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_6880V3.6.p
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: 454aa    MW: 49918.9 Da    PI: 4.8701
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c1_6880V3.6.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP86.12.7e-27127192171
           E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                       r+++sL+llt+kf++l++++++g+++ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+irwkg
  Pp3c1_6880V3.6.p 127 RYDSSLGLLTKKFIDLIKQADDGVLDLNKAADTL---HV--QKRRIYDITNVLEGIGLIEKKLKNRIRWKG 192
                       6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.105.3E-29123193IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013721.8E-34127192IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467851.36E-17127190IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023191.1E-24129192IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146603.42E-45203308No hitNo description
SuperFamilySSF1440741.88E-30207308No hitNo description
PfamPF164211.8E-31210307IPR032198E2F 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: 454 aa     Download sequence    Send to blast
MEDFRSDTLN LASYPGLGSN VAMPHSQAPV WKAVHSVNPK VEPNEVNSLL YSNMKRRNEC  60
EEHHVEMNGW NGYTNSDLSP APTPTGPRGR GSRAKTVKQT KNGPQTPGPS GIGSPTSSAP  120
TPTSTCRYDS SLGLLTKKFI DLIKQADDGV LDLNKAADTL HVQKRRIYDI TNVLEGIGLI  180
EKKLKNRIRW KGLGMVRNAE AKDDAAGLLA EVEDLRIKEK KLDESISEMR ERLRSLSEDE  240
HNKQWLYVTE DDIKNLHCFQ NETLIAIKAP LGTTLEVPDP DEAVEYPHRR FQILLRSTLG  300
PIDVYLVSRF EGRTEVPMET LPDSQEAGPS SSVDGMSHQE NMVMVPEVGY GLSDLVPPVS  360
HESASQAPEP TGSHPDFAGG IMRIAPAEVN TDTDYWLLSD AGVGISDMWR SDPSNAMWDE  420
VVRLNPEFGS ENIGSPRPHT PPSNNALEVD PVS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A8e-26122194275PROTEIN (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
SwissprotQ9FV711e-103E2FB_ARATH; Transcription factor E2FB
TrEMBLQ8GU410.0Q8GU41_PHYPA; Predicted protein
STRINGPP1S38_356V6.10.0(Physcomitrella patens)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP12251749
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. 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]