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

AT4G23810.1

Common Name

ATWRKY53, F9D16.280, WRKY53

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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: 324aa MW: 36272.6 Da PI: 6.7965

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT4G23810.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	90.4	1.5e-28	158	218	2	59
--SS-EEEEEEE--TT-SS-EEEEEE-ST...T---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 2 dDgynWrKYGqKevkgsefprsYYrCtsa...gCpvkkkversaedpkvveitYegeHnhe 59 dD ++WrKYGqK++ g++fprsYYrCt++ +C+++k+v+rs+ d +v+e+tY+g+H+++ AT4G23810.1 158 DDVFSWRKYGQKDILGAKFPRSYYRCTHRstqNCWATKQVQRSDGDATVFEVTYRGTHTCS 218 8*************************9999*************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50811	20.954	152	215	IPR003657	WRKY domain
Gene3D	G3DSA:2.20.25.80	4.9E-27	154	219	IPR003657	WRKY domain
SuperFamily	SSF118290	1.15E-24	156	218	IPR003657	WRKY domain
SMART	SM00774	2.7E-38	157	219	IPR003657	WRKY domain
Pfam	PF03106	1.1E-25	158	217	IPR003657	WRKY domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009751	Biological Process	response to salicylic acid
GO:0009816	Biological Process	defense response to bacterium, incompatible interaction
GO:0010150	Biological Process	leaf senescence
GO:0010193	Biological Process	response to ozone
GO:0010200	Biological Process	response to chitin
GO:0031347	Biological Process	regulation of defense response
GO:0042542	Biological Process	response to hydrogen peroxide
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0009507	Cellular Component	chloroplast
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein 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: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:0025034	anatomy	leaf
PO:0001054	developmental stage	vascular leaf senescent 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: 324 aa Download sequence Send to blast
MEGRDMLSWE QKTLLSELIN GFDAAKKLQA RLREAPSPSS SFSSPATAVA ETNEILVKQI 60 VSSYERSLLL LNWSSSPSVQ LIPTPVTVVP VANPGSVPES PASINGSPRS EEFADGGGSS 120 ESHHRQDYIF NSKKRKMLPK WSEKVRISPE RGLEGPQDDV FSWRKYGQKD ILGAKFPRSY 180 YRCTHRSTQN CWATKQVQRS DGDATVFEVT YRGTHTCSQA ITRTPPLASP EKRQDTRVKP 240 AITQKPKDIL ESLKSNLTVR TDGLDDGKDV FSFPDTPPFY NYGTINGEFG HVESSPIFDV 300 VDWFNPTVEI DTTFPAFLHE SIYY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5w3x_B	1e-18	157	215	16	74	Disease resistance protein RRS1
5w3x_D	1e-18	157	215	16	74	Disease resistance protein RRS1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.2572	0.0	flower\| leaf\| root\| vegetative tissue

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145343836	0.0
Genevisible	254231_at	0.0
Expression Atlas	AT4G23810	-
AtGenExpress	AT4G23810	-
ATTED-II	AT4G23810	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Accumulates during developmental leaf senescence. {ECO:0000269\|PubMed:22268143}.

Functional Description ? help Back to Top
Source	Description
TAIR	member of WRKY Transcription Factor; Group III
UniProt	Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (PubMed:20409006). May regulate the early events of leaf senescence (PubMed:17369373, PubMed:20409006). Negatively regulates the expression of ESR/ESP (PubMed:20409006). Together with WRKY46 and WRKY70, promotes resistance to P.syringae, probably by enhancing salicylic acid (SA)- dependent genes. Contributes to the suppression of jasmonic acid (MeJA)-induced expression of PDF1.2 (PubMed:22325892). {ECO:0000269\|PubMed:17369373, ECO:0000269\|PubMed:20409006, ECO:0000269\|PubMed:22325892}.

