PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

WRKY

Protein Properties

Length: 330aa MW: 36718.7 Da PI: 9.7777

Description

WRKY DNA-binding protein 39

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G04670.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	97.6	8e-31	263	320	3	59
-SS-EEEEEEE--TT-SS-EEEEEE-ST.T---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 3 DgynWrKYGqKevkgsefprsYYrCtsa.gCpvkkkversaedpkvveitYegeHnhe 59 D+y+WrKYGqK++kgs++pr+YY+C+s gCp++k+ver+ ++++++++tYegeHnh+ AT3G04670.1 263 DEYSWRKYGQKPIKGSPHPRGYYKCSSVrGCPARKHVERCIDETSMLIVTYEGEHNHS 320 9***********************988**************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF10533	1.2E-15	222	259	IPR018872	Zn-cluster domain
Gene3D	G3DSA:2.20.25.80	4.9E-33	249	320	IPR003657	WRKY domain
PROSITE profile	PS50811	29.356	256	322	IPR003657	WRKY domain
SuperFamily	SSF118290	1.57E-26	259	320	IPR003657	WRKY domain
SMART	SM00774	4.6E-37	261	321	IPR003657	WRKY domain
Pfam	PF03106	1.4E-26	263	319	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:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005516	Molecular Function	calmodulin binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 330 aa Download sequence Send to blast
MEEVEAANRS AIESCHGVLN LLSQRTSDPK SLTVETGEVV SKFKRVASLL TRGLGHGKFR 60 STNKFRSSFP QHIFLESPIC CGNDLSGDYT QVLAPEPLQM VPASAVYNEM EPKHQLGHPS 120 LMLSHKMCVD KSFLELKPPP FRAPYQLIHN HQQIAYSRSN SGVNLKFDGS GSSCYTPSVS 180 NGSRSFVSSL SMDASVTDYD RNSFHLTGLS RGSDQQHTRK MCSGSLKCGS RSKCHCSKKR 240 KLRVKRSIKV PAISNKIADI PPDEYSWRKY GQKPIKGSPH PRGYYKCSSV RGCPARKHVE 300 RCIDETSMLI VTYEGEHNHS RILSSQSAHT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2ayd_A	3e-20	254	319	7	71	WRKY transcription factor 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.18563	0.0	flower\| root\| silique

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	258803_at	0.0
Expression Atlas	AT3G04670	-
AtGenExpress	AT3G04670	-
ATTED-II	AT3G04670	-

Functional Description ? help Back to Top
Source	Description
TAIR	member of WRKY Transcription Factor; Group II-d
UniProt	Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (By similarity). {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G04670.1

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

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT2G14610(A), AT3G24500(A)

Regulation -- Hormone ? help Back to Top
Source	Hormone
AHD	salicylic acid

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G04670

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY053420	0.0	AY053420.1 Arabidopsis thaliana AT3g04670/F7O18_30 mRNA, complete cds.
GenBank	AY133586	0.0	AY133586.1 Arabidopsis thaliana AT3g04670/F7O18_30 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_566236.1	0.0	WRKY DNA-binding protein 39
Swissprot	Q9SR07	0.0	WRK39_ARATH; Probable WRKY transcription factor 39
TrEMBL	A0A178V8X7	0.0	A0A178V8X7_ARATH; WRKY39
STRING	AT3G04670.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3885	23	59
Representative plant	OGRP1817	15	41

Link Out ? help Back to Top
Phytozome	AT3G04670.1
Entrez Gene	819625
iHOP	AT3G04670
wikigenes	AT3G04670

Publications ? help Back to Top
Eulgem T,Rushton PJ,Robatzek S,Somssich IE The WRKY superfamily of plant transcription factors. Trends Plant Sci., 2000. 5(5): p. 199-206 [PMID:10785665] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Hass C, et al. The response regulator 2 mediates ethylene signalling and hormone signal integration in Arabidopsis. EMBO J., 2004. 23(16): p. 3290-302 [PMID:15282545] Park CY, et al. WRKY group IId transcription factors interact with calmodulin. FEBS Lett., 2005. 579(6): p. 1545-50 [PMID:15733871] Vanderauwera S, et al. Genome-wide analysis of hydrogen peroxide-regulated gene expression in Arabidopsis reveals a high light-induced transcriptional cluster involved in anthocyanin biosynthesis. Plant Physiol., 2005. 139(2): p. 806-21 [PMID:16183842] 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] Journot-Catalino N,Somssich IE,Roby D,Kroj T The transcription factors WRKY11 and WRKY17 act as negative regulators of basal resistance in Arabidopsis thaliana. Plant Cell, 2006. 18(11): p. 3289-302 [PMID:17114354] Laubinger S, et al. Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2008. 105(25): p. 8795-800 [PMID:18550839] Li S,Zhou X,Chen L,Huang W,Yu D Functional characterization of Arabidopsis thaliana WRKY39 in heat stress. Mol. Cells, 2010. 29(5): p. 475-83 [PMID:20396965] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178]