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 XP_009107400.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family E2F/DP
Protein Properties Length: 378aa    MW: 42839.2 Da    PI: 6.0266
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009107400.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP83.61.5e-26135200171
         E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                     r+++sL+llt+kf++l++++e+g ++ln +a+ L   +v  ++RRiYDi+NVLe+++liek+ kn+irwkg
  XP_009107400.1 135 RYDSSLGLLTKKFVNLIREAEDGSLDLNYCADVL---EV--QKRRIYDITNVLEGVGLIEKTTKNHIRWKG 200
                     6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.103.4E-28131202IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467857.48E-17135198IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013727.3E-33135200IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023193.3E-24137200IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146604.24E-39230329No hitNo description
PfamPF164217.7E-27230326IPR032198E2F transcription factor, CC-MB domain
SuperFamilySSF1440744.45E-27230328No hitNo description
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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 378 aa     Download sequence    Send to blast
MAATSKSGED PSLSYKHRSP FRFELIHSPS PTDPLHSSST NRPLSVPQPQ IQAHWDESFS  60
PIPITQKLQK SRKNHSISSS SMPGETIDIA KVIVKQESPQ DNTKRGTKSK VTKLSKSVKR  120
EGLQLSGPNG SNNCRYDSSL GLLTKKFVNL IREAEDGSLD LNYCADVLEV QKRRIYDITN  180
VLEGVGLIEK TTKNHIRWKG ADNLGQLELG NQISRLKVHN PHTALFYILE VESMQSEENR  240
LDDLIRERQE ALRSLEEDEH CKRYMFMTEE DITSLPCFQN QTLLAIKAPT ASCIEVPDPD  300
EVMSFPQRQY RMVIRSRMGP IDVYLLSKHK GDSSMETDES AVDTSSLKIV TSDTDLKTDY  360
WFESGEEVTL TDLWNNFC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A5e-24135201774PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
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
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00190DAPTransfer from AT1G47870Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009107400.1
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
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9429730.0JN942973.1 Brassica juncea E2F transcription factor (E2Fc) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009107400.10.0PREDICTED: transcription factor E2FC isoform X1
SwissprotQ9FV700.0E2FC_ARATH; Transcription factor E2FC
TrEMBLA0A078FX940.0A0A078FX94_BRANA; BnaA08g03620D protein
TrEMBLA0A397Y7N50.0A0A397Y7N5_BRACM; Uncharacterized protein
TrEMBLM4DC830.0M4DC83_BRARP; Uncharacterized protein
STRINGBra014096.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM80828121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G47870.10.0E2F/DP family protein
Publications ? help Back to Top
  1. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]
  2. 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]
  3. 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]