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

AT1G55600.1

Common Name

ATWRKY10, F20N2.3, MINI3, WRKY10

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: 485aa MW: 54551.7 Da PI: 4.0093

Description

WRKY DNA-binding protein 10

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G55600.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	96.8	1.5e-30	307	364	2	59
--SS-EEEEEEE--TT-SS-EEEEEE-STT---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 2 dDgynWrKYGqKevkgsefprsYYrCtsagCpvkkkversaedpkvveitYegeHnhe 59 +Dgy+WrKYGqK+vkg+++prsY++Ct +C+vkk+ver a++ k+v++tY g Hnh+ AT1G55600.1 307 NDGYRWRKYGQKVVKGNPNPRSYFKCTNIECRVKKHVERGADNIKLVVTTYDGIHNHP 364 7********************************************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.20.25.80	1.8E-30	291	366	IPR003657	WRKY domain
SuperFamily	SSF118290	7.59E-26	301	366	IPR003657	WRKY domain
PROSITE profile	PS50811	31.582	301	366	IPR003657	WRKY domain
SMART	SM00774	2.3E-34	306	365	IPR003657	WRKY domain
Pfam	PF03106	5.8E-23	307	364	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:0009960	Biological Process	endosperm development
GO:0005634	Cellular Component	nucleus
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:0000198	anatomy	free nuclear endosperm
PO:0009001	anatomy	fruit
PO:0025281	anatomy	pollen
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage

Sequence ? help Back to Top
Protein Sequence Length: 485 aa Download sequence Send to blast
MSDFDENFIE MTSYWAPPSS PSPRTILAML EQTDNGLNPI SEIFPQESLP RDHTDQSGQR 60 SGLRERLAAR VGFNLPTLNT EENMSPLDAF FRSSNVPNSP VVAISPGFSP SALLHTPNMV 120 SDSSQIIPPS SATNYGPLEM VETSGEDNAA MMMFNNDLPY QPYNVDLPSL EVFDDIATEE 180 SFYIPSYEPH VDPIGTPLVT SFESELVDDA HTDIISIEDS ESEDGNKDDD DEDFQYEDED 240 EDQYDQDQDV DEDEEEEKDE DNVALDDPQP PPPKRRRYEV SNMIGATRTS KTQRIILQME 300 SDEDNPNDGY RWRKYGQKVV KGNPNPRSYF KCTNIECRVK KHVERGADNI KLVVTTYDGI 360 HNHPSPPARR SNSSSRNRSA GATIPQNQND RTSRLGRAPP TPTPPTPPPS SYTPEEMRPF 420 SSLATEIDLT EVYMTGISML PNIPVYENSG FMYQNDEPTM NAMPDGSDVY DGIMERLYFK 480 FGVDM

Sequence ? help Back to Top

Protein Sequence Length: 485 aa Download sequence Send to blast

MSDFDENFIE MTSYWAPPSS PSPRTILAML EQTDNGLNPI SEIFPQESLP RDHTDQSGQR  60
SGLRERLAAR VGFNLPTLNT EENMSPLDAF FRSSNVPNSP VVAISPGFSP SALLHTPNMV  120
SDSSQIIPPS SATNYGPLEM VETSGEDNAA MMMFNNDLPY QPYNVDLPSL EVFDDIATEE  180
SFYIPSYEPH VDPIGTPLVT SFESELVDDA HTDIISIEDS ESEDGNKDDD DEDFQYEDED  240
EDQYDQDQDV DEDEEEEKDE DNVALDDPQP PPPKRRRYEV SNMIGATRTS KTQRIILQME  300
SDEDNPNDGY RWRKYGQKVV KGNPNPRSYF KCTNIECRVK KHVERGADNI KLVVTTYDGI  360
HNHPSPPARR SNSSSRNRSA GATIPQNQND RTSRLGRAPP TPTPPTPPPS SYTPEEMRPF  420
SSLATEIDLT EVYMTGISML PNIPVYENSG FMYQNDEPTM NAMPDGSDVY DGIMERLYFK  480
FGVDM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj2_A	3e-23	297	366	8	77	Probable WRKY transcription factor 4
2lex_A	3e-23	297	366	8	77	Probable WRKY transcription factor 4
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145336794	0.0
Genevisible	264538_at	0.0
Expression Atlas	AT1G55600	-
AtGenExpress	AT1G55600	-
ATTED-II	AT1G55600	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the endosperm of embryo from the two nuclei stage to the late globular embryo stage, including the endosperm cellularization time. {ECO:0000269\|PubMed:16293693}.
Uniprot	TISSUE SPECIFICITY: Expressed in male gametophytes (pollen) and in the endosperm of fertilized ovules. {ECO:0000269\|PubMed:16293693}.

Functional Description ? help Back to Top
Source	Description
TAIR	member of WRKY Transcription Factor; Group I. It has WRKY domain at its N terminal end and zinc-finger like motif.
UniProt	Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (By similarity). Modulates seed size by negatively regulating the cellularization of syncytial endosperm (PubMed:16293693). {ECO:0000250\|UniProtKB:Q9SI37, ECO:0000269\|PubMed:16293693}.

