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.004G200800.1

Common Name

POPTR_0004s21100g

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

E2F/DP

Protein Properties

Length: 475aa MW: 52803.6 Da PI: 4.7076

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.004G200800.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	86	2.8e-27	151	216	1	71
E2F_TDP 1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 r+++sL+llt+kf++l++++e+gi++ln++a++L +v ++RRiYDi+NVLe+++liekk kn+i+wkg Potri.004G200800.1 151 RYDSSLGLLTKKFINLIKHAEDGILDLNKAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 216 6899****************************...99..**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.10	3.0E-29	147	218	IPR011991	Winged helix-turn-helix DNA-binding domain
SuperFamily	SSF46785	3.45E-17	151	214	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	1.3E-34	151	216	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Pfam	PF02319	2.0E-24	153	216	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14660	2.46E-47	228	334	No hit	No description
SuperFamily	SSF144074	1.94E-33	230	334	No hit	No description
Pfam	PF16421	1.7E-33	233	332	IPR032198	E2F transcription factor, CC-MB domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008284	Biological Process	positive regulation of cell proliferation
GO:0009733	Biological Process	response to auxin
GO:0010090	Biological Process	trichome morphogenesis
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051302	Biological Process	regulation of cell division
GO:0051446	Biological Process	positive regulation of meiotic cell cycle
GO:0005634	Cellular Component	nucleus
GO:0005667	Cellular Component	transcription factor complex
GO:0005737	Cellular Component	cytoplasm
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 475 aa Download sequence Send to blast
MSNSQAQNNQ SMKQPQQSSM QSHAPNQRQH QQPLSFSSMK PPFLPPGDYH RFGDDRRRAV 60 SDHEVEGIVV KPPTLKRKSD AADHQGESSD WNAGHGYMEV VTSPLQTPVS GKGGKTPKTS 120 RLSKSSKSGS QSAAAALGSP GNNLTPSGPC RYDSSLGLLT KKFINLIKHA EDGILDLNKA 180 AETLEVQKRR IYDITNVLEG IGLIEKKLKN RIQWKGLDVS RPGEADDNNV ATLQAEVENL 240 TMEERRLDEQ TREMQERLRD LSEDENNQKW LFVTEEDIKS LPGFQNETLI AIKAPHGTTL 300 EVPDPDEAVD YPQRRYRIVL RSTMGPIDVY LVSQFEEKIE DIQGVEPPPS YPSTSGFNEN 360 PATTMTMEES RGKEVEMQEQ DGHRMCSELN TAHDFVSGIM KIVPSDVDSD ADYWLLSDPG 420 VSITDMWRNE PVVEWNDLDT LHNDYVMPNV CTPQPQTPPS NPTEVPPGTN TTAG*

Sequence ? help Back to Top

Protein Sequence Length: 475 aa Download sequence Send to blast

MSNSQAQNNQ SMKQPQQSSM QSHAPNQRQH QQPLSFSSMK PPFLPPGDYH RFGDDRRRAV  60
SDHEVEGIVV KPPTLKRKSD AADHQGESSD WNAGHGYMEV VTSPLQTPVS GKGGKTPKTS  120
RLSKSSKSGS QSAAAALGSP GNNLTPSGPC RYDSSLGLLT KKFINLIKHA EDGILDLNKA  180
AETLEVQKRR IYDITNVLEG IGLIEKKLKN RIQWKGLDVS RPGEADDNNV ATLQAEVENL  240
TMEERRLDEQ TREMQERLRD LSEDENNQKW LFVTEEDIKS LPGFQNETLI AIKAPHGTTL  300
EVPDPDEAVD YPQRRYRIVL RSTMGPIDVY LVSQFEEKIE DIQGVEPPPS YPSTSGFNEN  360
PATTMTMEES RGKEVEMQEQ DGHRMCSELN TAHDFVSGIM KIVPSDVDSD ADYWLLSDPG  420
VSITDMWRNE PVVEWNDLDT LHNDYVMPNV CTPQPQTPPS NPTEVPPGTN TTAG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	4e-26	146	217	2	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Most abundant at the G1/S transition. Lower but constant level in the following phases. {ECO:0000269\|PubMed:11669580, ECO:0000269\|PubMed:11786543, ECO:0000269\|PubMed:16514015}.
Uniprot	TISSUE SPECIFICITY: Expressed in proliferating cells and several differentiated tissues. Detected in inflorescence and shoot apical meristems, cotyledonary vascular tissues, leaf primordia, young leaves, base of trichomes, central cylinder and elongation zone of roots, lateral root primordia, flowers, pistils of immature flowers and pollen grains. {ECO:0000269\|PubMed:16514015}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA cooperatively with DP proteins through the E2 recognition site, 5'-TTTC[CG]CGC-3' found in the promoter region of a number of genes whose products are involved in cell cycle regulation or in DNA replication. The binding of retinoblastoma-related proteins represses transactivation. Involved in the control of cell-cycle progression from G1 to S phase and from G2 to M phase. Stimulates cell proliferation and delays differentiation. Represses cell enlargement and endoreduplication in auxin-free conditions. {ECO:0000269\|PubMed:11669580, ECO:0000269\|PubMed:11786543, ECO:0000269\|PubMed:11862494, ECO:0000269\|PubMed:11891240, ECO:0000269\|PubMed:12913157, ECO:0000269\|PubMed:16055635, ECO:0000269\|PubMed:16514015}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.004G200800.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by light and by auxin. May be up-regulated by E2FA. {ECO:0000269\|PubMed:16055635, ECO:0000269\|PubMed:16514015, ECO:0000269\|PubMed:18424613}.

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	AY179506	0.0	AY179506.1 Populus alba E2F mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006384787.1	0.0	transcription factor E2FB isoform X1
Swissprot	Q9FV71	1e-170	E2FB_ARATH; Transcription factor E2FB
TrEMBL	U5GK73	0.0	U5GK73_POPTR; Uncharacterized protein
STRING	POPTR_0004s21100.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1947	34	90
Representative plant	OGRP1225	17	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G22220.2	1e-160	E2F transcription factor 1

Link Out ? help Back to Top
Phytozome	Potri.004G200800.1
Entrez Gene	18098100

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Wu M,Liu L,Hijazi H,Chan C A multi-layer inference approach to reconstruct condition-specific genes and their regulation. Bioinformatics, 2013. 29(12): p. 1541-52 [PMID:23610368] Kobayashi K, et al. Transcriptional repression by MYB3R proteins regulates plant organ growth. EMBO J., 2015. 34(15): p. 1992-2007 [PMID:26069325]