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 Niben101Scf01359g03007.1
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: 449aa    MW: 50040.6 Da    PI: 4.3418
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf01359g03007.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP85.73.5e-27128193171
                   E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                               r+++sL+llt+kf++l++++e+g+++ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+i+wkg
  Niben101Scf01359g03007.1 128 RYDSSLGLLTKKFINLIKHAENGMLDLNKAADTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 193
                               6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.104.3E-29126194IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467853.26E-17128191IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013722.3E-34128193IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023191.6E-24130193IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146606.68E-47204310No hitNo description
SuperFamilySSF1440743.14E-32206310No hitNo description
PfamPF164212.1E-32209308IPR032198E2F 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:0005667Cellular Componenttranscription factor complex
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 449 aa     Download sequence    Send to blast
MQSQQQQQQQ QSLKRQLQFS SIKPAFGDYH WFSTDPVHCS SQEPPAGIVV KTPPLKRKST  60
AANYEQGVGD QNPGFEYANV NSPVQTPMSG KAGNTQKIPK SSKARFSQAV ASNVGSPSGN  120
VTPVGPCRYD SSLGLLTKKF INLIKHAENG MLDLNKAADT LEVQKRRIYD ITNVLEGIGL  180
IEKKLKNRIQ WKGLYVSKPG ESDESIASLQ GDVESLTIEE RRLDDQIRET QEQLRDLSED  240
EDNQRWFFVT EDDIKSLPCF QNKTLIAIKA PHGTTLEVPD PDDAVDYPQR RYIITLRSTM  300
GPIDVYLVSQ FEEKFEEINT IETPPSVPST SGLNENATTT LAAEENREVD IGMDEKENQN  360
MCSDVGTSQD FMTGIMKIVP DVENEADYWL LSDADVSITD MWRTESAIDW NELDVIQEDY  420
SIPNVSTPRS ETSPTNTTEV PSAANTTGC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A2e-24123194274PROTEIN (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_009802122.10.0PREDICTED: transcription factor E2FB isoform X1
RefseqXP_016482505.10.0PREDICTED: transcription factor E2FB-like isoform X1
SwissprotQ9FV711e-148E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A1S4B0N00.0A0A1S4B0N0_TOBAC; transcription factor E2FB-like isoform X1
TrEMBLA0A1U7YDC80.0A0A1U7YDC8_NICSY; transcription factor E2FB isoform X1
STRINGXP_009802122.10.0(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-147E2F 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]