PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT1G47870.1
Common NameATE2F2, ATE2FC, E2F2, E2FC, T2E6.2
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: 396aa    MW: 44487.9 Da    PI: 5.8097
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G47870.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP855.8e-27155220171
      E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                  r+++sL+llt+kf+kl++++e+g+++ln +a  L   +v  ++RRiYDi+NVLe+++liek+ kn+irwkg
  AT1G47870.1 155 RYDSSLGLLTKKFVKLIQEAEDGTLDLNYCAVVL---EV--QKRRIYDITNVLEGIGLIEKTTKNHIRWKG 220
                  6899******************************...99..****************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.101.0E-27153222IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013721.2E-32155220IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467856.53E-17155218IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023191.8E-24157220IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146603.61E-41231336No hitNo description
SuperFamilySSF1440744.18E-29231335No hitNo description
PfamPF164217.9E-26236333IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000902Biological Processcell morphogenesis
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042023Biological ProcessDNA endoreduplication
GO:0051782Biological Processnegative regulation of cell division
GO:0005667Cellular Componenttranscription factor complex
GO:0005730Cellular Componentnucleolus
GO:0005737Cellular Componentcytoplasm
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000025anatomyroot tip
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0000230anatomyinflorescence meristem
PO:0000282anatomytrichome
PO:0000293anatomyguard cell
PO:0006079anatomyshoot system meristem
PO:0006085anatomyroot meristem
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
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:0007095developmental stageLP.08 eight 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:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 396 aa     Download sequence    Send to blast
MAATSNSGED PTLSYHHRSP FRFELLQSIS SSDPRYSSLT PSSTNRPFSV SQSLPNSQLS  60
PLISPHWDDS YSQITQKVQK SRKNHRIQLG SIANMSGGES IDIAKVIVKQ ESSPQNVKRV  120
YNKSKGGTKL LKAGKRMANG EVQNGGLNGA SINCRYDSSL GLLTKKFVKL IQEAEDGTLD  180
LNYCAVVLEV QKRRIYDITN VLEGIGLIEK TTKNHIRWKG ADNLGQKDLG DQISRLKSEV  240
ESMQSEESRL DDLIRERQEA LRSLEEDDYC RRYMFMTEED ITSLPRFQNQ TLLAIKAPTA  300
SYIEVPDPDE MSFPQQYRMV IRSRMGPIDV YLLSKYKGDS AETSDKLGNE SDQKAPVGVD  360
TPSLKIVTSD TDLKADYWFE SDAEVSLTDL WSNFNS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A2e-23155221774PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible261741_at0.0
Expression AtlasAT1G47870-
AtGenExpressAT1G47870-
ATTED-IIAT1G47870-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Not detected at the G1/S transition, but increases during the progression into S phase and peaks after the passage into G2. {ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543, ECO:0000269|PubMed:12468727}.
UniprotTISSUE SPECIFICITY: Expressed in meristematic areas, vascular tissues, apical part of the roots, cotyledons, upper region of the hypocotyls, trichomes, young flower buds and pollen grains. {ECO:0000269|PubMed:12468727, ECO:0000269|PubMed:16920782}.
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. AtE2Fc is regulated by a balance between gene expression and ubiquitin-proteasome proteolysis. AtE2Fc might play a role in cell division and during the transition from skotomorphogenesis to photomorphogenesis. E2Fc has been shown to interact with DPB in its nonphosphorylated form; when E2Fc is phosphorylated, the formation of the E2Fc/DPB heterodimer is lost.
UniProtInvolved in transcriptional repression. May act by repressing E2F-regulated genes in mature differentiated cells, but is not an antagonist of E2FA. Restricts cell division and is involved in the coordination between cell proliferation and endoreduplication during development. May play a role during the transition from skotomorphogenesis to photomorphogenesis. Regulated by phosphorylation-dependent proteolysis via the protein-ubiquitin ligase SCF(SKP2A) complex. {ECO:0000269|PubMed:11786543, ECO:0000269|PubMed:11891240, ECO:0000269|PubMed:12468727, ECO:0000269|PubMed:16920782, ECO:0000269|PubMed:19662336}.
Function -- GeneRIF ? help Back to Top
  1. The interaction of E2FC with DPB is a key factor in controlling the balance between cell proliferation and the switch to the endocycle program.
    [PMID: 16920782]
  2. E2Fc induction led primarily to gene downregulation, and appears to function outside the CYCD3-RBR pathway, does not have a direct effect on cell cycle genes, and promoter analysis suggests a distinct binding site preference.
