PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00148871001
Common NameGSBRNA2T00148871001
Organism
Brassica napus
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: 484aa    MW: 53556.7 Da    PI: 4.5909
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00148871001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP86.52e-27124189171
              E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                          r+++sL+llt+kf++l++++e+gi++ln++a++L   +v  ++RRiYDi+NVLe+++liek+ kn+i+wkg
  GSBRNA2T00148871001 124 RYDSSLGLLTKKFINLIKQAEDGILDLNKAADTL---EV--QKRRIYDITNVLEGIGLIEKTLKNRIQWKG 189
                          6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.103.5E-29121191IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013725.9E-35124189IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467851.81E-17124187IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023191.6E-24126189IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146603.45E-44227326No hitNo description
SuperFamilySSF1440743.4E-29227326No hitNo description
PfamPF164211.8E-30227324IPR032198E2F 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: 484 aa     Download sequence    Send to blast
MSDSQQEPEQ HPPPKRQHHP SAASMKPPLV APGDYHRFES AESRGGPDQV SEAIVIKSSL  60
TDMVNQIYEP SEFNTGVLQT AVTGKGGKAK KSSRSFKSNK TGVQAAGFNA GSPGNNFAQA  120
GSCRYDSSLG LLTKKFINLI KQAEDGILDL NKAADTLEVQ KRRIYDITNV LEGIGLIEKT  180
LKNRIQWKGL DVSKPGETME NIANLQLFHL LFAKLLGLFI FPLPVVDEIQ NLSAEEAKLD  240
DQIRESQERL TSLSEDENNK RFLFVSEDDI KNLPCFQNKT LIAVKAPHGT TLEVPDPDEA  300
GGYPQRRYRI IMRSTMGPID VYLVSQFEER FEDIPNVDEP SNVPSTSGVP ENQDVAVPME  360
DSKDKNIETQ EVDDTQRVHS DIESHEFVDG IMKIVPPDLD MDVDYWLRSE VGEVSITDMW  420
PNESGPNWTS QMLSFHQGAG PNWNHQMVSY DQGAGPSNTT QEQPQSPSGP KPEQSTATRS  480
TCS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-24124190774PROTEIN (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
PlantRegMapGSBRNA2T00148871001
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9429880.0JN942988.1 Brassica juncea E2F transcription factor (E2Fb) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013715836.10.0transcription factor E2FB-like
SwissprotQ9FV710.0E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A3P5ZG310.0A0A3P5ZG31_BRACM; Uncharacterized protein
STRINGBra006615.1-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
AT5G22220.20.0E2F 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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  4. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]