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 RrC4139_p2
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 WRKY
Protein Properties Length: 322aa    MW: 36033.4 Da    PI: 8.9901
Description WRKY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4139_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRKY89.52.8e-28182239259
                 --SS-EEEEEEE--TT-SS-EEEEEE-STT---EEEEEE-SSSTTEEEEEEES--SS- CS
        WRKY   2 dDgynWrKYGqKevkgsefprsYYrCtsagCpvkkkversaedpkvveitYegeHnhe 59 
                 dDgy+W+KYGqK++kg++++rsYY+Ct++gC+vkk+ver +++ k +++ Y g+H h+
  RrC4139_p2 182 DDGYSWKKYGQKVIKGNPNARSYYKCTFSGCKVKKHVERRSDNMKSLVTSYFGNHVHH 239
                 8*******************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.20.25.801.7E-28168241IPR003657WRKY domain
PROSITE profilePS5081128.874176241IPR003657WRKY domain
SuperFamilySSF1182903.66E-24177241IPR003657WRKY domain
SMARTSM007744.1E-31181240IPR003657WRKY domain
PfamPF031069.0E-22182239IPR003657WRKY domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 322 aa     Download sequence    Send to blast
MRSSDENFME MTSYSASKAS PSPRMTSVRI DQPENALKQM SRILPQTYLS LDYQSEQRSG  60
HLGHRLTAKV SPPALLQSPF SNSSSQIVSP SPVAIFGLPE KMESFGSDHA TMMISNNGLP  120
HQRMDVDQAP EDHTIVDVLN VEPSYPKRRE DEVSNMIGAT RPGSNHETVI IIQMEREENN  180
PDDGYSWKKY GQKVIKGNPN ARSYYKCTFS GCKVKKHVER RSDNMKSLVT SYFGNHVHHA  240
PIQRRKSYLL KNRSSSSMSQ DPSNRTSRLG RPPSCSSASQ VFSPSLEPHL DMTQIYMTGL  300
SLSLPGNQND EPKIDRAIPD GT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wj2_A3e-20172241877Probable WRKY transcription factor 4
2lex_A3e-20172241877Probable WRKY transcription factor 4
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (By similarity). Modulates seed size by negatively regulating the cellularization of syncytial endosperm (PubMed:16293693). {ECO:0000250|UniProtKB:Q9SI37, ECO:0000269|PubMed:16293693}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM5931431e-164KM593143.1 Brassica oleracea var. capitata WRKY transcription factor (WRKY40) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018449996.10.0PREDICTED: probable WRKY transcription factor 10
SwissprotQ9LG055e-40WRK10_ARATH; Probable WRKY transcription factor 10
TrEMBLA0A0D3BN191e-126A0A0D3BN19_BRAOL; Uncharacterized protein
STRINGBo3g184540.11e-127(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM102991733
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G55600.12e-42WRKY DNA-binding protein 10
Publications ? help Back to Top
  1. Li J,Nie X,Tan JL,Berger F
    Integration of epigenetic and genetic controls of seed size by cytokinin in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2013. 110(38): p. 15479-84
    [PMID:24003120]
  2. Fatihi A,Zbierzak AM,Dörmann P
    Alterations in seed development gene expression affect size and oil content of Arabidopsis seeds.
    Plant Physiol., 2013. 163(2): p. 973-85
    [PMID:24014578]
  3. Liu P, et al.
    Arabidopsis RAN1 mediates seed development through its parental ratio by affecting the onset of endosperm cellularization.
    Mol Plant, 2014. 7(8): p. 1316-1328
    [PMID:24719465]
  4. Xiao YG,Sun QB,Kang XJ,Chen CB,Ni M
    SHORT HYPOCOTYL UNDER BLUE1 or HAIKU2 mixepression alters canola and Arabidopsis seed development.
    New Phytol., 2016. 209(2): p. 636-49
    [PMID:26389843]
  5. Meng LS,Wang YB,Loake GJ,Jiang JH
    Seed Embryo Development Is Regulated via an AN3-MINI3 Gene Cascade.
    Front Plant Sci, 2016. 7: p. 1645
    [PMID:27857719]
  6. Meng LS,Wang YB,Loake GJ,Jiang JH
    Corrigendum: Seed Embryo Development Is Regulated via an AN3-MINI3 Gene Cascade.
    Front Plant Sci, 2017. 8: p. 1073
    [PMID:28616014]