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

Rsa1.0_01112.1_g00020.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 313aa MW: 35180.4 Da PI: 8.8193

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01112.1_g00020.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	95.7	3.3e-30	178	236	1	58
---SS-EEEEEEE--TT-SS-EEEEEE-ST.T---EEEEEE-SSSTTEEEEEEES--SS CS WRKY 1 ldDgynWrKYGqKevkgsefprsYYrCtsa.gCpvkkkversaedpkvveitYegeHnh 58 ++Dgy+WrKYGqK+ ++++ pr+Y+rC++a +Cpvkkkv+rsaedp++++ tYeg+Hnh Rsa1.0_01112.1_g00020.1 178 VKDGYQWRKYGQKVTRDNPSPRAYFRCSFApSCPVKKKVQRSAEDPSILVATYEGTHNH 236 58*************************99************************** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.20.25.80	1.0E-28	171	237	IPR003657	WRKY domain
SuperFamily	SSF118290	3.92E-25	175	237	IPR003657	WRKY domain
SMART	SM00774	4.7E-34	178	238	IPR003657	WRKY domain
Pfam	PF03106	1.3E-24	179	236	IPR003657	WRKY domain
PROSITE profile	PS50811	25.97	180	239	IPR003657	WRKY domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0002237	Biological Process	response to molecule of bacterial origin
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009751	Biological Process	response to salicylic acid
GO:0010200	Biological Process	response to chitin
GO:0042742	Biological Process	defense response to bacterium
GO:0050691	Biological Process	regulation of defense response to virus by host
GO:0050832	Biological Process	defense response to fungus
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0042802	Molecular Function	identical protein binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 313 aa Download sequence Send to blast
MDCSSPLDIS LNLNTNPFDR SFPAKLPKEE IKVSTSAGVE RKWLVKDKSA SELREELNRV 60 NSENKKIKEM LATVYENYYA LHHHLEKLQS RKSPEIDHIE QPMKKTKQDP EEFLGFPNGL 120 SSGKTENSSS NQSHHYQQQH EQKNQLLFCK RPVTDSFNKA RVSTVYVPAD SSDTSLTVKD 180 GYQWRKYGQK VTRDNPSPRA YFRCSFAPSC PVKKKVQRSA EDPSILVATY EGTHNHLGPN 240 ASEGDATSQA GSSTVTLDMI HGGQKIGLEK NERRTMQEVL VQQMASSLTN DSNFTAALAT 300 AITGRLLMEQ SRT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj2_A	1e-19	180	236	19	74	Probable WRKY transcription factor 4
2ayd_A	8e-20	178	239	14	74	WRKY transcription factor 1
2lex_A	1e-19	180	236	19	74	Probable WRKY transcription factor 4
Search in ModeBase

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. Positively modulates defense-related gene expression and disease resistance. {ECO:0000269\|PubMed:12068113}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00465	DAP	Transfer from AT4G31800	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01112.1_g00020.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salicylic acid and pathogens. {ECO:0000269\|PubMed:11449049, ECO:0000269\|PubMed:12068113}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KF430067	0.0	KF430067.1 Brassica rapa WRKY transcription factor 60 (WRKY60) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018447976.1	0.0	PREDICTED: WRKY transcription factor 18-like
Swissprot	Q9C5T4	1e-174	WRK18_ARATH; WRKY transcription factor 18
TrEMBL	A0A0D3BLX2	0.0	A0A0D3BLX2_BRAOL; Uncharacterized protein
STRING	Bo3g173640.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6584	19	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G31800.1	1e-168	WRKY DNA-binding protein 18

Publications ? help Back to Top
Keates SE,Kostman TA,Anderson JD,Bailey BA Altered gene expression in three plant species in response to treatment with Nep1, a fungal protein that causes necrosis. Plant Physiol., 2003. 132(3): p. 1610-22 [PMID:12857840] Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Bülow L,Steffens NO,Galuschka C,Schindler M,Hehl R AthaMap: from in silico data to real transcription factor binding sites. In Silico Biol. (Gedrukt), 2006. 6(3): p. 243-52 [PMID:16922688] Deeken R, et al. Identification of Arabidopsis thaliana phloem RNAs provides a search criterion for phloem-based transcripts hidden in complex datasets of microarray experiments. Plant J., 2008. 55(5): p. 746-59 [PMID:18485061] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Zhang Y, et al. Regulation of oncogene expression in T-DNA-transformed host plant cells. PLoS Pathog., 2015. 11(1): p. e1004620 [PMID:25615824] Geilen K,Böhmer M Dynamic subnuclear relocalisation of WRKY40 in response to Abscisic acid in Arabidopsis thaliana. Sci Rep, 2015. 5: p. 13369 [PMID:26293691] Geilen K,Böhmer M Dynamic subnuclear relocalization of WRKY40, a potential new mechanism of ABA-dependent transcription factor regulation. Plant Signal Behav, 2015. 10(11): p. e1106659 [PMID:26479147] Lu K, et al. Overexpression of an Arabidopsis cysteine-rich receptor-like protein kinase, CRK5, enhances abscisic acid sensitivity and confers drought tolerance. J. Exp. Bot., 2016. 67(17): p. 5009-27 [PMID:27406784] Birkenbihl RP,Kracher B,Roccaro M,Somssich IE Induced Genome-Wide Binding of Three Arabidopsis WRKY Transcription Factors during Early MAMP-Triggered Immunity. Plant Cell, 2017. 29(1): p. 20-38 [PMID:28011690]