PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT2G36010.1
Common NameATE2FA, E2F3, E2F4, E2FA, F11F19.8
Organism
Taxonomic ID
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: 483aa    MW: 52597.7 Da    PI: 4.9711
Description E2F transcription factor 3
Gene Model
Gene Model ID Type Source Coding Sequence
AT2G36010.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP82.24.4e-26167232171
      E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                  r+++sL+llt+kf++l++++++g+++ln++a++L   +v  ++RRiYDi+NVLe+++liek  kn+i wkg
  AT2G36010.1 167 RYDSSLGLLTKKFVNLIKQAKDGMLDLNKAAETL---EV--QKRRIYDITNVLEGIDLIEKPFKNRILWKG 232
                  6899******************************...99..****************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.107.9E-28163234IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.63E-16167230IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013722.2E-32167232IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023199.1E-23169232IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146603.50E-49244348No hitNo description
SuperFamilySSF1440742.2E-32244348No hitNo description
PfamPF164217.1E-33247346IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051446Biological Processpositive regulation of meiotic cell cycle
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 483 aa     Download sequence    Send to blast
MSGVVRSSPG SSQPPPPPPH HPPSSPVPVT STPVIPPIRR HLAFASTKPP FHPSDDYHRF  60
NPSSLSNNND RSFVHGCGVV DREEDAVVVR SPSRKRKATM DMVVAPSNNG FTSSGFTNIP  120
SSPCQTPRKG GRVNIKSKAK GNKSTPQTPI STNAGSPITL TPSGSCRYDS SLGLLTKKFV  180
NLIKQAKDGM LDLNKAAETL EVQKRRIYDI TNVLEGIDLI EKPFKNRILW KGVDACPGDE  240
DADVSVLQAE IENLALEEQA LDNQIRQTEE RLRDLSENEK NQKWLFVTEE DIKSLPGFQN  300
QTLIAVKAPH GTTLEVPDPD EAADHPQRRY RIILRSTMGP IDVYLVSEFE GKFEDTNGSG  360
AAPPACLPIA SSSGSTGHHD IEALTVDNPE TAIVSHDHPH PQPGDTSDLN YLQEQVGGML  420
KITPSDVEND ESDYWLLSNA EISMTDIWKT DSGIDWDYGI ADVSTPPPGM GEIAPTAVDS  480
TPR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A2e-23162233274PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.101900.0bud
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO104438520.0
Genevisible263955_at0.0
Expression AtlasAT2G36010-
AtGenExpressAT2G36010-
ATTED-IIAT2G36010-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL 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}.
UniprotTISSUE 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
TAIRMember of the E2F transcription factors, (cell cycle genes), key components of the cyclin D/retinoblastoma/E2F pathway.
UniProtTranscription 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
  1. AtE2Fa and AtE2Fb have specific expression patterns and may play similar but distinct roles during cell cycle progression.
    [PMID: 16514015]
  2. 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]
  3. 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
MP00293DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT2G36010.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
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
BioGRIDAT5G02470, AT5G03415
IntActSearch Q9FNY0
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT2G36010
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF2425820.0AF242582.1 Arabidopsis thaliana E2F transcription factor-3 E2F3 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_565831.30.0E2F transcription factor 3
SwissprotQ9FNY00.0E2FA_ARATH; Transcription factor E2FA
TrEMBLD7LIM90.0D7LIM9_ARALL; E2F transcription factor-3
STRINGfgenesh2_kg.4__1634__AT2G36010.30.0(Arabidopsis lyrata)
Publications ? help Back to Top
  1. 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]
  2. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. Vandepoele K, et al.
    Genome-wide analysis of core cell cycle genes in Arabidopsis.
    Plant Cell, 2002. 14(4): p. 903-16
    [PMID:11971144]
  10. Ramirez-Parra E,Fr
    A genome-wide identification of E2F-regulated genes in Arabidopsis.
    Plant J., 2003. 33(4): p. 801-11
    [PMID:12609051]
  11. 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]
  12. 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]
  13. 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]
  14. Boudolf V, et al.
    The plant-specific cyclin-dependent kinase CDKB1;1 and transcription factor E2Fa-DPa control the balance of mitotically dividing and endoreduplicating cells in Arabidopsis.
    Plant Cell, 2004. 16(10): p. 2683-92
    [PMID:15377755]
  15. 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]
  16. 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]
  17. Roa H, et al.
    Ribonucleotide reductase regulation in response to genotoxic stress in Arabidopsis.
    Plant Physiol., 2009. 151(1): p. 461-71
    [PMID:19571309]
  18. 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]
  19. 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]
  20. 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]
  21. 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]
  22. 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]
  23. 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]
  24. 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]
  25. 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]