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

Potri.013G119400.1

Common Name

POPTR_0013s12370g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

TCP

Protein Properties

Length: 346aa MW: 38072.8 Da PI: 6.4054

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.013G119400.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	116.5	3.5e-36	19	125	2	98
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt..ssssaseceaesssssasnsssg.. 88 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak +i+ l+++ +++a++ +a+ ++++++ ss+ Potri.013G119400.1 19 TGRKDRHSKVYTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKNSIDRLAELppWQPPANNINANLEENQNAGSSEMai 109 79**************************************************************997888878855555555544444445 PP TCP 89 ......kaaksaaksk 98 + +++ +++ Potri.013G119400.1 110 aeepesSGYSFQLHGQ 125 4444432222222222 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.2E-32	19	129	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	32.46	21	79	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 346 aa Download sequence Send to blast
MKNNGEIIQV QGGHIVRSTG RKDRHSKVYT AKGPRDRRVR LSAHTAIQFY DVQDRLGYDR 60 PSKAVDWLIK KAKNSIDRLA ELPPWQPPAN NINANLEENQ NAGSSEMAIA EEPESSGYSF 120 QLHGQLTDHN PSNGSSFLAP TIDPDTIPDT MRSFFPTSST NSSMNFQSYP TVISRTANHT 180 EDLGLSLHSF QDQVLLHEQS QADTTHAPST DQTLFEGSAP VGFDTNFQRM MAWSNDTNAD 240 NRVAGGFAFN PPPLTPHQAM LAQGSAFSQR GTLQSSFPIS IRAWNDLHMA STDHHRTQEL 300 HQSLIFGSRF ASEGLAGFSI PAQIHGENEH NVVSDRPPSS PNSQN*

Sequence ? help Back to Top

Protein Sequence Length: 346 aa Download sequence Send to blast

MKNNGEIIQV QGGHIVRSTG RKDRHSKVYT AKGPRDRRVR LSAHTAIQFY DVQDRLGYDR  60
PSKAVDWLIK KAKNSIDRLA ELPPWQPPAN NINANLEENQ NAGSSEMAIA EEPESSGYSF  120
QLHGQLTDHN PSNGSSFLAP TIDPDTIPDT MRSFFPTSST NSSMNFQSYP TVISRTANHT  180
EDLGLSLHSF QDQVLLHEQS QADTTHAPST DQTLFEGSAP VGFDTNFQRM MAWSNDTNAD  240
NRVAGGFAFN PPPLTPHQAM LAQGSAFSQR GTLQSSFPIS IRAWNDLHMA STDHHRTQEL  300
HQSLIFGSRF ASEGLAGFSI PAQIHGENEH NVVSDRPPSS PNSQN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	2e-22	26	79	1	54	Putative transcription factor PCF6
5zkt_B	2e-22	26	79	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in cotyledons during embryogenesis. Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, buds, flowers and immature siliques. {ECO:0000269\|PubMed:17307931}.

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	Potri.013G119400.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006376360.1	0.0	transcription factor TCP4
Swissprot	Q8LPR5	2e-77	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A385JIR9	0.0	A0A385JIR9_POPTO; TCP family transcription factor 4
TrEMBL	B9MW22	0.0	B9MW22_POPTR; Uncharacterized protein
STRING	POPTR_0013s12370.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1163	34	105
Representative plant	OGRP180	15	163

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	2e-78	TCP family protein

Link Out ? help Back to Top
Phytozome	Potri.013G119400.1
Entrez Gene	18104522

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]