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 RrC5254_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: 336aa    MW: 37932.9 Da    PI: 5.8945
Description WRKY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5254_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRKY83.52.1e-26141201259
                 --SS-EEEEEEE--TT-SS-EEEEEE-ST...T---EEEEEE-SSSTTEEEEEEES--SS- CS
        WRKY   2 dDgynWrKYGqKevkgsefprsYYrCtsa...gCpvkkkversaedpkvveitYegeHnhe 59 
                 +D+y+WrKYGqKe+ +++fprsY+rCt++   gC+++k+v++ ++dp++++itY g+H+++
  RrC5254_p2 141 EDKYAWRKYGQKEILNTKFPRSYFRCTHKptqGCKATKHVQKHEQDPDLFQITYIGHHTCN 201
                 79**************************9999***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.20.25.803.3E-26125201IPR003657WRKY domain
PROSITE profilePS5081121.425135203IPR003657WRKY domain
SuperFamilySSF1182901.18E-23136202IPR003657WRKY domain
SMARTSM007748.4E-36140202IPR003657WRKY domain
PfamPF031062.0E-24141200IPR003657WRKY domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009751Biological Processresponse to salicylic acid
GO:0031347Biological Processregulation of defense response
GO:1900056Biological Processnegative regulation of leaf senescence
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 336 aa     Download sequence    Send to blast
MDSNSNNTKS IKRKVVDQLV EGYEFATKLQ LLLSHQHSNH HIDHTRIVSC DPDPVGELIA  60
KILASFHKTI SVLDSCESLP MAVEGSLNAS CGDDLTAPAS CNGGDYVDSR KRLGAGKGKR  120
GCYTRKKRWH TWTVEARRID EDKYAWRKYG QKEILNTKFP RSYFRCTHKP TQGCKATKHV  180
QKHEQDPDLF QITYIGHHTC NVRDQTQENT EPFDHGVVMD SNNTLAATIA QDHVNADMQE  240
EEINISSLIV VGADMVKEED HNNGDQNKDY CEGSSANGDL SLVWQDMMML DDQQHHQNQY  300
YNGEANTGSH QFAFIDNDQL SSLFDSYCPY EGTSAI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5w3x_B4e-181391981474Disease resistance protein RRS1
5w3x_D4e-181391981474Disease resistance protein RRS1
6ir8_A3e-18141200968OsWRKY45
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1109127RKRLGAGKGKRGCYTRKKR
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). Together with WRKY70, negative regulator of developmental senescence, probably via the regulation of several senescence-associated markers genes (PubMed:22268143). Positive regulator of EDS1-dependent defense against E.amylovora (PubMed:22316300). In collaboration with WRKY70, prevents stomatal closure and, consequently, osmotic stress tolerance (PubMed:23815736). Together with WRKY46 and WRKY70, promotes brassinosteroid (BR)-regulated plant growth but prevent drought response by modulating gene expression (PubMed:28576847). Negative regulator of SA biosynthesis (PubMed:28837631). Prevents defense response to the necrotrophic pathogens P.carotovorum and B.cinerea, but promotes defense against biotrophic/hemibiotrophic pathogens P.syringae pv. tomato (Pst) DC3000, probably by regulating negatively the jasmonic acid (JA)/ethylene (ET) and positively the salicylic acid (SA) signaling pathways (PubMed:28837631). {ECO:0000250|UniProtKB:Q9SUP6, ECO:0000269|PubMed:22268143, ECO:0000269|PubMed:22316300, ECO:0000269|PubMed:23815736, ECO:0000269|PubMed:28576847, ECO:0000269|PubMed:28837631, ECO:0000303|PubMed:28837631}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by reactive oxygen species (ROS) and salicylic acid (SA) (PubMed:22268143). Early but transient accumulation after osmotic stress (e.g. polyethylene glycol, PEG) (PubMed:23815736). Up-regulated by E.amylovora (PubMed:22316300). {ECO:0000269|PubMed:22268143, ECO:0000269|PubMed:22316300, ECO:0000269|PubMed:23815736}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF4300621e-165KF430062.1 Brassica rapa WRKY transcription factor 54 (WRKY54) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018435157.10.0PREDICTED: probable WRKY transcription factor 54
SwissprotQ93WU81e-168WRK54_ARATH; Probable WRKY transcription factor 54
TrEMBLA0A3P5YP580.0A0A3P5YP58_BRACM; Uncharacterized protein
STRINGBra004586.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM113621631
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G40750.11e-147WRKY DNA-binding protein 54
Publications ? help Back to Top
  1. Wang Y,Joshi T,Zhang XS,Xu D,Chen L
    Inferring gene regulatory networks from multiple microarray datasets.
    Bioinformatics, 2006. 22(19): p. 2413-20
    [PMID:16864593]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Lee MH,Jeon HS,Kim HG,Park OK
    An Arabidopsis NAC transcription factor NAC4 promotes pathogen-induced cell death under negative regulation by microRNA164.
    New Phytol., 2017. 214(1): p. 343-360
    [PMID:28032643]
  4. Timmermann T, et al.
    Paraburkholderia phytofirmans PsJN Protects Arabidopsis thaliana Against a Virulent Strain of Pseudomonas syringae Through the Activation of Induced Resistance.
    Mol. Plant Microbe Interact., 2017. 30(3): p. 215-230
    [PMID:28118091]
  5. Chen J, et al.
    Arabidopsis WRKY46, WRKY54, and WRKY70 Transcription Factors Are Involved in Brassinosteroid-Regulated Plant Growth and Drought Responses.
    Plant Cell, 2017. 29(6): p. 1425-1439
    [PMID:28576847]
  6. Li J,Zhong R,Palva ET
    WRKY70 and its homolog WRKY54 negatively modulate the cell wall-associated defenses to necrotrophic pathogens in Arabidopsis.
    PLoS ONE, 2017. 12(8): p. e0183731
    [PMID:28837631]