PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.008G042700.3.p
Common NameSb08g003670, SORBIDRAFT_08g003670
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family E2F/DP
Protein Properties Length: 379aa    MW: 41409.8 Da    PI: 4.455
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.008G042700.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP83.61.6e-2659124171
               E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                           r+++sL+llt+kfl+ll+ ++ giv+ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+irwkg
  Sobic.008G042700.3.p  59 RYDSSLGLLTKKFLNLLKGAPGGIVDLNNAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNNIRWKG 124
                           6899******************************...99..****************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.105.4E-2857126IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013728.6E-3559124IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467851.36E-1659122IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023191.3E-2361124IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146603.06E-49135241No hitNo description
SuperFamilySSF1440748.63E-34136241No hitNo description
PfamPF164211.8E-33140239IPR032198E2F 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: 379 aa     Download sequence    Send to blast
MMSPGYANAG SSPVPTTPSG KGLKTSAKPK AMKGQKSCPQ TPFSVGSPGN PSTPVGGCRY  60
DSSLGLLTKK FLNLLKGAPG GIVDLNNAAE TLEVQKRRIY DITNVLEGIG LIEKKLKNNI  120
RWKGVDDSRP GEVSDDMSIL QADINALALQ ERNLDERISE MRDRLRALTE DENNQKWLYV  180
TEDDIKSLPC FQNQTLIAIK APHGTTLEVP DPDEVNGYPQ RRYRIVLRST MGPIDVYLVS  240
QFEEMSGMET PPRPTQTISM DSIENPRTPL AADCNKVTGM KLNIQEGLIL PSDAPSTSQD  300
ISGMMKLVPS ELDADTDYWL LSDNAGVSMT NMWETGPEDV EWDRIQKFNA EDFLEVGTPQ  360
QQDKPADVMD GGGPSCVS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-2348125274PROTEIN (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 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
PlantRegMapSobic.008G042700.3.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
GenBankEU9655380.0EU965538.1 Zea mays clone 286746 transcription factor E2F2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021301272.10.0transcription factor E2FB isoform X1
SwissprotQ9FNY01e-109E2FA_ARATH; Transcription factor E2FA
TrEMBLA0A1Z5R5C30.0A0A1Z5R5C3_SORBI; Uncharacterized protein
STRINGSb08g003670.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62537148
Representative plantOGRP12251749
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G36010.11e-102E2F 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]