Function -- GeneRIF ? help Back to Top
These results suggest that WRKY53 and ESR mediate negative crosstalk between pathogen resistance and senescence, which is most likely governed by the jasmonic acid and salicylic acid equilibrium. [PMID: 17369373] MEKK1 is a bifunctional protein: it binds to the promoter of the WRKY53 gene regulating the switch from a leaf age dependent to a plant age dependent expression [PMID: 17587183] WRKY53 and HSPRO2 appear to function downstream of salicylic acid and to be negatively regulated by signaling through jasmonic acid and ethylene. [PMID: 17977154] Heterochromatic silencing by histone methylation of WRKY53 controls leaf senescence. [PMID: 19143996] WRKY53 is ubiquitinated by UPL5 which regulates the WRKY53-mediated leaf senescence pathway. [PMID: 20409006] WRKY46, WRKY70, and WRKY53 positively regulate basal resistance to Pseudomonas syringae; and that they play overlapping and synergetic roles in plant basal defense. [PMID: 22325892] Data indicate that WRKY22 T-DNA insertion mutants wrky22-1 and wrky22-2 had lower disease resistance and lower induction of innate immunity markers, such as FLG22-INDUCED RECEPTOR-LIKE KINASE1 (FRK1) and WRKY53, after submergence. [PMID: 23897923] WHY1 was an upstream regulator of WRKY53 during leaf senescence. [PMID: 23922267] ATL31 plays a role in senescence together with the WRKY53 transcription factor. [PMID: 24399238] WRKY53 is a master regulator of age-induced leaf senescence. [PMID: 25395454] activated expression inhibits stomatal closure by reducing H2O2 content and facilitates stomatal opening by promoting starch degradation [PMID: 25861729] The findings provide strong support for the direct regulatory roles of TGA3 and WRKY53 in the salicylic acid (SA) and NPR1-dependent activation of a Caulimoviral promoter (CmYLCV). [PMID: 28913593]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT4G23810.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salicylic acid (SA) (PubMed:22268143, PubMed:22325892). Strong accumulation during leaf senescence (PubMed:22268143). Down-regulated by jasmonate. Triggered by P.syringae (PubMed:22325892). {ECO:0000269\|PubMed:11449049, ECO:0000269\|PubMed:11506370, ECO:0000269\|PubMed:17369373, ECO:0000269\|PubMed:22268143, ECO:0000269\|PubMed:22325892}.

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

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT4G23810 (R)

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT4G23810(R)

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT5G24110
IntAct	Search Q9SUP6

Phenotype -- Disruption Phenotype ? help Back to Top
Source	Description
UniProt	DISRUPTION PHENOTYPE: Retarded leaf senescence, but no effects on pathogen resistance. {ECO:0000269\|PubMed:17369373}.

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT4G23810

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF272748	0.0	AF272748.1 Arabidopsis thaliana WRKY DNA-binding protein 53 (WRKY53) mRNA, complete cds.
GenBank	AF370614	0.0	AF370614.1 Arabidopsis thaliana putative protein (F9D16.280) mRNA, complete cds.
GenBank	AK227938	0.0	AK227938.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-49-L02.
GenBank	BT033113	0.0	BT033113.1 Arabidopsis thaliana unknown protein (At4g23810) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_194112.1	0.0	WRKY family transcription factor
Swissprot	Q9SUP6	0.0	WRK53_ARATH; Probable WRKY transcription factor 53
TrEMBL	A0A178UV74	0.0	A0A178UV74_ARATH; WRKY53
STRING	AT4G23810.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1933	27	83
Representative plant	OGRP14	17	875

Link Out ? help Back to Top
Phytozome	AT4G23810.1
Entrez Gene	828481
iHOP	AT4G23810
wikigenes	AT4G23810

