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

AT2G36010.2

Common Name

ATE2FA, E2F3

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

E2F/DP

Protein Properties

Length: 514aa MW: 56421.6 Da PI: 5.3388

Description

E2F transcription factor 3

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT2G36010.2	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	73	3.2e-23	220	278	8	71
E2F_TDP 8 lltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 llt+kf++l++++++g+++ln++a++L +v ++RRiYDi+NVLe+++liek kn+i wkg AT2G36010.2 220 LLTKKFVNLIKQAKDGMLDLNKAAETL---EV--QKRRIYDITNVLEGIDLIEKPFKNRILWKG 278 79***********************...99..**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01372	4.6E-25	213	278	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF46785	2.99E-14	219	279	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF02319	3.7E-20	220	278	IPR003316	E2F/DP family, winged-helix DNA-binding domain
Gene3D	G3DSA:1.10.10.10	2.0E-23	220	280	IPR011991	Winged helix-turn-helix DNA-binding domain
CDD	cd14660	3.61E-39	292	379	No hit	No description
SuperFamily	SSF144074	6.8E-25	293	379	No hit	No description
Pfam	PF16421	1.1E-20	317	377	IPR032198	E2F transcription factor, CC-MB domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
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
GO:0005515	Molecular Function	protein binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000084	anatomy	plant sperm cell
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 514 aa Download sequence Send to blast
MSGVVRSSPG SSQPPPPPPH HPPSSPVPVT STPVIPPIRR HLAFASTKPP FHPSDDYHRF 60 NPSSLSNNND RSFVHGCGVV DREEDAVVVR SPIFPSEIGL EIRGCFGDFD CYLLLLSLIQ 120 KLRSVRLSSI RVNFCRLFSF AMSRKRKATM DMVVAPSNNG FTSSGFTNIP SSPCQTPRKG 180 GRVNIKSKAK GNKSTPQTPI STNAVRSFYE ISFMSRVTSL LTKKFVNLIK QAKDGMLDLN 240 KAAETLEVQK RRIYDITNVL EGIDLIEKPF KNRILWKGVD ACPGDEDADV SVLQLQAEIE 300 NLALEEQALD NQIRWLFVTE EDIKSLPGFQ NQTLIAVKAP HGTTLEVPDP DEAADHPQRR 360 YRIILRSTMG PIDVYLVSEF EGKFEDTNGS GAAPPACLPI ASSSGSTGHH DIEALTVDNP 420 ETAIVSHDHP HPQPGDTSDL NYLQEQVGGM LKITPSDVEN DESDYWLLSN AEISMTDIWK 480 TDSGIDWDYG IADVSTPPPG MGEIAPTAVD STPR

Sequence ? help Back to Top

Protein Sequence Length: 514 aa Download sequence Send to blast

MSGVVRSSPG SSQPPPPPPH HPPSSPVPVT STPVIPPIRR HLAFASTKPP FHPSDDYHRF  60
NPSSLSNNND RSFVHGCGVV DREEDAVVVR SPIFPSEIGL EIRGCFGDFD CYLLLLSLIQ  120
KLRSVRLSSI RVNFCRLFSF AMSRKRKATM DMVVAPSNNG FTSSGFTNIP SSPCQTPRKG  180
GRVNIKSKAK GNKSTPQTPI STNAVRSFYE ISFMSRVTSL LTKKFVNLIK QAKDGMLDLN  240
KAAETLEVQK RRIYDITNVL EGIDLIEKPF KNRILWKGVD ACPGDEDADV SVLQLQAEIE  300
NLALEEQALD NQIRWLFVTE EDIKSLPGFQ NQTLIAVKAP HGTTLEVPDP DEAADHPQRR  360
YRIILRSTMG PIDVYLVSEF EGKFEDTNGS GAAPPACLPI ASSSGSTGHH DIEALTVDNP  420
ETAIVSHDHP HPQPGDTSDL NYLQEQVGGM LKITPSDVEN DESDYWLLSN AEISMTDIWK  480
TDSGIDWDYG IADVSTPPPG MGEIAPTAVD STPR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_A	5e-19	220	279	14	74	PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.10190	0.0	bud

