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

Spipo0G0118200

Organism

Spirodela polyrhiza

Taxonomic ID

29656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela

Family

TCP

Protein Properties

Length: 397aa MW: 42112.4 Da PI: 7.4593

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Spipo0G0118200	genome	MIPS/IBIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	112.3	6.6e-35	50	124	2	70
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.........ssssa 70 +g+kdrhsk+ T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak+ai+el+++ s + Spipo0G0118200 50 TGRKDRHSKVFTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKNAKAAIDELAELpawhpagaaS---S 124 79**************************************************************5555443221...1 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.6E-31	50	125	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	33.072	52	110	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 397 aa Download sequence Send to blast
MGESHQHHNH QHHAHQLLHS PRPPAQSRLG GMKGAGEIVE VQGGHIVRST GRKDRHSKVF 60 TAKGPRDRRV RLSAHTAIQF YDVQDRLGYD RPSKAVDWLI KNAKAAIDEL AELPAWHPAG 120 AASSNPRPPG ERGPMEEETT DALGGSSNRP SQTSEPLGSS PFGFTSGSIL PPSLDSDAIA 180 DTIKSFFPIS AATGGSSSPP IGFQSYPADF MSRTSSQGQD LRLSLHSFQE PILLHGHPPL 240 STPHRPAGSA AEQVLFANYD TGSANWSEQN QRMFPWNAAP EGGIGGTTGG GNNGGYIFTM 300 PPPHAPPLHP LLGQSSYFSQ RGPLQSSSPS HVRAWTDTFA AAEHQSYAAA MYLPGPSAGF 360 AAGGFSGFRI PARIQGEDEH DGIPSKPSSA STASRQ*

Sequence ? help Back to Top

Protein Sequence Length: 397 aa Download sequence Send to blast

MGESHQHHNH QHHAHQLLHS PRPPAQSRLG GMKGAGEIVE VQGGHIVRST GRKDRHSKVF  60
TAKGPRDRRV RLSAHTAIQF YDVQDRLGYD RPSKAVDWLI KNAKAAIDEL AELPAWHPAG  120
AASSNPRPPG ERGPMEEETT DALGGSSNRP SQTSEPLGSS PFGFTSGSIL PPSLDSDAIA  180
DTIKSFFPIS AATGGSSSPP IGFQSYPADF MSRTSSQGQD LRLSLHSFQE PILLHGHPPL  240
STPHRPAGSA AEQVLFANYD TGSANWSEQN QRMFPWNAAP EGGIGGTTGG GNNGGYIFTM  300
PPPHAPPLHP LLGQSSYFSQ RGPLQSSSPS HVRAWTDTFA AAEHQSYAAA MYLPGPSAGF  360
AAGGFSGFRI PARIQGEDEH DGIPSKPSSA STASRQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-21	57	110	1	54	Putative transcription factor PCF6
5zkt_B	1e-21	57	110	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}.

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	KM662611	2e-72	KM662611.1 Ananas bracteatus clone 46469a microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008783923.1	1e-129	transcription factor PCF5-like
Refseq	XP_008783924.1	1e-129	transcription factor PCF5-like
Refseq	XP_008783925.1	1e-129	transcription factor PCF5-like
Refseq	XP_017697292.1	1e-129	transcription factor PCF5-like
Swissprot	Q8LPR5	4e-91	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A2H3XHJ8	1e-128	A0A2H3XHJ8_PHODC; transcription factor PCF5-like
STRING	XP_008783922.1	1e-128	(Phoenix dactylifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP5839	33	55

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	7e-80	TCP family protein

Link Out ? help Back to Top
Phytozome	Spipo0G0118200

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]