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_scaffold00220.3
Common NameAMTR_s00220p00023690
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: 421aa    MW: 46967.9 Da    PI: 4.5796
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00220.3genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP85.34.6e-2786151171
                                 E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                                             r+++sL+llt+kf++l++++e gi++lne+a++L   +v  ++RRiYDi+NVLe+++liek+ kn+irwkg
  evm_27.model.AmTr_v1.0_scaffold00220.3  86 RYDSSLGLLTKKFITLIKQAEGGILDLNEAADTL---EV--QKRRIYDITNVLEGIGLIEKTLKNRIRWKG 151
                                             6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.101.4E-2884153IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.27E-1786149IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013724.5E-3586151IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023192.7E-2488151IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF1440744.45E-33165268No hitNo description
CDDcd146602.37E-48167268No hitNo description
PfamPF164216.7E-33167266IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000902Biological Processcell morphogenesis
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042023Biological ProcessDNA endoreduplication
GO:0051782Biological Processnegative regulation of cell division
GO:0005667Cellular Componenttranscription factor complex
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 421 aa     Download sequence    Send to blast
MGEPQGCVLN QKSEIEDYEV ETSDWTESEG YMEAVNSPVV TPVPGTGGRR YSRAKVSKIR  60
RSIPQSPSLN DSSPSKNTLT PVGTCRYDSS LGLLTKKFIT LIKQAEGGIL DLNEAADTLE  120
VQKRRIYDIT NVLEGIGLIE KTLKNRIRWK GLEESRPGEL INGVAMLQAE VENMSIKEHK  180
LDDSIRDKQE RLRILSEDEN NKKWLYVTEE DIKSLPCFQN ETLIAIKAPH GTTLEVPDPD  240
EAPDYPQRRY QMLLRSTMGP IDVYLVSQFD EKIEDMNNIE SQPIDMIPTS VVSNNSRVQP  300
EFPAMGLLKD MGHVQDGQTT SSSSCNSQDL AGGMMKIVPS YVNLDADYWL SADAGVSMTD  360
MWKSGSSVAV HEDERINLDK YPVADSGVLQ RHIPSSCNHE PKTYVTRLAC WSEEVGAWSM  420
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A2e-2381152174PROTEIN (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}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020518401.10.0transcription factor E2FB
SwissprotQ9FV711e-119E2FB_ARATH; Transcription factor E2FB
TrEMBLW1NTM70.0W1NTM7_AMBTC; Uncharacterized protein
STRINGERM988620.0(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
AT5G22220.21e-122E2F 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]