    [PMID: 19662336]
  3. The Arabidopsis (Arabidopsis thaliana) DEL1 gene was identified as a transcriptional target of the classical E2Fb and E2Fc transcription factors.
    [PMID: 21908689]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00190DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT1G47870.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by light. {ECO:0000269|PubMed:12468727, ECO:0000269|PubMed:18424613}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT2G37640(R)
Interaction ? help Back to Top
Source Intact With
IntActSearch Q9FV70
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G47870
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF2425810.0AF242581.1 Arabidopsis thaliana E2F transcription factor-2 E2F2 mRNA, complete cds.
GenBankAJ4178340.0AJ417834.1 Arabidopsis thaliana mRNA for transcription factor E2Fc (e2Fc gene).
GenBankAY0456360.0AY045636.1 Arabidopsis thaliana At1g47870/T2E6_2 mRNA, complete cds.
GenBankAY0582310.0AY058231.1 Arabidopsis thaliana At1g47870/T2E6_2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_175222.10.0winged-helix DNA-binding transcription factor family protein
SwissprotQ9FV700.0E2FC_ARATH; Transcription factor E2FC
TrEMBLA0A178WB460.0A0A178WB46_ARATH; E2FC
STRINGAT1G47870.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM80828121
Representative plantOGRP12251749
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. 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]
  3. 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]
  4. 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]
  5. Vandepoele K, et al.
    Genome-wide analysis of core cell cycle genes in Arabidopsis.
    Plant Cell, 2002. 14(4): p. 903-16
    [PMID:11971144]
  6. del Pozo JC,Boniotti MB,Gutierrez C
    Arabidopsis E2Fc functions in cell division and is degraded by the ubiquitin-SCF(AtSKP2) pathway in response to light.
    Plant Cell, 2002. 14(12): p. 3057-71
    [PMID:12468727]
  7. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  8. Koroleva OA,Tomlinson ML,Leader D,Shaw P,Doonan JH
    High-throughput protein localization in Arabidopsis using Agrobacterium-mediated transient expression of GFP-ORF fusions.
    Plant J., 2005. 41(1): p. 162-74
    [PMID:15610358]
  9. del Pozo JC,Diaz-Trivino S,Cisneros N,Gutierrez C
    The balance between cell division and endoreplication depends on E2FC-DPB, transcription factors regulated by the ubiquitin-SCFSKP2A pathway in Arabidopsis.
    Plant Cell, 2006. 18(9): p. 2224-35
    [PMID:16920782]
  10. Jurado S, et al.
    SKP2A, an F-box protein that regulates cell division, is degraded via the ubiquitin pathway.
    Plant J., 2008. 53(5): p. 828-41
    [PMID:18036202]
  11. L
    Distinct light-initiated gene expression and cell cycle programs in the shoot apex and cotyledons of Arabidopsis.
    Plant Cell, 2008. 20(4): p. 947-68
    [PMID:18424613]
  12. 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]
  13. 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]
  14. 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]
  15. 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]
  16. Jurado S, et al.
    The Arabidopsis cell cycle F-box protein SKP2A binds to auxin.
    Plant Cell, 2010. 22(12): p. 3891-904
    [PMID:21139066]
  17. Heckmann S, et al.
    The E2F transcription factor family regulates CENH3 expression in Arabidopsis thaliana.
    Plant J., 2011. 68(4): p. 646-56
    [PMID:21771121]
  18. Berckmans B, et al.
    Light-dependent regulation of DEL1 is determined by the antagonistic action of E2Fb and E2Fc.
    Plant Physiol., 2011. 157(3): p. 1440-51
    [PMID:21908689]
  19. Hirano H,Shinmyo A,Sekine M
    Both negative and positive G1 cell cycle regulators undergo proteasome-dependent degradation during sucrose starvation in Arabidopsis.
    Plant Signal Behav, 2011. 6(9): p. 1394-6
    [PMID:22019639]
  20. Gaudinier A, et al.
    Enhanced Y1H assays for Arabidopsis.
    Nat. Methods, 2011. 8(12): p. 1053-5
    [PMID:22037706]
  21. 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]
  22. 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]
  23. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]
  24. Li B, et al.
    Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis.
    Plant Cell, 2018. 30(1): p. 178-195
    [PMID:29317470]
  25. Huntley R, et al.
    The maize retinoblastoma protein homologue ZmRb-1 is regulated during leaf development and displays conserved interactions with G1/S regulators and plant cyclin D (CycD) proteins.
    Plant Mol. Biol., 1998. 37(1): p. 155-69
    [PMID:9620273]