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] Yu D,Chen C,Chen Z Evidence for an important role of WRKY DNA binding proteins in the regulation of NPR1 gene expression. Plant Cell, 2001. 13(7): p. 1527-40 [PMID:11449049] Hinderhofer K,Zentgraf U Identification of a transcription factor specifically expressed at the onset of leaf senescence. Planta, 2001. 213(3): p. 469-73 [PMID:11506370] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Miao Y,Laun T,Zimmermann P,Zentgraf U Targets of the WRKY53 transcription factor and its role during leaf senescence in Arabidopsis. Plant Mol. Biol., 2004. 55(6): p. 853-67 [PMID:15604721] Wang D,Amornsiripanitch N,Dong X A genomic approach to identify regulatory nodes in the transcriptional network of systemic acquired resistance in plants. PLoS Pathog., 2006. 2(11): p. e123 [PMID:17096590] Popescu SC, et al. Differential binding of calmodulin-related proteins to their targets revealed through high-density Arabidopsis protein microarrays. Proc. Natl. Acad. Sci. U.S.A., 2007. 104(11): p. 4730-5 [PMID:17360592] Miao Y,Zentgraf U The antagonist function of Arabidopsis WRKY53 and ESR/ESP in leaf senescence is modulated by the jasmonic and salicylic acid equilibrium. Plant Cell, 2007. 19(3): p. 819-30 [PMID:17369373] Miao Y,Laun TM,Smykowski A,Zentgraf U Arabidopsis MEKK1 can take a short cut: it can directly interact with senescence-related WRKY53 transcription factor on the protein level and can bind to its promoter. Plant Mol. Biol., 2007. 65(1-2): p. 63-76 [PMID:17587183] Libault M,Wan J,Czechowski T,Udvardi M,Stacey G Identification of 118 Arabidopsis transcription factor and 30 ubiquitin-ligase genes responding to chitin, a plant-defense elicitor. Mol. Plant Microbe Interact., 2007. 20(8): p. 900-11 [PMID:17722694] Murray SL,Ingle RA,Petersen LN,Denby KJ Basal resistance against Pseudomonas syringae in Arabidopsis involves WRKY53 and a protein with homology to a nematode resistance protein. Mol. Plant Microbe Interact., 2007. 20(11): p. 1431-8 [PMID:17977154] Wei W,Zhang Y,Han L,Guan Z,Chai T A novel WRKY transcriptional factor from Thlaspi caerulescens negatively regulates the osmotic stress tolerance of transgenic tobacco. Plant Cell Rep., 2008. 27(4): p. 795-803 [PMID:18183400] Zybailov B, et al. Sorting signals, N-terminal modifications and abundance of the chloroplast proteome. PLoS ONE, 2008. 3(4): p. e1994 [PMID:18431481] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Kim CY,Bove J,Assmann SM Overexpression of wound-responsive RNA-binding proteins induces leaf senescence and hypersensitive-like cell death. New Phytol., 2008. 180(1): p. 57-70 [PMID:18705666] Miao Y,Smykowski A,Zentgraf U A novel upstream regulator of WRKY53 transcription during leaf senescence in Arabidopsis thaliana. Plant Biol (Stuttg), 2008. 10 Suppl 1: p. 110-20 [PMID:18721316] Balazadeh S,Parlitz S,Mueller-Roeber B,Meyer RC Natural developmental variations in leaf and plant senescence in Arabidopsis thaliana. Plant Biol (Stuttg), 2008. 10 Suppl 1: p. 136-47 [PMID:18721318] Ay N, et al. Epigenetic programming via histone methylation at WRKY53 controls leaf senescence in Arabidopsis thaliana. Plant J., 2009. 58(2): p. 333-46 [PMID:19143996] Zentgraf U,Laun T,Miao Y The complex regulation of WRKY53 during leaf senescence of Arabidopsis thaliana. Eur. J. Cell Biol., 2010 Feb-Mar. 89(2-3): p. 133-7 [PMID:20004496] Yamaguchi Y,Huffaker A,Bryan AC,Tax FE,Ryan CA PEPR2 is a second receptor for the Pep1 and Pep2 peptides and contributes to defense responses in Arabidopsis. Plant Cell, 2010. 22(2): p. 508-22 [PMID:20179141] Fischer-Kilbienski I, et al. Nuclear targeted AtS40 modulates senescence associated gene expression in Arabidopsis thaliana during natural development and in darkness. Plant Mol. Biol., 2010. 73(4-5): p. 379-90 [PMID:20238146] Miao Y,Zentgraf U A HECT E3 ubiquitin ligase negatively regulates Arabidopsis leaf senescence through degradation of the transcription factor WRKY53. Plant J., 2010. 63(2): p. 179-88 [PMID:20409006] Wan J,Zhang S,Stacey G Activation of a mitogen-activated protein kinase pathway in Arabidopsis by chitin. Mol. Plant Pathol., 2004. 5(2): p. 125-35 [PMID:20565589] Golisz A,Sugano M,Hiradate S,Fujii Y Microarray analysis of Arabidopsis plants in response to allelochemical L-DOPA. Planta, 2011. 233(2): p. 231-40 [PMID:20978802] Shang J, et al. A broad-spectrum, efficient and nontransgenic approach to control plant viruses by application of salicylic acid and jasmonic acid. Planta, 2011. 