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.7KG075700.1.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: 381aa    MW: 41151.9 Da    PI: 6.9524
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7KG075700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP79.92.3e-25199264171
              E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                          r+++sL llt+kf++ll+ +e+g+++ln++a++L   +v  ++RRiYDi+NVLe+++liek  kn irwkg
  Pavir.7KG075700.1.p 199 RYDSSLSLLTKKFINLLQGAENGTLDLNKAAESL---EV--QKRRIYDITNVLEGVDLIEKGLKNMIRWKG 264
                          6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.103.2E-27196265IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013724.6E-32199264IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467858.16E-16199262IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023193.6E-23201264IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146601.66E-25276359No hitNo description
SuperFamilySSF1440743.14E-19276355No hitNo description
PfamPF164211.1E-18280358IPR032198E2F 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: 381 aa     Download sequence    Send to blast
MDGGSSSLPL PHPPQVYLRR PVPPPGPPVT APPRVHLFRP PVPIPIFSSR PRSAARPPIP  60
PPPAAAPAPA PQVAAAPAPP RPPPAAPTST SADKPPSPPP PAQPQAGLML PPPAPRAEGK  120
GTPMPNPQPN EQNNGGENSQ AEINMGETAQ DKETTSEPGK VIKRVKKLKV SKQSVGTSHG  180
SGVVEGDAGP SLHSINHCRY DSSLSLLTKK FINLLQGAEN GTLDLNKAAE SLEVQKRRIY  240
DITNVLEGVD LIEKGLKNMI RWKGFDMSKP KEIECQISSL KEELESLYDE EFRLDDEIRE  300
AKEKLQALTL DEDKRKSLYL LKEDINKIPH FQGSTLIAIN APHGTCVEVP DPNADLYLYG  360
DLGLQEKQFK NCLESYIGSH *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A9e-21199264773PROTEIN (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
PlantRegMapPavir.7KG075700.1.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
GenBankBT0647370.0BT064737.1 Zea mays full-length cDNA clone ZM_BFb0090H09 mRNA, complete cds.
GenBankKJ7268780.0KJ726878.1 Zea mays clone pUT3419 E2F-DP transcription factor (E2F5) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025824426.10.0transcription factor E2FB-like isoform X1
SwissprotQ9FV713e-64E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A3L6Q6V50.0A0A3L6Q6V5_PANMI; Transcription factor E2FC-like
STRINGPavir.J35678.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62537148
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G22220.36e-66E2F 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]