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 Cagra.5627s0006.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family E2F/DP
Protein Properties Length: 467aa    MW: 51291.7 Da    PI: 4.4513
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.5627s0006.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP86.12.7e-27131196171
              E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                          r+++sL+llt+kf++l++++e+gi++ln++a++L   +v  ++RRiYDi+NVLe+++liek+ kn+i+wkg
  Cagra.5627s0006.1.p 131 RYDSSLGLLTKKFINLIKQAEDGILDLNKAAETL---EV--QKRRIYDITNVLEGIGLIEKTLKNRIQWKG 196
                          6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.104.9E-29128198IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013728.5E-35131196IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467851.9E-17131194IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023191.9E-24133196IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146606.42E-44207313No hitNo description
SuperFamilySSF1440745.49E-32209313No hitNo description
PfamPF164212.4E-31212311IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008284Biological Processpositive regulation of cell proliferation
GO:0009733Biological Processresponse to auxin
GO:0010090Biological Processtrichome morphogenesis
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051302Biological Processregulation of cell division
GO:0051446Biological Processpositive regulation of meiotic cell cycle
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 467 aa     Download sequence    Send to blast
MSDEPEKFPP SKRQQQHPSL SSMKPPLVAP GEYHRFDSAE TRLAGGAAAA DHLVSDSIVI  60
KSTLKRKTDA VNQIVEANEL STGVLQTPVS GKGGKAKKTS RSAKSNKSGT QASGSNAGSP  120
GNNFAQAGTC RYDSSLGLLT KKFINLIKQA EDGILDLNKA AETLEVQKRR IYDITNVLEG  180
IGLIEKTLKN RIQWKGLDVS KPGETIESIA NLQDEVHNLT VEEAKLDDQI RDSQERLTSL  240
SEDENNTRLL FVTEDDIKNL PCFQNKTLIA VKAPHGTTLE VPDPDEAGGY SQRRYRMILR  300
STMGPIDVYL VSQFEESFED IPHTDEPSKV PDEPSKVPDG PSNLPSTSGL PENHDVATPM  360
EEDSTERNME TQELDDTQRV YSEIESHDFV DGIMKIVPPD LDMGVDYWLR SEVGEVSITD  420
LWPDESGPDW NHLGSFDQNH AEPSNTTLEQ PQTPSSPTPE DSTATR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A5e-24131197774PROTEIN (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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.5627s0006.1.p
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
GenBankAF2425800.0AF242580.1 Arabidopsis thaliana E2F transcription factor-1 E2F1 mRNA, complete cds.
GenBankAJ2945330.0AJ294533.1 Arabidopsis thaliana mRNA for E2F-related protein (e2Fb gene).
GenBankAY1364790.0AY136479.1 Arabidopsis thaliana expressed protein (At5g22220) mRNA, complete cds.
GenBankBT0066100.0BT006610.1 Arabidopsis thaliana At5g22220 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006289493.10.0transcription factor E2FB
SwissprotQ9FV710.0E2FB_ARATH; Transcription factor E2FB
TrEMBLR0FJU80.0R0FJU8_9BRAS; Uncharacterized protein
STRINGCagra.5627s0006.1.p0.0(Capsella grandiflora)
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. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]