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

Csa01g017540.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

TCP

Protein Properties

Length: 429aa MW: 46821.4 Da PI: 7.1874

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa01g017540.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	117.5	1.7e-36	47	162	2	84
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.........................ssssas 71 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LGfd++sk+++WL+++ak++i+el+++ + +s+s Csa01g017540.1 47 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGFDRPSKAVDWLIKKAKTSIDELAELppwnpadairlaaanakprrttaktQ-ISPS 140 79**************************************************************88887777777777666655444321.1111 PP TCP 72 eceaesssssas.........n 84 +++++ + + + Csa01g017540.1 141 PPPQQQQQLQFGvgfdgggteH 162 1122222222222333332221 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.1E-32	47	151	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.016	49	107	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 429 aa Download sequence Send to blast
MSDEFLHPPA PPPRPPSSMR HRTTSDAADG GCGEIVEVQG GHIVRSTGRK DRHSKVCTAK 60 GPRDRRVRLS AHTAIQFYDV QDRLGFDRPS KAVDWLIKKA KTSIDELAEL PPWNPADAIR 120 LAAANAKPRR TTAKTQISPS PPPQQQQQLQ FGVGFDGGGT EHPSNNNNEN EPSFLPPSMD 180 SDSIADTIKS FFPVVGSSTE APPNHHQLMH NYHHHQHPPD LLSRTNSQNQ DLRLSLHSFP 240 DGPPSLLHNH NHHTSASASE PVLFYGQSNP LGFDTSNSVS WEQQSSEFGR IQRLVAWNSG 300 GATDTGNGGG FLFAPPPTPP SSTTSFQPVL GQSQQLHSQR GPLQSSYSPM IRAWFDPHQH 360 HQSISTDDLN HHHHLPPPVH QSAIPGIGFA SGESSSGFRI PARFQGQEEE QHDGLTHKPS 420 SASSISRH*

Sequence ? help Back to Top

Protein Sequence Length: 429 aa Download sequence Send to blast

MSDEFLHPPA PPPRPPSSMR HRTTSDAADG GCGEIVEVQG GHIVRSTGRK DRHSKVCTAK  60
GPRDRRVRLS AHTAIQFYDV QDRLGFDRPS KAVDWLIKKA KTSIDELAEL PPWNPADAIR  120
LAAANAKPRR TTAKTQISPS PPPQQQQQLQ FGVGFDGGGT EHPSNNNNEN EPSFLPPSMD  180
SDSIADTIKS FFPVVGSSTE APPNHHQLMH NYHHHQHPPD LLSRTNSQNQ DLRLSLHSFP  240
DGPPSLLHNH NHHTSASASE PVLFYGQSNP LGFDTSNSVS WEQQSSEFGR IQRLVAWNSG  300
GATDTGNGGG FLFAPPPTPP SSTTSFQPVL GQSQQLHSQR GPLQSSYSPM IRAWFDPHQH  360
HQSISTDDLN HHHHLPPPVH QSAIPGIGFA SGESSSGFRI PARFQGQEEE QHDGLTHKPS  420
SASSISRH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	3e-20	54	107	1	54	Putative transcription factor PCF6
5zkt_B	3e-20	54	107	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa01g017540.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK316704	0.0	AK316704.1 Arabidopsis thaliana AT3G15030 mRNA, complete cds, clone: RAFL06-89-F15.
GenBank	AP000370	0.0	AP000370.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K15M2.
GenBank	AY094444	0.0	AY094444.1 Arabidopsis thaliana AT3g15030/K15M2_17 mRNA, complete cds.
GenBank	AY149957	0.0	AY149957.1 Arabidopsis thaliana At3g15030/K15M2_17 mRNA, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010502427.1	0.0	PREDICTED: transcription factor TCP4
Swissprot	Q8LPR5	0.0	TCP4_ARATH; Transcription factor TCP4
TrEMBL	R0HYP1	0.0	R0HYP1_9BRAS; Uncharacterized protein
STRING	XP_010502427.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2408	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	0.0	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]