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 evm_27.model.AmTr_v1.0_scaffold00030.186
Common NameAMTR_s00030p00231260
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family E2F/DP
Protein Properties Length: 430aa    MW: 47917.7 Da    PI: 5.0006
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00030.186genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP85.44.3e-27138203171
                                   E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirw 69 
                                               r+++sL+llt+kf++l++++e+g+++ln++a+ L   +v  ++RRiYDi+NVLe+++liekk kn+irw
  evm_27.model.AmTr_v1.0_scaffold00030.186 138 RYDSSLGLLTKKFINLIKQAEDGVLDLNKAAEIL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIRW 201
                                               6899******************************...99..**************************** PP

                                   E2F_TDP  70 kg 71 
                                               kg
  evm_27.model.AmTr_v1.0_scaffold00030.186 202 KG 203
                                               98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.106.3E-29136205IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467852.0E-17138201IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013721.0E-34138203IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023191.9E-24140203IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146602.06E-50214320No hitNo description
SuperFamilySSF1440742.88E-34215320No hitNo description
PfamPF164215.2E-35219318IPR032198E2F 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: 430 aa     Download sequence    Send to blast
MSGGRGLNRV HQPPGPVIHQ PLRRHLPFSS SKPSFANPGD YHQFSEAGKR EESDALVVTS  60
PLKRKYDTEE HEAESSDWAT SQGYAEVVNS PLHTPISIKG KGYSRGKASR YTKSGPPTPI  120
SNAGSPASNT LTPVGTCRYD SSLGLLTKKF INLIKQAEDG VLDLNKAAEI LEVQKRRIYD  180
ITNVLEGIGL IEKKLKNRIR WKGLDVSRPG EVDEDIAVLQ AEVQNLHLEE HRIDEQIREM  240
QKSLRDLSED ENNQKWLYVT EEDIKGLPCF QNETLIAIKA PHGTTLEVPD PDEAVEYPQR  300
RYQILLRSTM GPIDVYLVSQ FKKLEEVNSV ADSPLQPPQS TPDHVVTSSL PTTLETSRRV  360
EMEAEGQDGS QDFVGGFMKL VPSEIDTEAD YWLLSDPPGV SITEIWKADR ASAVHPDDGW  420
ERSTVLWYG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-23133204174PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
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
MP00661PBMTransfer from Pp3c1_6880Download
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011627152.10.0transcription factor E2FA
RefseqXP_020529414.10.0transcription factor E2FA
SwissprotQ9FV711e-133E2FB_ARATH; Transcription factor E2FB
TrEMBLU5D4320.0U5D432_AMBTC; Uncharacterized protein
STRINGERN161720.0(Amborella trichopoda)
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
AT5G22220.31e-136E2F 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. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  4. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]