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 Solyc06g074010.2.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family E2F/DP
Protein Properties Length: 848aa    MW: 93153.7 Da    PI: 4.4474
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g074010.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP84.58.3e-27124189171
             E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                         r+++sL+llt+kf++ll+++++gi++ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn i+wkg
  Solyc06g074010.2.1 124 RYDNSLGLLTKKFINLLKHAKDGILDLNKAADTL---EV--QKRRIYDITNVLEGIGLIEKKLKNMIQWKG 189
                         689*******************************...99..****************************98 PP

2E2F_TDP70.22.5e-22530593371
             E2F_TDP   3 eksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                         ++sL+ lt+kf++l+++se+g+++ln++a++L   +v  k+RR+YD++ VLe+++liekk+ n i+w+g
  Solyc06g074010.2.1 530 DNSLGFLTKKFINLIKHSEDGVLDLNKAADTL---EV--KKRRLYDVTSVLEGIGLIEKKSLNMIQWEG 593
                         89******************************...99..9***************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.106.7E-29122191IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013729.1E-35124189IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467855.24E-18124187IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023194.4E-24126189IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146604.04E-43200306No hitNo description
SuperFamilySSF1440742.88E-30202306No hitNo description
PfamPF164213.4E-30205304IPR032198E2F transcription factor, CC-MB domain
Gene3DG3DSA:1.10.10.103.3E-24527595IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013727.5E-30528593IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467851.14E-15529591IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023193.7E-21530593IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146601.24E-38604710No hitNo description
SuperFamilySSF1440742.88E-27606710No hitNo description
PfamPF164212.1E-26609708IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 848 aa     Download sequence    Send to blast
MQPNQQRPSK RQLPFTSSKP PLGDYHRFST DPLHPSSQEL EGIAVKSTPL KRKSGTINYE  60
QGVGAQVSGC ESVYVSSPML TPISGKAGKS QKEPRASKAR SAAQATSSLG SPSGNNVTPV  120
GPCRYDNSLG LLTKKFINLL KHAKDGILDL NKAADTLEVQ KRRIYDITNV LEGIGLIEKK  180
LKNMIQWKGL DVSRPGEVDE SVTSLQAGVE NLTIEESRLD EQIRKMKERL RDLSGDENNK  240
RWLFVTEDDI KSLPCLQNDT LIAIKAPHGT SLEVPDPDEA VDYPERRYRI VFRSTMGPID  300
VYLVSKFEEK FEEINTVEEP STMPSTSGFI ENETATLPVD DGGGVGVGVL EQENQRECPD  360
AGTSQDFVSG ITKIIPDVDN EADYWLLSDA DVSITDMWTE SALNWNALDA INEDYSIADV  420
STPRAQTPPS STIEVPSGKS TGRSWQFESQ GNELHCTPLK RKSETANHEQ GVGAQIAGCG  480
NANVSSSMQT PISGKAGKSQ KAPKSSAQAT SSLGSHSGNN VTPVGPCCYD NSLGFLTKKF  540
INLIKHSEDG VLDLNKAADT LEVKKRRLYD VTSVLEGIGL IEKKSLNMIQ WEGLDVSRPG  600
DVDESVTSLQ AEVENLTIEE SILDEQIREK QERLRVLSED ENNQRWLFVT EDDIKSLPCL  660
QNYTLIAIRF LHGTSLEVPD PNEAVDYPQR RYSIVIRSTM GPIDVYLISK FEEKFKQITT  720
VEEPSTMPST SGFIEKETAA LPVDDGRGVG VAMEEQENQR ECPDAGTSQN PVSGIIKIVP  780
DFDNQEEDYL FLSDAHVSNT DMWTESVRDA LDSIYEDYSI ADVSSPHAQT PLSSTTELTS  840
ANTTEAE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-26119594274PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL 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}.
UniprotTISSUE 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
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. 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
SourceLink
PlantRegMapSolyc06g074010.2.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: 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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004241343.10.0transcription factor E2FB-like isoform X1
SwissprotQ9FV711e-134E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A3Q7H2M10.0A0A3Q7H2M1_SOLLC; Uncharacterized protein
STRINGSolyc06g074010.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10772484
Representative plantOGRP12251749
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G22220.21e-138E2F transcription factor 1
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. 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]
  3. 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]
  4. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]