Function -- GeneRIF ? help Back to Top
The recruitment of SHB1 by MINI3 to its own and IKU2 promoters represents a novel two-step amplification to counter the low expression level of IKU2, which is a trigger for endosperm proliferation and seed cavity enlargement [PMID: 23505389]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G55600.1

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	AT3G19700(A)

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G55600

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY071851	0.0	AY071851.1 Arabidopsis thaliana WRKY transcription factor 10 (WRKY10) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_175956.1	0.0	WRKY DNA-binding protein 10
Swissprot	Q9LG05	0.0	WRK10_ARATH; Probable WRKY transcription factor 10
TrEMBL	A0MEC9	0.0	A0MEC9_ARATH; Uncharacterized protein (Fragment)
STRING	AT1G55600.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10299	17	33
Representative plant	OGRP14	17	875

Link Out ? help Back to Top
Phytozome	AT1G55600.1
Entrez Gene	842009
iHOP	AT1G55600
wikigenes	AT1G55600

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] Rossberg M, et al. Comparative sequence analysis reveals extensive microcolinearity in the lateral suppressor regions of the tomato, Arabidopsis, and Capsella genomes. Plant Cell, 2001. 13(4): p. 979-88 [PMID:11283350] Garcia D, et al. Arabidopsis haiku mutants reveal new controls of seed size by endosperm. Plant Physiol., 2003. 131(4): p. 1661-70 [PMID:12692325] Adai A, et al. Computational prediction of miRNAs in Arabidopsis thaliana. Genome Res., 2005. 15(1): p. 78-91 [PMID:15632092] Luo M,Dennis ES,Berger F,Peacock WJ,Chaudhury A MINISEED3 (MINI3), a WRKY family gene, and HAIKU2 (IKU2), a leucine-rich repeat (LRR) KINASE gene, are regulators of seed size in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2005. 102(48): p. 17531-6 [PMID:16293693] Sundaresan V Control of seed size in plants. Proc. Natl. Acad. Sci. U.S.A., 2005. 102(50): p. 17887-8 [PMID:16330781] Maher C,Stein L,Ware D Evolution of Arabidopsis microRNA families through duplication events. Genome Res., 2006. 16(4): p. 510-9 [PMID:16520461] Underwood BA,Vanderhaeghen R,Whitford R,Town CD,Hilson P Simultaneous high-throughput recombinational cloning of open reading frames in closed and open configurations. Plant Biotechnol. J., 2006. 4(3): p. 317-24 [PMID:17147637] Ungru A, et al. Natural variation in the degree of autonomous endosperm formation reveals independence and constraints of embryo growth during seed development in Arabidopsis thaliana. Genetics, 2008. 179(2): p. 829-41 [PMID:18505878] Zhou Y, et al. SHORT HYPOCOTYL UNDER BLUE1 associates with MINISEED3 and HAIKU2 promoters in vivo to regulate Arabidopsis seed development. Plant Cell, 2009. 21(1): p. 106-17 [PMID:19141706] Linkies A,Graeber K,Knight C,Leubner-Metzger G The evolution of seeds. New Phytol., 2010. 186(4): p. 817-31 [PMID:20406407] Wang A, et al. The VQ motif protein IKU1 regulates endosperm growth and seed size in Arabidopsis. Plant J., 2010. 63(4): p. 670-9 [PMID:20545893] Matias-Hernandez L, et al. VERDANDI is a direct target of the MADS domain ovule identity complex and affects embryo sac differentiation in Arabidopsis. Plant Cell, 2010. 22(6): p. 1702-15 [PMID:20581305] MEDIATOR25 acts as an integrative hub for the regulation of jasmonate-responsive gene expression in Arabidopsis. Plant Physiol., 2012. 160(1): p. 541-55 [PMID:22822211] Ngo QA, et al. The Armadillo repeat gene ZAK IXIK promotes Arabidopsis early embryo and endosperm development through a distinctive gametophytic maternal effect. Plant Cell, 2012. 24(10): p. 4026-43 [PMID:23064319] Kang X,Li W,Zhou Y,Ni M A WRKY transcription factor recruits the SYG1-like protein SHB1 to activate gene expression and seed cavity enlargement. PLoS Genet., 2013. 9(3): p. e1003347 [PMID:23505389] Jiang WB, et al. Brassinosteroid regulates seed size and shape in Arabidopsis. Plant Physiol., 2013. 162(4): p. 1965-77 [PMID:23771896] Li J,Nie X,Tan JL,Berger F Integration of epigenetic and genetic controls of seed size by cytokinin in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2013. 110(38): p. 15479-84 [PMID:24003120] Fatihi A,Zbierzak AM,Dörmann P Alterations in seed development gene expression affect size and oil content of Arabidopsis seeds. Plant Physiol., 2013. 163(2): p. 973-85 [PMID:24014578] Liu P, et al. Arabidopsis RAN1 mediates seed development through its parental ratio by affecting the onset of endosperm cellularization. Mol Plant, 2014. 7(8): p. 1316-1328 [PMID:24719465] 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] Xiao YG,Sun QB,Kang XJ,Chen CB,Ni M SHORT HYPOCOTYL UNDER BLUE1 or HAIKU2 mixepression alters canola and Arabidopsis seed development. New Phytol., 2016. 209(2): p. 636-49 [PMID:26389843] Meng LS,Wang YB,Loake GJ,Jiang JH Seed Embryo Development Is Regulated via an AN3-MINI3 Gene Cascade. Front Plant Sci, 2016. 7: p. 1645 [PMID:27857719] Meng LS,Wang YB,Loake GJ,Jiang JH Corrigendum: Seed Embryo Development Is Regulated via an AN3-MINI3 Gene Cascade. Front Plant Sci, 2017. 8: p. 1073 [PMID:28616014]