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	10443852	0.0
Genevisible	263955_at	0.0
Expression Atlas	AT2G36010	-
AtGenExpress	AT2G36010	-
ATTED-II	AT2G36010	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Most abundant in early S phase. Decreased expression during the passage into G2. {ECO:0000269\|PubMed:11108847, ECO:0000269\|PubMed:11669580, ECO:0000269\|PubMed:11786543}.
Uniprot	TISSUE SPECIFICITY: Highly expressed in the shoot apical meristem, emerging leaf primordia, and vascular tissues of young leaf primordia. Expressed in flowers, in epidermis and cortex of hypocotyls, and at lower levels in leaves. {ECO:0000269\|PubMed:11108847, ECO:0000269\|PubMed:11889041}.

Functional Description ? help Back to Top
Source	Description
TAIR	Member of the E2F transcription factors, (cell cycle genes), key components of the cyclin D/retinoblastoma/E2F pathway.
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. Regulates gene expression both positively and negatively. Activates the expression of E2FB. Involved in the control of cell-cycle progression from G1 to S phase. Stimulates cell proliferation and delays differentiation. {ECO:0000269\|PubMed:11669580, ECO:0000269\|PubMed:11786543, ECO:0000269\|PubMed:11862494, ECO:0000269\|PubMed:11889041, ECO:0000269\|PubMed:11891240, ECO:0000269\|PubMed:12913157, ECO:0000269\|PubMed:15377755, ECO:0000269\|PubMed:16514015, ECO:0000269\|PubMed:19662336}.

Function -- GeneRIF ? help Back to Top
AtE2Fa and AtE2Fb have specific expression patterns and may play similar but distinct roles during cell cycle progression. [PMID: 16514015] Overlap between CYCD3;1 and E2Fa modulated genes substantiates their action in a common pathway with a key role in controlling the G1/S transition, with additional targets for E2Fa in cell wall biogenesis and development. [PMID: 19662336] The E2Fa transcription factor of Arabidopsis thaliana is an essential component that regulates the asymmetric cell division marking lateral root initiation. [PMID: 22003076]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00293	DAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT2G36010.2

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT5G14960 (A)

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT2G31650(A), AT3G54180(A), AT5G22220(A), AT5G24330(A)

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT5G02470, AT5G03415

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT2G36010

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ271597	0.0	AJ271597.1 Arabidopsis thaliana partial mRNA for E2F-like protein (E2F gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_973610.1	0.0	E2F transcription factor 3
Swissprot	Q9FNY0	0.0	E2FA_ARATH; Transcription factor E2FA
TrEMBL	F4ILT1	0.0	F4ILT1_ARATH; E2F transcription factor 3
STRING	AT2G36010.2	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM808	28	121
Representative plant	OGRP1225	17	49

Link Out ? help Back to Top
Phytozome	AT2G36010.2
Entrez Gene	818174
iHOP	AT2G36010
wikigenes	AT2G36010

