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 Pp3c1_6880V3.3.p
Common Namee2f, PHYPADRAFT_122002
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family E2F/DP
Protein Properties Length: 401aa    MW: 44124.4 Da    PI: 4.8344
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c1_6880V3.3.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP86.32.3e-2774139171
           E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                       r+++sL+llt+kf++l++++++g+++ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+irwkg
  Pp3c1_6880V3.3.p  74 RYDSSLGLLTKKFIDLIKQADDGVLDLNKAADTL---HV--QKRRIYDITNVLEGIGLIEKKLKNRIRWKG 139
                       6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.104.4E-2970140IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467858.71E-1874137IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013721.8E-3474139IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023199.2E-2576139IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146602.62E-45150255No hitNo description
SuperFamilySSF1440741.49E-30154255No hitNo description
PfamPF164211.5E-31157254IPR032198E2F 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000006anatomyplant protoplast
PO:0025017anatomyplant spore
PO:0030003anatomyprotonema
PO:0030018anatomygametophore
Sequence ? help Back to Top
Protein Sequence    Length: 401 aa     Download sequence    Send to blast
MKRRNECEEH HVEMNGWNGY TNSDLSPAPT PTGPRGRGSR AKTVKQTKNG PQTPGPSGIG  60
SPTSSAPTPT STCRYDSSLG LLTKKFIDLI KQADDGVLDL NKAADTLHVQ KRRIYDITNV  120
LEGIGLIEKK LKNRIRWKGL GMVRNAEAKD DAAGLLAEVE DLRIKEKKLD ESISEMRERL  180
RSLSEDEHNK QWLYVTEDDI KNLHCFQNET LIAIKAPLGT TLEVPDPDEA VEYPHRRFQI  240
LLRSTLGPID VYLVSRFEGR TEVPMETLPD SQEAGPSSSV DGMSHQENMV MVPEVGYGLS  300
DLVPPVSHES ASQAPEPTGS HPDFAGGIMR IAPAEVNTDT DYWLLSDAGV GISDMWRSDP  360
SNAMWDEVVR LNPEFGSENI GSPRPHTPPS NNALEVDPVS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A5e-2669141275PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ppa.30260.0protonema
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00661PBM25215497Download
Motif logo
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4289510.0AJ428951.1 Physcomitrella patens mRNA for putative E2F transcription factor (e2f gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024387480.10.0transcription factor E2FB-like isoform X1
RefseqXP_024387489.10.0transcription factor E2FB-like isoform X2
RefseqXP_024387498.10.0transcription factor E2FB-like isoform X3
RefseqXP_024387507.10.0transcription factor E2FB-like isoform X4
RefseqXP_024387515.10.0transcription factor E2FB-like isoform X4
SwissprotQ9FV711e-103E2FB_ARATH; Transcription factor E2FB
TrEMBLQ8GU410.0Q8GU41_PHYPA; Predicted protein
STRINGPP1S38_356V6.10.0(Physcomitrella patens)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G22220.21e-101E2F transcription factor 1
Publications ? help Back to Top
  1. Rensing SA, et al.
    The Physcomitrella genome reveals evolutionary insights into the conquest of land by plants.
    Science, 2008. 319(5859): p. 64-9
    [PMID:18079367]
  2. 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]
  3. 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]
  4. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]