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 RrC4903_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 WRKY
Protein Properties Length: 333aa    MW: 37702.6 Da    PI: 5.5123
Description WRKY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4903_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRKY85.55e-27145205259
                 --SS-EEEEEEE--TT-SS-EEEEEE-ST...T---EEEEEE-SSSTTEEEEEEES--SS- CS
        WRKY   2 dDgynWrKYGqKevkgsefprsYYrCtsa...gCpvkkkversaedpkvveitYegeHnhe 59 
                 +D y+WrKYGqKe+ +++fprsY+rCt++   gC+++k+v++ +++p++++itY g+H+++
  RrC4903_p1 145 EDMYAWRKYGQKEILNTKFPRSYFRCTHKptqGCKATKQVQKLEQNPEMFQITYIGHHTCN 205
                 79**************************9999***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.20.25.801.2E-26129205IPR003657WRKY domain
SuperFamilySSF1182905.49E-24138206IPR003657WRKY domain
PROSITE profilePS5081120.874139207IPR003657WRKY domain
SMARTSM007744.4E-37144206IPR003657WRKY domain
PfamPF031063.1E-25145204IPR003657WRKY 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: 333 aa     Download sequence    Send to blast
MNSYGNNTKA VKRIVVDNLV EGCEFTTQLQ LLFSHLHSNQ HMETGSLSSD SDLANELISK  60
ILGCFHKTMS VLDSFDPVPD VSFPVAVEGS RNASCGDDSA APASCNGGDS GDSRKRLGVG  120
KGKRGCYIRK KRSHTWTVQA KRIDEDMYAW RKYGQKEILN TKFPRSYFRC THKPTQGCKA  180
TKQVQKLEQN PEMFQITYIG HHTCNVSDQT QVKTEITMDS DNTLAATTSH QDHVNVNVQE  240
QENDVSSLIV DMVKQEENIN GDQIKDSCEG SSTDGDLSLV WQDEMMFDDY QHHQDHHYYR  300
GETSTTSHQF SFIDNDQLSL FDSYCPYEEM YAR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5w3x_B4e-19137202874Disease resistance protein RRS1
5w3x_D4e-19137202874Disease resistance protein RRS1
6ir8_A3e-19137204268OsWRKY45
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1113131RKRLGVGKGKRGCYIRKKR
2129133KKRSH
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018478078.10.0PREDICTED: probable WRKY transcription factor 54
SwissprotQ93WU81e-152WRK54_ARATH; Probable WRKY transcription factor 54
TrEMBLM4DKE50.0M4DKE5_BRARP; Uncharacterized protein
STRINGBra016974.1-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-129WRKY 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]