Publications ? help Back to Top
Magyar Z,Atanassova A,De Veylder L,Rombauts S,Inzé D Characterization of two distinct DP-related genes from Arabidopsis thaliana. FEBS Lett., 2000. 486(1): p. 79-87 [PMID:11108847] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] de Jager SM,Menges M,Bauer UM,Murra JA Arabidopsis E2F1 binds a sequence present in the promoter of S-phase-regulated gene AtCDC6 and is a member of a multigene family with differential activities. Plant Mol. Biol., 2001. 47(4): p. 555-68 [PMID:11669580] Mariconti L, et al. The E2F family of transcription factors from Arabidopsis thaliana. Novel and conserved components of the retinoblastoma/E2F pathway in plants. J. Biol. Chem., 2002. 277(12): p. 9911-9 [PMID:11786543] Rossignol P, et al. AtE2F-a and AtDP-a, members of the E2F family of transcription factors, induce Arabidopsis leaf cells to re-enter S phase. Mol. Genet. Genomics, 2002. 266(6): p. 995-1003 [PMID:11862494] Kosugi S,Ohashi Y E2Ls, E2F-like repressors of Arabidopsis that bind to E2F sites in a monomeric form. J. Biol. Chem., 2002. 277(19): p. 16553-8 [PMID:11867638] De Veylder L, et al. Control of proliferation, endoreduplication and differentiation by the Arabidopsis E2Fa-DPa transcription factor. EMBO J., 2002. 21(6): p. 1360-8 [PMID:11889041] Kosugi S,Ohashi Y Interaction of the Arabidopsis E2F and DP proteins confers their concomitant nuclear translocation and transactivation. Plant Physiol., 2002. 128(3): p. 833-43 [PMID:11891240] Ramirez-Parra E,Fr A genome-wide identification of E2F-regulated genes in Arabidopsis. Plant J., 2003. 33(4): p. 801-11 [PMID:12609051] Kosugi S,Ohashi Y Constitutive E2F expression in tobacco plants exhibits altered cell cycle control and morphological change in a cell type-specific manner. Plant Physiol., 2003. 132(4): p. 2012-22 [PMID:12913157] Vlieghe K, et al. Microarray analysis of E2Fa-DPa-overexpressing plants uncovers a cross-talking genetic network between DNA replication and nitrogen assimilation. J. Cell. Sci., 2003. 116(Pt 20): p. 4249-59 [PMID:12953064] Ramirez-Parra E,L Role of an atypical E2F transcription factor in the control of Arabidopsis cell growth and differentiation. Plant Cell, 2004. 16(9): p. 2350-63 [PMID:15308755] Sozzani R, et al. Interplay between Arabidopsis activating factors E2Fb and E2Fa in cell cycle progression and development. Plant Physiol., 2006. 140(4): p. 1355-66 [PMID:16514015] Raynaud C, et al. Two cell-cycle regulated SET-domain proteins interact with proliferating cell nuclear antigen (PCNA) in Arabidopsis. Plant J., 2006. 47(3): p. 395-407 [PMID:16771839] Roa H, et al. Ribonucleotide reductase regulation in response to genotoxic stress in Arabidopsis. Plant Physiol., 2009. 151(1): p. 461-71 [PMID:19571309] de Jager SM, et al. Dissecting regulatory pathways of G1/S control in Arabidopsis: common and distinct targets of CYCD3;1, E2Fa and E2Fc. Plant Mol. Biol., 2009. 71(4-5): p. 345-65 [PMID:19662336] Sozzani R, et al. The E2FD/DEL2 factor is a component of a regulatory network controlling cell proliferation and development in Arabidopsis. Plant Mol. Biol., 2010. 72(4-5): p. 381-95 [PMID:19937368] Boruc J, et al. Functional modules in the Arabidopsis core cell cycle binary protein-protein interaction network. Plant Cell, 2010. 22(4): p. 1264-80 [PMID:20407024] Van Leene J, et al. Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana. Mol. Syst. Biol., 2010. 6: p. 397 [PMID:20706207] Berckmans B, et al. Auxin-dependent cell cycle reactivation through transcriptional regulation of Arabidopsis E2Fa by lateral organ boundary proteins. Plant Cell, 2011. 23(10): p. 3671-83 [PMID:22003076] Magyar Z, et al. Arabidopsis E2FA stimulates proliferation and endocycle separately through RBR-bound and RBR-free complexes. EMBO J., 2012. 31(6): p. 1480-93 [PMID:22307083] Cruz-Ram A bistable circuit involving SCARECROW-RETINOBLASTOMA integrates cues to inform asymmetric stem cell division. Cell, 2012. 150(5): p. 1002-15 [PMID:22921914] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178]