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 Potri.009G161900.1
Common NamePOPTR_0009s16350g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family E2F/DP
Protein Properties Length: 474aa    MW: 52741.6 Da    PI: 4.9425
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.009G161900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP86.52e-27151216171
             E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                         r+++sL+llt+kf++l++++e+gi++ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+i+wkg
  Potri.009G161900.1 151 RYDSSLGLLTKKFINLIKHAEDGILDLNKAADTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 216
                         6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.101.7E-28151218IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467855.17E-17151214IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013729.2E-35151216IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023191.6E-24153216IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146602.17E-43228334No hitNo description
SuperFamilySSF1440743.66E-30230334No hitNo description
PfamPF164211.6E-30233332IPR032198E2F 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: 474 aa     Download sequence    Send to blast
MSSSQAPNNQ SMKQPQQNSM QSHAPNQCQQ HQQLPFSSMK PHFLPPGDYH RFGVDHRRPV  60
SDHDVEGIVV KPPTLKRKSD AADHQGESSE WNAGHGYMEV VTSPLQTPVS GKGGKTPKTS  120
RLSKSGKSAS QSAAGALGSP GNNVTPTGPI RYDSSLGLLT KKFINLIKHA EDGILDLNKA  180
ADTLEVQKRR IYDITNVLEG IGLIEKKLKN RIQWKGLDVS RSREGDDNNV ATLQAEVENL  240
TIEERRLDEQ TREMQERLRD LSVDEKNQKW LFVTKEDIKI LPGFQNETLI AIKAPHGTTL  300
EVPDPDEAVD YPQRRYRIVF RSTMGPIDVY LVSQFEEKFE DIQGAEPPPS DSSTSGFNEN  360
AATTMVTEES RAKEFEMQEQ DGHRICSEPN TSHDFVSGIM KIVPSDVNSD ADYWLLSDAD  420
VSITDMWRNE PVVEWNDLDT LHNDYVMPNF STPQPQTPSN PTEVPPAANT TAG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A4e-26146217274PROTEIN (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
PlantRegMapPotri.009G161900.1
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
GenBankAY1795060.0AY179506.1 Populus alba E2F mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002312830.10.0transcription factor E2FB
SwissprotQ9FV711e-158E2FB_ARATH; Transcription factor E2FB
TrEMBLB9HQ230.0B9HQ23_POPTR; Uncharacterized protein
STRINGPOPTR_0009s16350.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF19473490
Representative plantOGRP12251749
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G22220.21e-146E2F 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]