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 Pavir.3KG034900.3.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family E2F/DP
Protein Properties Length: 428aa    MW: 46731.7 Da    PI: 4.4499
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG034900.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP83.41.9e-26112177171
              E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                          r+++sL+llt+kfl+ll+ ++ giv+ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+irwkg
  Pavir.3KG034900.3.p 112 RYDSSLGLLTKKFLNLLKGAPGGIVDLNNAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNNIRWKG 177
                          6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.108.0E-28110178IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.63E-16112175IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013728.6E-35112177IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023191.6E-23114177IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146602.32E-50188294No hitNo description
SuperFamilySSF1440746.8E-34189294No hitNo description
PfamPF164213.5E-34193292IPR032198E2F 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:0005667Cellular Componenttranscription factor complex
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 428 aa     Download sequence    Send to blast
MGWVWVFAET NSLHFTTGDG ICCKFCTYFA LSAFCPSIKE LKRKHNKEGN GAAESNDCMM  60
SPGYANVGSS PVPTPPSGKG LKCSAKPKAT KGQNPLNFGS PGNPSTPVGG CRYDSSLGLL  120
TKKFLNLLKG APGGIVDLNN AAETLEVQKR RIYDITNVLE GIGLIEKKLK NNIRWKGIDD  180
SRPGEVSDDM SILQADIEAL TMQEQNLDER INEMRDRLRE LTEDENNQKW LYVTEDDIKS  240
LPSFQNQTLI AIKAPHGTTL EVPDPDEVND YPQRRYRIVL RSTMGPIDVY LVSQFEEMGG  300
METPPRPTPT ISMDSLGNPI TPLAAECSKA SGTGPNIQQG LTLPLDAPSS SQDIGGMMKI  360
VPSELDTDAD YFLLSDTGVS ITDMWKTAPD VEWDGIEKFN AEDFLEVSTP RQQDKPADVV  420
DGPSCIS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-22101178274PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.197320.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Most abundant in early S phase. Decreased expression during the passage into G2. {ECO:0000269|PubMed:11108847, ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543}.
UniprotTISSUE SPECIFICITY: Highly expressed in the shoot apical meristem, emerging leaf primordia, and vascular tissues of young leaf primordia. Expressed in flowers, in epidermis and cortex of hypocotyls, and at lower levels in leaves. {ECO:0000269|PubMed:11108847, ECO:0000269|PubMed:11889041}.
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. Regulates gene expression both positively and negatively. Activates the expression of E2FB. Involved in the control of cell-cycle progression from G1 to S phase. Stimulates cell proliferation and delays differentiation. {ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543, ECO:0000269|PubMed:11862494, ECO:0000269|PubMed:11889041, ECO:0000269|PubMed:11891240, ECO:0000269|PubMed:12913157, ECO:0000269|PubMed:15377755, ECO:0000269|PubMed:16514015, ECO:0000269|PubMed:19662336}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG034900.3.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0343490.0BT034349.1 Zea mays full-length cDNA clone ZM_BFc0009D23 mRNA, complete cds.
GenBankBT0644350.0BT064435.1 Zea mays full-length cDNA clone ZM_BFc0168K16 mRNA, complete cds.
GenBankEU9739800.0EU973980.1 Zea mays clone 425487 transcription factor E2F2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025804811.10.0transcription factor E2FA-like isoform X1
SwissprotQ9FNY01e-114E2FA_ARATH; Transcription factor E2FA
TrEMBLA0A3L6R6R80.0A0A3L6R6R8_PANMI; Transcription factor E2FA-like isoform X1
STRINGPavir.Ca00172.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G36010.11e-101E2F transcription factor 3
Publications ? help Back to Top
  1. Magyar Z, et al.
    Arabidopsis E2FA stimulates proliferation and endocycle separately through RBR-bound and RBR-free complexes.
    EMBO J., 2012. 31(6): p. 1480-93
    [PMID:22307083]