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

Cc05_g11430

Common Name

GSCOC_T00021317001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

TCP

Protein Properties

Length: 354aa MW: 39425.6 Da PI: 7.3188

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc05_g11430	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	121.7	8.5e-38	52	153	2	96
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.......ssssasec.eaesssssasnsssgkaa 91 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai+el+++ +s +a+ + e++++ +++ +++ ++++ Cc05_g11430 52 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDELAELpawhpttGSAAANTSfEQDQQAQKSRADNLQNQQ 149 79**************************************************************5554433111111111111111111112222222 PP TCP 92 ksaak 96 +++ Cc05_g11430 150 QQH-L 153 222.2 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	1.9E-31	52	159	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.187	54	112	IPR017887	Transcription factor TCP subgroup

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009793	Biological Process	embryo development ending in seed dormancy
GO:0009965	Biological Process	leaf morphogenesis
GO:0030154	Biological Process	cell differentiation
GO:0045962	Biological Process	positive regulation of development, heterochronic
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 354 aa Download sequence Send to blast
MGENFHHHHQ LQQQQQQQPT TRQSSSRLSG LRNSTGAGEI VEVQGGHIVR STGRKDRHSK 60 VCTAKGPRDR RVRLSAHTAI QFYDVQDRLG YDRPSKAVDW LIKKAKSAID ELAELPAWHP 120 TTGSAAANTS FEQDQQAQKS RADNLQNQQQ QHLGGLHQTD SAANPSGNSS SFLPPSLDSD 180 SIADTIKSFF PMGASAEANS SAMQFQSFPP PDLLSRTSSH PQDLQLSLQS FQDPILLHHH 240 NQQQAQHHQN HPTSQHPEQA EALFSGNTQL GGYDAAAWSE HHQQPAELGR NCSAKTSFFL 300 RGDPFSPLIH LQFVLGWIHQ LYPSPLQIIT FHTIRQCCQF IHHRYLALDL PLE*

Sequence ? help Back to Top

Protein Sequence Length: 354 aa Download sequence Send to blast

MGENFHHHHQ LQQQQQQQPT TRQSSSRLSG LRNSTGAGEI VEVQGGHIVR STGRKDRHSK  60
VCTAKGPRDR RVRLSAHTAI QFYDVQDRLG YDRPSKAVDW LIKKAKSAID ELAELPAWHP  120
TTGSAAANTS FEQDQQAQKS RADNLQNQQQ QHLGGLHQTD SAANPSGNSS SFLPPSLDSD  180
SIADTIKSFF PMGASAEANS SAMQFQSFPP PDLLSRTSSH PQDLQLSLQS FQDPILLHHH  240
NQQQAQHHQN HPTSQHPEQA EALFSGNTQL GGYDAAAWSE HHQQPAELGR NCSAKTSFFL  300
RGDPFSPLIH LQFVLGWIHQ LYPSPLQIIT FHTIRQCCQF IHHRYLALDL PLE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-20	59	112	1	54	Putative transcription factor PCF6
5zkt_B	1e-20	59	112	1	54	Putative transcription factor PCF6
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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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00062	PBM	Transfer from AT3G15030	Download

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	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027064028.1	1e-173	transcription factor TCP4-like
Refseq	XP_027064029.1	1e-173	transcription factor TCP4-like
Swissprot	Q8LPR5	7e-81	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A068UBV5	0.0	A0A068UBV5_COFCA; Uncharacterized protein
STRING	XP_009630327.1	1e-104	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3207	23	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	2e-62	TCP family protein

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] 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]