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

Cucsa.122730.1

Common Name

Csa_4G628330, LOC101209051

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

TCP

Protein Properties

Length: 430aa MW: 46991.1 Da PI: 6.523

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.122730.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	115.7	6.2e-36	41	145	3	89
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg....... 88 g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++akpai++l +++ +++ ++++ ++a+++s++ Cucsa.122730.1 41 GRKDRHSKVCTAKGPRDRRVRLSAHTAIEFYDVQDRLGYDRPSKAVDWLIKKAKPAIDKLRELPGWNPNVLdmSTQKLTKQAEKNSENkipvsih 135 89*************************************************************66666455333333333333333333445443 PP TCP 89 .........k 89 + Cucsa.122730.1 136 pseesatriS 145 3333333330 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	6.1E-33	41	149	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	33.544	42	100	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 430 aa Download sequence Send to blast
MGEFSNQRPA KSAKPGIRTG GDGGGSEIVE VQGGRVVRSI GRKDRHSKVC TAKGPRDRRV 60 RLSAHTAIEF YDVQDRLGYD RPSKAVDWLI KKAKPAIDKL RELPGWNPNV LDMSTQKLTK 120 QAEKNSENKI PVSIHPSEES ATRISNRRAN FMVGDGGISK CTMQNLQNIS TEDNHNSDNS 180 NFLPPSFDSD SIVDTFKSFL PVTTAAAAET PSSIFEFDTF PPDLLSRTSS RTQDLRLSLQ 240 SLQGPTSKLE SEQTQQNDHL YFSGTTPLGC FDGWSEQQPP PTMEISRFQR ILQWSTVSAD 300 HSGGGDDKAG GVDGEFLYNS QPTSSIFPPP SPPLPILQPL FGENQLVSQR GPLQSSYTPS 360 IRAWIDPSIA FMDNQQQLSP PSIYQSSFSG LGFATGGFSK FLIPTRIAGE EEHDGISEKP 420 SSASSNSRH*

Sequence ? help Back to Top

Protein Sequence Length: 430 aa Download sequence Send to blast

MGEFSNQRPA KSAKPGIRTG GDGGGSEIVE VQGGRVVRSI GRKDRHSKVC TAKGPRDRRV  60
RLSAHTAIEF YDVQDRLGYD RPSKAVDWLI KKAKPAIDKL RELPGWNPNV LDMSTQKLTK  120
QAEKNSENKI PVSIHPSEES ATRISNRRAN FMVGDGGISK CTMQNLQNIS TEDNHNSDNS  180
NFLPPSFDSD SIVDTFKSFL PVTTAAAAET PSSIFEFDTF PPDLLSRTSS RTQDLRLSLQ  240
SLQGPTSKLE SEQTQQNDHL YFSGTTPLGC FDGWSEQQPP PTMEISRFQR ILQWSTVSAD  300
HSGGGDDKAG GVDGEFLYNS QPTSSIFPPP SPPLPILQPL FGENQLVSQR GPLQSSYTPS  360
IRAWIDPSIA FMDNQQQLSP PSIYQSSFSG LGFATGGFSK FLIPTRIAGE EEHDGISEKP  420
SSASSNSRH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	2e-19	47	100	1	54	Putative transcription factor PCF6
5zkt_B	2e-19	47	100	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681862	0.0	LN681862.1 Cucumis melo genomic scaffold, anchoredscaffold00081.
GenBank	LN713261	0.0	LN713261.1 Cucumis melo genomic chromosome, chr_7.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004146031.1	0.0	PREDICTED: transcription factor TCP4
Swissprot	Q8LPR5	5e-96	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A0A0KZJ7	0.0	A0A0A0KZJ7_CUCSA; Uncharacterized protein
STRING	XP_004163640.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1163	34	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	7e-93	TCP family protein

Link Out ? help Back to Top
Phytozome	Cucsa.122730.1
Entrez Gene	101209051

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] Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] 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]