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

RrC984_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: 144aa MW: 16000 Da PI: 9.1546

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC984_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	97.5	8.7e-31	10	68	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+v++ tYeg+Hnh RrC984_p1 10 VKDGYQWRKYGQKVTRDNPSPRAYFRCSFApSCPVKKKVQRSAEDPSVLVATYEGTHNH 68 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	3.8E-29	7	69	IPR003657	WRKY domain
SuperFamily	SSF118290	1.7E-25	9	69	IPR003657	WRKY domain
SMART	SM00774	4.7E-34	10	70	IPR003657	WRKY domain
Pfam	PF03106	2.9E-25	11	68	IPR003657	WRKY domain
PROSITE profile	PS50811	25.993	12	71	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: 144 aa Download sequence Send to blast
MEAEELNRTV KDGYQWRKYG QKVTRDNPSP RAYFRCSFAP SCPVKKKVQR SAEDPSVLVA 60 TYEGTHNHLG PNASEGDATS QVGSRTVTLD MIHGGHRLAL EKNERETMQE VLVQQMASSL 120 TKDSRFTAAL AAAISGRLME QSRT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2ayd_A	6e-22	1	71	5	74	WRKY transcription factor 1
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}.

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KF430037	1e-169	KF430037.1 Brassica rapa WRKY transcription factor 18 (WRKY18) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018448619.1	2e-98	PREDICTED: WRKY transcription factor 18-like
Refseq	XP_018448759.1	2e-98	PREDICTED: WRKY transcription factor 18-like
Swissprot	Q9C5T4	4e-90	WRK18_ARATH; WRKY transcription factor 18
TrEMBL	A0A398AQV2	7e-95	A0A398AQV2_BRACM; Uncharacterized protein
TrEMBL	A0A3N6RAY4	2e-95	A0A3N6RAY4_BRACR; Uncharacterized protein
TrEMBL	M4D495	6e-95	M4D495_BRARP; Uncharacterized protein
TrEMBL	V5RH02	7e-95	V5RH02_BRACM; WRKY transcription factor 18
STRING	Bra011299.1-P	1e-95	(Brassica rapa)

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	2e-92	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]