PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Niben101Scf10018g00007.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family E2F/DP
Protein Properties Length: 474aa    MW: 52701.1 Da    PI: 4.5475
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf10018g00007.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP86.12.7e-27119184171
                   E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                               r+++sL+llt+kf++l++++e+g+++ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+i+wkg
  Niben101Scf10018g00007.1 119 RYDSSLGLLTKKFINLIKHAEDGVLDLNKAADTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 184
                               6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.103.8E-29117186IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467853.17E-17119182IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013726.2E-35119184IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023191.3E-24121184IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146601.48E-37195336No hitNo description
SuperFamilySSF1440741.2E-6197238No hitNo description
PfamPF164211.4E-27200334IPR032198E2F transcription factor, CC-MB domain
SuperFamilySSF1440741.78E-18270336No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005667Cellular Componenttranscription factor complex
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 474 aa     Download sequence    Send to blast
MQQPHHQQRE LPFTSSKPPL GDYHRFCTDP LQQPEAILVK STPMKRKSET TNYKQGIGAH  60
IRDSGYADVS SPMQTQISGK VGKAQKVPRT SKARSASQAA ASNLGSPSGN NATPVGPCRY  120
DSSLGLLTKK FINLIKHAED GVLDLNKAAD TLEVQKRRIY DITNVLEGIG LIEKKLKNRI  180
QWKGLDVSRP GEVDDSVTSL QAEVENMTIE ERRLDEQTRE MQERLTDLCE DENNQRYPLF  240
ALVVLFVTLG YWPIYLLIFP SLFLPLISSK RWLLVTEDDI KSLPCLQNET LIAIKAPHGT  300
TLEVPDPDEA VDYPQRRYRI VLRSTMGPID VYLVSQFEEK FEEINAVEAP SAMPSTSGSN  360
ENETATLPTE ESGGVDGRID EKENQSVCAD VGTSQDFASG IMKIVSDVDN EEDYWLLSDA  420
DVSITDIWRA DSVLDWNELN VIHEDYSIAN VSTPRAQTPP SSTTELPSAN TTGS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-26114185274PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
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}.
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009800733.10.0PREDICTED: transcription factor E2FB-like isoform X2
RefseqXP_016473683.10.0PREDICTED: transcription factor E2FB-like
SwissprotQ9FV711e-140E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A1S4AAL50.0A0A1S4AAL5_TOBAC; transcription factor E2FB-like
TrEMBLA0A1U7YC730.0A0A1U7YC73_NICSY; transcription factor E2FB-like isoform X2
STRINGXP_009800726.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10772484
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G22220.21e-137E2F transcription factor 1
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]