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

Thecc1EG003652t2

Common Name

TCM_003652

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

TCP

Protein Properties

Length: 347aa MW: 37859.8 Da PI: 6.8499

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG003652t2	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	113.9	2.2e-35	22	118	2	93
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt..ssssaseceaesssssasnsssg.... 88 +g+kdrhsk++T +g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai++l+++ ++ + c+a++ + ++ s++ Thecc1EG003652t2 22 TGRKDRHSKVYTVKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDKLAELppWHPNTNTCTAVETDEPNAGSGEMaiae 114 79**************************************************************76333335553333333333222223332 PP TCP 89 .kaaks 93 + +s Thecc1EG003652t2 115 qS--ES 118 20..11 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	7.8E-32	22	130	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	32.584	24	82	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0045962	Biological Process	positive regulation of development, heterochronic

Sequence ? help Back to Top
Protein Sequence Length: 347 aa Download sequence Send to blast
MGMKSVGGEI VQVQGGHIIR STGRKDRHSK VYTVKGPRDR RVRLSAHTAI QFYDVQDRLG 60 YDRPSKAVDW LIKKAKSAID KLAELPPWHP NTNTCTAVET DEPNAGSGEM AIAEQSESSG 120 YNYQLRQFDE NPNNDSSFGA QQLGNDAIAD TLKSFFPTST TASSINFPRY PPDLISKTRT 180 PTEDLGLSLH SFQDPGLIHS HSQGGTSHTP STGQTLFAGP AQVGFETNFQ RMVAWSTNTS 240 GENTRANFVF NSLPLAQQQA LVGQGLTFSQ RGPLQSSFLE SIRTCDDLPV ASPDHHKTQE 300 IHEASIFGSR FASDGLPRFS IPALIHGEEE HSSVSNRPSS SPNSYR*

Sequence ? help Back to Top

Protein Sequence Length: 347 aa Download sequence Send to blast

MGMKSVGGEI VQVQGGHIIR STGRKDRHSK VYTVKGPRDR RVRLSAHTAI QFYDVQDRLG  60
YDRPSKAVDW LIKKAKSAID KLAELPPWHP NTNTCTAVET DEPNAGSGEM AIAEQSESSG  120
YNYQLRQFDE NPNNDSSFGA QQLGNDAIAD TLKSFFPTST TASSINFPRY PPDLISKTRT  180
PTEDLGLSLH SFQDPGLIHS HSQGGTSHTP STGQTLFAGP AQVGFETNFQ RMVAWSTNTS  240
GENTRANFVF NSLPLAQQQA LVGQGLTFSQ RGPLQSSFLE SIRTCDDLPV ASPDHHKTQE  300
IHEASIFGSR FASDGLPRFS IPALIHGEEE HSSVSNRPSS SPNSYR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	5e-22	29	82	1	54	Putative transcription factor PCF6
5zkt_B	5e-22	29	82	1	54	Putative transcription factor PCF6
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor playing 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) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:15634699, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18816164, ECO:0000269\|PubMed:25378179}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:18816164}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007050039.1	0.0	PREDICTED: transcription factor TCP4
Swissprot	Q8LPR5	5e-71	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A061DQ62	0.0	A0A061DQ62_THECC; TCP family transcription factor 4 isoform 1
STRING	EOX94195	0.0	(Theobroma cacao)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	2e-70	TCP family protein

Link Out ? help Back to Top
Phytozome	Thecc1EG003652t2
Entrez Gene	18612978

Publications ? help Back to Top
Schommer C, et al. Control of jasmonate biosynthesis and senescence by miR319 targets. PLoS Biol., 2008. 6(9): p. e230 [PMID:18816164] Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509] Ju Y, et al. Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments. Plant Cell, 2016. 28(9): p. 2131-2146 [PMID:27468890] Challa KR,Aggarwal P,Nath U Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis. Plant Cell, 2016. 28(9): p. 2117-2130 [PMID:27597774] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] Li J, et al. RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis. J. Exp. Bot., 2016. 67(22): p. 6473-6480 [PMID:27838638] Sun X, et al. Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor. Plant Biotechnol. J., 2017. 15(10): p. 1284-1294 [PMID:28233945] Kubota A, et al. TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis. PLoS Genet., 2017. 13(6): p. e1006856 [PMID:28628608] 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] Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development. Plant Physiol., 2018. 176(2): p. 1694-1708 [PMID:29133375] Vadde BVL,Challa KR,Nath U The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana. Plant J., 2018. 93(2): p. 259-269 [PMID:29165850] Challa KR,Rath M,Nath U The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways. PLoS Genet., 2019. 15(2): p. e1007988 [PMID:30742619]