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 RrC626_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family AP2
Protein Properties Length: 548aa    MW: 59355.9 Da    PI: 7.4805
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC626_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP234.74.6e-11200256155
        AP2   1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 
                s y+GV++++++gr++A+++d  +     ++ k  + g ++ +++Aa+a++ a++k++g
  RrC626_p1 200 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEDKAARAYDLAALKYWG 256
                57*******************5444.2455535555.7799999*************98 PP
2AP246.31e-14301350355
        AP2   3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                y+GV+++++ grW A+I  +     +k  +lg+f t eeAa+a++ a+ k++g
  RrC626_p1 301 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTQEEAAEAYDIAAIKFRG 350
                9***************988532...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000188.06E-19200266No hitNo description
SuperFamilySSF541711.57E-14200266IPR016177DNA-binding domain
PfamPF008471.2E-8200256IPR001471AP2/ERF domain
PROSITE profilePS5103217.174201264IPR001471AP2/ERF domain
SMARTSM003807.0E-22201270IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.2E-11201265IPR001471AP2/ERF domain
PRINTSPR003673.0E-6202213IPR001471AP2/ERF domain
CDDcd000185.57E-25299360No hitNo description
SuperFamilySSF541719.15E-18299360IPR016177DNA-binding domain
PROSITE profilePS5103219.203300358IPR001471AP2/ERF domain
SMARTSM003803.7E-33300364IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.9E-18300358IPR001471AP2/ERF domain
PfamPF008471.5E-9301350IPR001471AP2/ERF domain
PRINTSPR003673.0E-6340360IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009845Biological Processseed germination
GO:0040019Biological Processpositive regulation of embryonic development
GO:0048364Biological Processroot development
GO:0060772Biological Processleaf phyllotactic patterning
GO:0060774Biological Processauxin mediated signaling pathway involved in phyllotactic patterning
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 548 aa     Download sequence    Send to blast
MKNNNNKSSS SYDSSLSPSS SSSSHQNWLS FSLSNNNNFN SSSNPNLATS ASDHHHHPHP  60
SHLSLFQAFS TTPVHRQDES PGVSSGDSTA VLSMCPGGPK LENFLGGGAT TTTTGQMQQG  120
QSLGGVVFSS NVEPPHHPPT AAEIYDSELK SIAASFLGNY SGGHSSEVSS GQKQQHNHLT  180
VTEVSPTPKK NVESFGQRTS IYRGVTRHRW TGRYEAHLWD NSCRREGQSR KGRQGGYDKE  240
DKAARAYDLA ALKYWGPTTT TNFPISNYEL ELEEMKHMTR QEFVASLRRK SSGFSRGASM  300
YRGVTRHHQH GRWQARIGRV AGNKDLYLGT FSTQEEAAEA YDIAAIKFRG LNAVTNFDIS  360
RYDVKSIASC NLPVGGLNPK PSPATPPSDK QVDISPSDPP SLTTPSLTFN VATPAHDHEG  420
TFFHTGIPIK QDPAAHYWSN VFGFPPNLKT ETRQIATFGS DLHNTSPGFA IMQDGGNNFG  480
GGFVESEGYN NHSAASSPVS AIPLPSTVDN GNEGYGGNVN WISNNTSNSY QPSKSNLSVL  540
QTPVFGLE
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Involved in the regulation of floral organs size. {ECO:0000250, ECO:0000269|PubMed:15988559}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB5198210.0AB519821.1 Brassica napus BnEMK mRNA for AP2 domain transcription factor, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018470271.10.0PREDICTED: AP2-like ethylene-responsive transcription factor AIL5
SwissprotQ6PQQ30.0AIL5_ARATH; AP2-like ethylene-responsive transcription factor AIL5
TrEMBLA0A078HZQ80.0A0A078HZQ8_BRANA; BnaC02g11520D protein
STRINGBo2g032400.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM115832833
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G57390.10.0AINTEGUMENTA-like 5
Publications ? help Back to Top
  1. Todd J,Post-Beittenmiller D,Jaworski JG
    KCS1 encodes a fatty acid elongase 3-ketoacyl-CoA synthase affecting wax biosynthesis in Arabidopsis thaliana.
    Plant J., 1999. 17(2): p. 119-30
    [PMID:10074711]
  2. Molitor AM,Bu Z,Yu Y,Shen WH
    Arabidopsis AL PHD-PRC1 complexes promote seed germination through H3K4me3-to-H3K27me3 chromatin state switch in repression of seed developmental genes.
    PLoS Genet., 2014. 10(1): p. e1004091
    [PMID:24465219]
  3. Feng J,Chen D,Berr A,Shen WH
    ZRF1 Chromatin Regulators Have Polycomb Silencing and Independent Roles in Development.
    Plant Physiol., 2016. 172(3): p. 1746-1759
    [PMID:27630184]
  4. Santuari L, et al.
    The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots.
    Plant Cell, 2016. 28(12): p. 2937-2951
    [PMID:27920338]
  5. Du Y,Scheres B
    PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714
    [PMID:29078398]