 [PMID:25211078] Wei B, et al. The molecular mechanism of sporocyteless/nozzle in controlling Arabidopsis ovule development. Cell Res., 2015. 25(1): p. 121-34 [PMID:25378179] Chen GH,Sun JY,Liu M,Liu J,Yang WC SPOROCYTELESS is a novel embryophyte-specific transcription repressor that interacts with TPL and TCP proteins in Arabidopsis. J Genet Genomics, 2014. 41(12): p. 617-25 [PMID:25527103] Yamburenko MV,Zubo YO,Börner T Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5. Plant J., 2015. 82(6): p. 1030-41 [PMID:25976841] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549]