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 OBART04G00680.1
Organism
Oryza barthii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family E2F/DP
Protein Properties Length: 350aa    MW: 39176.5 Da    PI: 4.4346
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART04G00680.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP83.41.9e-2673138171
          E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                      r+++sL+llt+kf++lle +e+g+++ln++a++L   +v  ++RRiYDi+NVLe+++liek+ kn irwkg
  OBART04G00680.1  73 RYDSSLGLLTKKFINLLEGAEDGTLDLNKAAETL---EV--QKRRIYDITNVLEGVDLIEKTLKNMIRWKG 138
                      6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.103.1E-2870139IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.02E-1673136IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013727.7E-3473138IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023197.7E-2475138IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146601.12E-33149261No hitNo description
SuperFamilySSF1440745.75E-23150260No hitNo description
PfamPF164211.1E-24154258IPR032198E2F 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: 350 aa     Download sequence    Send to blast
MANAADNEEK NERETVQSEV AKGETVQGPD KESTTGTVKG IKRPRKPKGF KKGSLRSNEG  60
DAGPSLFSPS NCRYDSSLGL LTKKFINLLE GAEDGTLDLN KAAETLEVQK RRIYDITNVL  120
EGVDLIEKTL KNMIRWKGFD MSKPKERERQ ISALKEEIES LYDEESRLDD EIMEAQEKLN  180
ALRVDEDRRK LYVSKEDINA IPRFQGSTLI AVNAPRGTYI EVPDPNLDMD IYKDLDNQEK  240
HYQIVFRSAM GPVDCFLISN HQETFNTDQQ MADNLDAAVT SGSSQAPQQM DYVQASEIGE  300
SNGVREHTSE PSKRDDPVPG IVKIVPSDDI AADYWLSSDA DVSMTDTWGT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A7e-2273138773PROTEIN (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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6066121e-112AL606612.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBb0021I10, complete sequence.
GenBankAL6066161e-112AL606616.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBb0060M15, complete sequence.
GenBankAP0149601e-112AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015633977.10.0transcription factor E2FC
SwissprotQ9FV712e-81E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A0D3FRZ00.0A0A0D3FRZ0_9ORYZ; Uncharacterized protein
STRINGOBART04G00680.10.0(Oryza barthii)
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
AT5G22220.31e-82E2F 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]