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

Niben101Scf01002g02011.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

TCP

Protein Properties

Length: 418aa MW: 46082.7 Da PI: 6.9093

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf01002g02011.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	113.1	3.7e-35	36	162	2	126
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt............ssssasece 74 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++akpai+el+++ s Niben101Scf01002g02011.1 36 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKPAIDELAELpawkptlgsvsvS-------- 112 79**************************************************************4444444333322........ PP TCP 75 aesssssasnsssg....kaaksaakskksqksaasalnlak....esrakarararert 126 as+ +++ ++++ ++++ ++++++ +l + s+++a a r++t Niben101Scf01002g02011.1 113 -------ASAANISnleqEKSQ---DENFTFHQENATTSLFDnaagPSNKRAMAALRNET 162 .......333333322211222...23333333332222222010133333333333332 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.5E-31	36	216	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.543	38	96	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 418 aa Download sequence Send to blast
MGDSQHQNHR TTSRLGLRST VGEIVEVQGG HIVRSTGRKD RHSKVCTAKG PRDRRVRLSA 60 HTAIQFYDVQ DRLGYDRPSK AVDWLIKKAK PAIDELAELP AWKPTLGSVS VSASAANISN 120 LEQEKSQDEN FTFHQENATT SLFDNAAGPS NKRAMAALRN ETNTSGSFLP PSLESDAIAD 180 TIKSFFPMGS STATNSSAMQ FQSFHQETNN MLSRTSSQNQ DLRLSLQFQD PILLHPQSQQ 240 AQHQHEHQTS NHREELQAQV GHFTPLGFDS SGCWSSMHQQ QQPVERVQRL ASWNDNRDTT 300 AQGGGYLFNS QPGQPPLLQQ LFCGQNQFYT QRGPLQSSNT PSVRAWIDPT SSAIAIASAD 360 QAVLPMYHHP STIPPGYGFA PEIGGFSGFR IPARIQGEEE EHDGISDKPS SASSDSRH

Sequence ? help Back to Top

Protein Sequence Length: 418 aa Download sequence Send to blast

MGDSQHQNHR TTSRLGLRST VGEIVEVQGG HIVRSTGRKD RHSKVCTAKG PRDRRVRLSA  60
HTAIQFYDVQ DRLGYDRPSK AVDWLIKKAK PAIDELAELP AWKPTLGSVS VSASAANISN  120
LEQEKSQDEN FTFHQENATT SLFDNAAGPS NKRAMAALRN ETNTSGSFLP PSLESDAIAD  180
TIKSFFPMGS STATNSSAMQ FQSFHQETNN MLSRTSSQNQ DLRLSLQFQD PILLHPQSQQ  240
AQHQHEHQTS NHREELQAQV GHFTPLGFDS SGCWSSMHQQ QQPVERVQRL ASWNDNRDTT  300
AQGGGYLFNS QPGQPPLLQQ LFCGQNQFYT QRGPLQSSNT PSVRAWIDPT SSAIAIASAD  360
QAVLPMYHHP STIPPGYGFA PEIGGFSGFR IPARIQGEEE EHDGISDKPS SASSDSRH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	6e-20	43	96	1	54	Putative transcription factor PCF6
5zkt_B	6e-20	43	96	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00009	PBM	Transfer from 929286	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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009795084.1	0.0	PREDICTED: transcription factor TCP4-like
Refseq	XP_016487618.1	0.0	PREDICTED: transcription factor TCP4-like
Swissprot	Q8LPR5	1e-100	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A1S4BFK8	0.0	A0A1S4BFK8_TOBAC; transcription factor TCP4-like
TrEMBL	A0A1U7Y759	0.0	A0A1U7Y759_NICSY; transcription factor TCP4-like
STRING	XP_009795084.1	0.0	(Nicotiana sylvestris)

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-92	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]