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

Cla002428

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

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

Family

TCP

Protein Properties

Length: 432aa MW: 46917.3 Da PI: 6.9235

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla002428	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	121.2	1.2e-37	37	139	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec...eaesssssasnsssg.......... 88 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak+ai+el+++++ ++s ++ ++++s + ++++ Cla002428 37 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKAAIDELAELPAWHPSTGntsTQREEQQSLNDENENllsvqrevfn 136 79**************************************************************666663332223333333333333335555544444 PP TCP 89 ..k 89 Cla002428 137 ttG 139 441 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	7.6E-32	37	148	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.295	39	97	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: 432 aa Download sequence Send to blast
MGESHRQTST SSRLGMRTGG GGGEIVEVQG GHIVRSTGRK DRHSKVCTAK GPRDRRVRLS 60 AHTAIQFYDV QDRLGYDRPS KAVDWLIKKA KAAIDELAEL PAWHPSTGNT STQREEQQSL 120 NDENENLLSV QREVFNTTGN RRATVLGSES RVSEFPLQNL QHTQMGEGPN SSTSSFLPPS 180 LDSDSIADTI KSFFPIGTAA AETTSSSIQF QNYPQDLLSR TSSQNQDLRL SLQSFQDPIA 240 IHRHHHAQHQ SQGHQNEHVL FSGTAPLSGF DVTTAGWSEH NSLNPAEISR FPRITCWNAS 300 GAETGSGGGS SGHGGGGIRS AGYVFNSPQL PTALPPSQLM QPLFGENQFF SQRGPLQSSN 360 TPSIRAWIDP SLTPTDHQHH QMPPSIHQSS YTALGFASGG FSGFHIPTRI QGEEEHDGIS 420 DKPSSASSDS RH

Sequence ? help Back to Top

Protein Sequence Length: 432 aa Download sequence Send to blast

MGESHRQTST SSRLGMRTGG GGGEIVEVQG GHIVRSTGRK DRHSKVCTAK GPRDRRVRLS  60
AHTAIQFYDV QDRLGYDRPS KAVDWLIKKA KAAIDELAEL PAWHPSTGNT STQREEQQSL  120
NDENENLLSV QREVFNTTGN RRATVLGSES RVSEFPLQNL QHTQMGEGPN SSTSSFLPPS  180
LDSDSIADTI KSFFPIGTAA AETTSSSIQF QNYPQDLLSR TSSQNQDLRL SLQSFQDPIA  240
IHRHHHAQHQ SQGHQNEHVL FSGTAPLSGF DVTTAGWSEH NSLNPAEISR FPRITCWNAS  300
GAETGSGGGS SGHGGGGIRS AGYVFNSPQL PTALPPSQLM QPLFGENQFF SQRGPLQSSN  360
TPSIRAWIDP SLTPTDHQHH QMPPSIHQSS YTALGFASGG FSGFHIPTRI QGEEEHDGIS  420
DKPSSASSDS RH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-20	44	97	1	54	Putative transcription factor PCF6
5zkt_B	1e-20	44	97	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681873	0.0	LN681873.1 Cucumis melo genomic scaffold, anchoredscaffold00027.
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_004137216.2	0.0	PREDICTED: transcription factor TCP4, partial
Swissprot	Q8LPR5	1e-104	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A0A0KXN1	0.0	A0A0A0KXN1_CUCSA; Uncharacterized protein
STRING	XP_004137216.1	0.0	(Cucumis sativus)
STRING	XP_004172687.1	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	4e-72	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]