233(2): p. 299-308 [PMID:21046144] Zhou X,Jiang Y,Yu D WRKY22 transcription factor mediates dark-induced leaf senescence in Arabidopsis. Mol. Cells, 2011. 31(4): p. 303-13 [PMID:21359674] Luna E,Bruce TJ,Roberts MR,Flors V,Ton J Next-generation systemic acquired resistance. Plant Physiol., 2012. 158(2): p. 844-53 [PMID:22147520] Besseau S,Li J,Palva ET WRKY54 and WRKY70 co-operate as negative regulators of leaf senescence in Arabidopsis thaliana. J. Exp. Bot., 2012. 63(7): p. 2667-79 [PMID:22268143] Hu Y,Dong Q,Yu D Arabidopsis WRKY46 coordinates with WRKY70 and WRKY53 in basal resistance against pathogen Pseudomonas syringae. Plant Sci., 2012. 185-186: p. 288-97 [PMID:22325892] Vogelmann K, et al. Early senescence and cell death in Arabidopsis saul1 mutants involves the PAD4-dependent salicylic acid pathway. Plant Physiol., 2012. 159(4): p. 1477-87 [PMID:22706448] Singh P,Chien CC,Mishra S,Tsai CH,Zimmerli L The Arabidopsis LECTIN RECEPTOR KINASE-VI.2 is a functional protein kinase and is dispensable for basal resistance to Botrytis cinerea. Plant Signal Behav, 2013. 8(1): p. e22611 [PMID:23221759] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Reusche M, et al. Stabilization of cytokinin levels enhances Arabidopsis resistance against Verticillium longisporum. Mol. Plant Microbe Interact., 2013. 26(8): p. 850-60 [PMID:23594348] Koyama T, et al. A regulatory cascade involving class II ETHYLENE RESPONSE FACTOR transcriptional repressors operates in the progression of leaf senescence. Plant Physiol., 2013. 162(2): p. 991-1005 [PMID:23629833] Ramírez V,López A,Mauch-Mani B,Gil MJ,Vera P An extracellular subtilase switch for immune priming in Arabidopsis. PLoS Pathog., 2013. 9(6): p. e1003445 [PMID:23818851] Hsu FC, et al. Submergence confers immunity mediated by the WRKY22 transcription factor in Arabidopsis. Plant Cell, 2013. 25(7): p. 2699-713 [PMID:23897923] Miao Y,Jiang J,Ren Y,Zhao Z The single-stranded DNA-binding protein WHIRLY1 represses WRKY53 expression and delays leaf senescence in a developmental stage-dependent manner in Arabidopsis. Plant Physiol., 2013. 163(2): p. 746-56 [PMID:23922267] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Aoyama S, et al. Ubiquitin ligase ATL31 functions in leaf senescence in response to the balance between atmospheric CO2 and nitrogen availability in Arabidopsis. Plant Cell Physiol., 2014. 55(2): p. 293-305 [PMID:24399238] Singh V,Roy S,Singh D,Nandi AK Arabidopsis flowering locus D influences systemic-acquired-resistance- induced expression and histone modifications of WRKY genes. J. Biosci., 2014. 39(1): p. 119-26 [PMID:24499796] Xie Y, et al. REVOLUTA and WRKY53 connect early and late leaf development in Arabidopsis. Development, 2014. 141(24): p. 4772-83 [PMID:25395454] 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] Sun Y,Yu D Activated expression of AtWRKY53 negatively regulates drought tolerance by mediating stomatal movement. Plant Cell Rep., 2015. 34(8): p. 1295-306 [PMID:25861729] Zhang H, et al. Arabidopsis AtERF15 positively regulates immunity against Pseudomonas syringae pv. tomato DC3000 and Botrytis cinerea. Front Plant Sci, 2015. 6: p. 686 [PMID:26388886] Ramírez V,López A,Mauch-Mani B,Gil MJ,Vera P Correction: An Extracellular Subtilase Switch for Immune Priming in Arabidopsis. PLoS Pathog., 2016. 12(11): p. e1006003 [PMID:27806116] Chen X, et al. POWERDRESS interacts with HISTONE DEACETYLASE 9 to promote aging in Arabidopsis. Elife, 2017. [PMID:27873573] Nie P, et al. Induced Systemic Resistance against Botrytis cinerea by Bacillus cereus AR156 through a JA/ET- and NPR1-Dependent Signaling Pathway and Activates PAMP-Triggered Immunity in Arabidopsis. Front Plant Sci, 2017. 8: p. 238 [PMID:28293243] Ren Y,Li Y,Jiang Y,Wu B,Miao Y Phosphorylation of WHIRLY1 by CIPK14 Shifts Its Localization and Dual Functions in Arabidopsis. Mol Plant, 2017. 10(5): p. 749-763 [PMID:28412544] Sarkar S, et al. Interaction of Arabidopsis TGA3 and WRKY53 transcription factors on Cestrum yellow leaf curling virus (CmYLCV) promoter mediates salicylic acid-dependent gene expression in planta. Planta, 2018. 247(1): p. 181-199 [PMID:28913593] Crespo-Salvador Ó,Escamilla-Aguilar M,López-Cruz J,López-Rodas G,González-Bosch C Determination of histone epigenetic marks in Arabidopsis and tomato genes in the early response to Botrytis cinerea. Plant Cell Rep., 2018. 37(1): p. 153-166 [PMID:29119291] Yuan N, et al. STRESS INDUCED FACTOR 2, a Leucine-Rich Repeat Kinase Regulates Basal Plant Pathogen Defense. Plant Physiol., 2018. 176(4): p. 3062-3080 [PMID:29463771]