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

Sobic.003G000600.2.p

Common Name

Sb03g000240, SORBIDRAFT_03g000240

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

WRKY

Protein Properties

Length: 435aa MW: 45349.6 Da PI: 9.0545

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.003G000600.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	97.6	8.1e-31	149	207	2	59
--SS-EEEEEEE--TT-SS-EEEEEE-ST.T---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 2 dDgynWrKYGqKevkgsefprsYYrCtsa.gCpvkkkversaedpkvveitYegeHnhe 59 Dg++WrKYGqK+ kg+++pr+YYrCt+a gCpv+k+v+r+a+d +++++tYeg+Hnh+ Sobic.003G000600.2.p 149 ADGCQWRKYGQKMAKGNPCPRAYYRCTMAnGCPVRKQVQRCADDRSILITTYEGTHNHP 207 7*************************999*************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.20.25.80	5.0E-34	133	209	IPR003657	WRKY domain
SuperFamily	SSF118290	3.27E-28	141	209	IPR003657	WRKY domain
PROSITE profile	PS50811	29.551	143	209	IPR003657	WRKY domain
SMART	SM00774	5.4E-37	148	208	IPR003657	WRKY domain
Pfam	PF03106	1.2E-27	150	207	IPR003657	WRKY domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010200	Biological Process	response to chitin
GO:0016036	Biological Process	cellular response to phosphate starvation
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0080169	Biological Process	cellular response to boron-containing substance deprivation
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 435 aa Download sequence Send to blast
MQAELARMND ENQRLRGMLT QVTSSYQALQ MHLVALMQAR AGGQAQLMLP PVAQALPPTT 60 DGAAAAVMPL PRQFLGLGPA AAAEETSNSS TEVGSPRRSS STGGNRRAER GDSPDASTRQ 120 QQVAQQQQEA SMRKARVSVR ARSEAPIIAD GCQWRKYGQK MAKGNPCPRA YYRCTMANGC 180 PVRKQVQRCA DDRSILITTY EGTHNHPLPP AAMAMASTTS AAASMLLSGS MPSGDMMTSN 240 FLARAVLPCS SSMATISASA PFPTVTLDLT HGPPAAARPQ PHFQVPLPPH QQVQQQHHHL 300 QAAALYNAHQ SSSKFSGLHM SSSSTSDNNN NVGTSSRAAV AAADAPPHMD TVTAAAAAIT 360 ADPNFTVALA AAITSIIGGG GGHPIPIAIH HGQGQGQEQG QQQAPTSNSN ANNNNNAVVT 420 SSSNNTATSN SETQ*

Sequence ? help Back to Top

Protein Sequence Length: 435 aa Download sequence Send to blast

MQAELARMND ENQRLRGMLT QVTSSYQALQ MHLVALMQAR AGGQAQLMLP PVAQALPPTT  60
DGAAAAVMPL PRQFLGLGPA AAAEETSNSS TEVGSPRRSS STGGNRRAER GDSPDASTRQ  120
QQVAQQQQEA SMRKARVSVR ARSEAPIIAD GCQWRKYGQK MAKGNPCPRA YYRCTMANGC  180
PVRKQVQRCA DDRSILITTY EGTHNHPLPP AAMAMASTTS AAASMLLSGS MPSGDMMTSN  240
FLARAVLPCS SSMATISASA PFPTVTLDLT HGPPAAARPQ PHFQVPLPPH QQVQQQHHHL  300
QAAALYNAHQ SSSKFSGLHM SSSSTSDNNN NVGTSSRAAV AAADAPPHMD TVTAAAAAIT  360
ADPNFTVALA AAITSIIGGG GGHPIPIAIH HGQGQGQEQG QQQAPTSNSN ANNNNNAVVT  420
SSSNNTATSN SETQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2ayd_A	3e-22	135	211	1	76	WRKY transcription factor 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.19928	0.0	root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Roots, leaves, shoots, flowers and siliques.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the control of processes related to senescence and pathogen defense (PubMed:12000796). Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element (PubMed:12000796). Activates the transcription of the SIRK gene and represses its own expression and that of the WRKY42 genes (PubMed:12000796). Modulates phosphate homeostasis and Pi translocation by regulating PHO1 expression (PubMed:25733771). {ECO:0000269\|PubMed:12000796, ECO:0000269\|PubMed:25733771}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00209	DAP	Transfer from AT1G62300	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.003G000600.2.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salicylic acid, ethylene, jasmonic acid, pathogens, wounding and strongly during leaf senescence. {ECO:0000269\|PubMed:11449049, ECO:0000269\|PubMed:11722756}.

