PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

RrC1546_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

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: 305aa MW: 33734.9 Da PI: 5.2975

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1546_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	40.7	4.6e-13	119	170	11	59
EEE--TT-SS-EEEEEE-ST...T---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 11 GqKevkgsefprsYYrCtsa...gCpvkkkversaedpkvveitYegeHnhe 59 G+K +g + +sY+rCt++ gC++ k+v+++++dp++++itY g+H+++ RrC1546_p1 119 GKKGKRGCYTRKSYFRCTHKptqGCKAIKQVQKQEHDPNLFQITYIGHHTCN 170 788889999999*****9999*************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03106	2.1E-12	119	169	IPR003657	WRKY domain
PROSITE profile	PS50811	12.782	119	172	IPR003657	WRKY domain
Gene3D	G3DSA:2.20.25.80	6.7E-13	119	170	IPR003657	WRKY domain
SuperFamily	SSF118290	1.57E-12	119	171	IPR003657	WRKY domain
SMART	SM00774	1.0E-9	119	171	IPR003657	WRKY domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 305 aa Download sequence Send to blast
MDSDSNNTKS IKRNAVEQLV EGYESATQLQ LLLSHQQSNH HMDQTRIVSG DPDLVNKLMA 60 KVLDSFQKTI PVLDSFDQVT SASVVVEGSR NASCGDDSAT PVTCNGGDSG DSRKRLGVGK 120 KGKRGCYTRK SYFRCTHKPT QGCKAIKQVQ KQEHDPNLFQ ITYIGHHTCN ASDGIQAKTE 180 PFDHGINMDS DNTLAATIDQ DHVNPYIQEQ ENDLSSLIAV GASMVKEEDN NNGDQNKDHC 240 EGSSTYSDLS LVWPDVMMVD DHQHHKNHYY HGEASTTSHQ FSFIDNDQLS SLFDSYCPYE 300 GASAI

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription 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
UniProt	INDUCTION: 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
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018474812.1	0.0	PREDICTED: probable WRKY transcription factor 54
Swissprot	Q93WU8	1e-140	WRK54_ARATH; Probable WRKY transcription factor 54
TrEMBL	A0A078HCF6	1e-170	A0A078HCF6_BRANA; BnaA03g19190D protein
TrEMBL	A0A397ZY21	1e-170	A0A397ZY21_BRACM; Uncharacterized protein
TrEMBL	M4C7M5	1e-170	M4C7M5_BRARP; Uncharacterized protein
STRING	Bra000203.1-P	1e-170	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11362	16	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40750.1	1e-123	WRKY DNA-binding protein 54

Publications ? help Back to Top
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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] 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] 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] 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]