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	BT085752	0.0	BT085752.2 Zea mays full-length cDNA clone ZM_BFc0057C03 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002457035.1	0.0	WRKY transcription factor 6 isoform X1
Refseq	XP_021313642.1	0.0	WRKY transcription factor 6 isoform X2
Swissprot	Q9C519	1e-110	WRKY6_ARATH; WRKY transcription factor 6
TrEMBL	C5XJG7	0.0	C5XJG7_SORBI; Uncharacterized protein
STRING	Sb03g000240.1	0.0	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G62300.1	6e-81	WRKY family protein

Link Out ? help Back to Top
Phytozome	Sobic.003G000600.2.p
Entrez Gene	8078066

Publications ? help Back to Top
Zhou F, et al. High humidity suppresses ssi4-mediated cell death and disease resistance upstream of MAP kinase activation, H2O2 production and defense gene expression. Plant J., 2004. 39(6): p. 920-32 [PMID:15341634] 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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] Ali MA,Wieczorek K,Kreil DP,Bohlmann H The beet cyst nematode Heterodera schachtii modulates the expression of WRKY transcription factors in syncytia to favour its development in Arabidopsis roots. PLoS ONE, 2014. 9(7): p. e102360 [PMID:25033038] Chai J,Liu J,Zhou J,Xing D Mitogen-activated protein kinase 6 regulates NPR1 gene expression and activation during leaf senescence induced by salicylic acid. J. Exp. Bot., 2014. 65(22): p. 6513-28 [PMID:25210078] Vermeirssen V,De Clercq I,Van Parys T,Van Breusegem F,Van de Peer Y Arabidopsis ensemble reverse-engineered gene regulatory network discloses interconnected transcription factors in oxidative stress. Plant Cell, 2014. 26(12): p. 4656-79 [PMID:25549671] Xiao D, et al. SENESCENCE-SUPPRESSED PROTEIN PHOSPHATASE Directly Interacts with the Cytoplasmic Domain of SENESCENCE-ASSOCIATED RECEPTOR-LIKE KINASE and Negatively Regulates Leaf Senescence in Arabidopsis. Plant Physiol., 2015. 169(2): p. 1275-91 [PMID:26304848] Bakshi M, et al. WRKY6 restricts Piriformospora indica-stimulated and phosphate-induced root development in Arabidopsis. BMC Plant Biol., 2015. 15: p. 305 [PMID:26718529] Huang Y,Feng CZ,Ye Q,Wu WH,Chen YF Arabidopsis WRKY6 Transcription Factor Acts as a Positive Regulator of Abscisic Acid Signaling during Seed Germination and Early Seedling Development. PLoS Genet., 2016. 12(2): p. e1005833 [PMID:26829043] 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] Li H, et al. BZR1 Positively Regulates Freezing Tolerance via CBF-Dependent and CBF-Independent Pathways in Arabidopsis. Mol Plant, 2017. 10(4): p. 545-559 [PMID:28089951] Stetter MG,Benz M,Ludewig U Increased root hair density by loss of WRKY6 in Arabidopsis thaliana. PeerJ, 2017. 5: p. e2891 [PMID:28149680] Zhou X, et al. StMYB44 negatively regulates phosphate transport by suppressing expression of PHOSPHATE1 in potato. J. Exp. Bot., 2017. 68(5): p. 1265-1281 [PMID:28338870] Bakshi M, et al. Piriformospora indica Reprograms Gene Expression in Arabidopsis Phosphate Metabolism Mutants But Does Not Compensate for Phosphate Limitation. Front Microbiol, 2017. 8: p. 1262 [PMID:28747898] Zhang Y, et al. DELLA proteins negatively regulate dark-induced senescence and chlorophyll degradation in Arabidopsis through interaction with the transcription factor WRKY6. Plant Cell Rep., 2018. 37(7): p. 981-992 [PMID:29574486]