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.002G202800.1.p

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: 296aa MW: 31772.5 Da PI: 7.236

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G202800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	92.8	2.6e-29	119	177	2	59
--SS-EEEEEEE--TT-SS-EEEEEE-ST.T---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 2 dDgynWrKYGqKevkgsefprsYYrCtsa.gCpvkkkversaedpkvveitYegeHnhe 59 +Dgy+WrKYGqK+ +++++pr+Y+rC++a +Cpvkkkv+rsa+d+ +++ tYegeHnhe Sobic.002G202800.1.p 119 KDGYHWRKYGQKVTRDNPYPRAYFRCAYApSCPVKKKVQRSADDNLMLVATYEGEHNHE 177 8*************************99**************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50811	26.418	113	179	IPR003657	WRKY domain
Gene3D	G3DSA:2.20.25.80	2.1E-28	113	178	IPR003657	WRKY domain
SuperFamily	SSF118290	1.96E-25	114	178	IPR003657	WRKY domain
SMART	SM00774	3.5E-35	118	178	IPR003657	WRKY domain
Pfam	PF03106	1.3E-24	119	177	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:0009620	Biological Process	response to fungus
GO:0009751	Biological Process	response to salicylic acid
GO:0010200	Biological Process	response to chitin
GO:1900425	Biological Process	negative regulation of defense response to bacterium
GO:0005634	Cellular Component	nucleus
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: 296 aa Download sequence Send to blast
MAMDSTNGEC SSPTASAVGL LPLFGSSRPP PQAESLEEKL RRVSEENRRL APALDAILSA 60 DRSNHPRALA TSPPAQQQGN AALTTQAATG VVVTAEPRHK VRTVRARAEP ADADANHLKD 120 GYHWRKYGQK VTRDNPYPRA YFRCAYAPSC PVKKKVQRSA DDNLMLVATY EGEHNHEQHA 180 QSEYSYINDA STTSQQQQPQ AGGSSSSTLP CSIISINSLG RTITLGLADQ RRPGSSSNAE 240 AAAVVVGEIV TPELRKVLVD ELASLLKNDP EFIESLATAV ADRVMERIPA AGHIL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj2_A	4e-20	118	177	17	75	Probable WRKY transcription factor 4
2ayd_A	4e-20	118	177	14	72	WRKY transcription factor 1
2lex_A	4e-20	118	177	17	75	Probable WRKY transcription factor 4
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.15923	3e-53	leaf\| root

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription repressor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Regulates, probably indirectly, the activation of defense-related genes during defense response (By similarity). Regulates negatively basal innate immunity and XA21-mediated defense against X.oryzae pv. oryzae (Xoo) (By similarity). {ECO:0000250\|UniProtKB:Q6EPZ0, ECO:0000250\|UniProtKB:Q6QHD1}.
UniProt	Transcription repressor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Regulates, probably indirectly, the activation of defense-related genes during defense response (By similarity). Regulates negatively basal innate immunity and XA21-mediated defense against X.oryzae pv. oryzae (Xoo) (PubMed:19825552, PubMed:21961049). {ECO:0000250\|UniProtKB:Q6QHD1, ECO:0000269\|PubMed:19825552, ECO:0000269\|PubMed:21961049}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G202800.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Might be activated by XA21 in the nucleus upon pathogen infection (PubMed:19825552). Induced by biotic elicitors (e.g. fungal chitin oligosaccharide) (PubMed:23462973). Induced by pathogen infection (e.g. M.grisea and X.oryzae pv. oryzae (Xoo)) (PubMed:16528562, PubMed:24093634). Accumulates after treatment with benzothiadiazole (BTH) and salicylic acid (SA) (PubMed:17601827, PubMed:16528562, PubMed:24093634). Transactivated by WRKY45 (PubMed:24093634). {ECO:0000269\|PubMed:16528562, ECO:0000269\|PubMed:17601827, ECO:0000269\|PubMed:23462973, ECO:0000269\|PubMed:24093634, ECO:0000303\|PubMed:19825552}.
UniProt	INDUCTION: Might be activated by XA21 in the nucleus upon pathogen infection (PubMed:20118235). Induced by biotic elicitors (e.g. fungal chitin oligosaccharide) (By similarity). Induced by pathogen infection (e.g. M.grisea and X.oryzae pv. oryzae (Xoo)). Accumulates after treatment with benzothiadiazole (BTH) and salicylic acid (SA) (PubMed:16528562). Transactivated by WRKY45 (By similarity). {ECO:0000250\|UniProtKB:Q6EPZ0, ECO:0000269\|PubMed:16528562, ECO:0000303\|PubMed:20118235}.

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	EU956089	5e-88	EU956089.1 Zea mays clone 1557298 WRKY62 - superfamily of TFs having WRKY and zinc finger domains mRNA, complete cds.
GenBank	KJ728199	5e-88	KJ728199.1 Zea mays clone pUT6474 WRKY transcription factor (WRKY104) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002462385.2	0.0	WRKY transcription factor WRKY62 isoform X1
Swissprot	B8BF91	2e-83	WRK62_ORYSI; WRKY transcription factor WRKY62
Swissprot	Q6EPZ0	2e-83	WRK62_ORYSJ; WRKY transcription factor WRKY62
TrEMBL	A0A1B6QCJ1	0.0	A0A1B6QCJ1_SORBI; Uncharacterized protein
STRING	Sb02g024765.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12921	28	34
Representative plant	OGRP14	17	875

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G80840.1	5e-35	WRKY DNA-binding protein 40

Link Out ? help Back to Top
Phytozome	Sobic.002G202800.1.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Zhang Y,Wang L The WRKY transcription factor superfamily: its origin in eukaryotes and expansion in plants. BMC Evol. Biol., 2005. 5: p. 1 [PMID:15629062] Wu KL,Guo ZJ,Wang HH,Li J The WRKY family of transcription factors in rice and Arabidopsis and their origins. DNA Res., 2005. 12(1): p. 9-26 [PMID:16106749] Chen X, et al. A conserved threonine residue in the juxtamembrane domain of the XA21 pattern recognition receptor is critical for kinase autophosphorylation and XA21-mediated immunity. J. Biol. Chem., 2010. 285(14): p. 10454-63 [PMID:20118235] Peng Y,Bartley LE,Canlas P,Ronald PC OsWRKY IIa Transcription Factors Modulate Rice Innate Immunity. Rice (N Y), 2010. 3(1): p. 36-42 [PMID:21961049] Park CJ,Ronald PC Cleavage and nuclear localization of the rice XA21 immune receptor. Nat Commun, 2012. 3: p. 920 [PMID:22735448] Chujo T, et al. OsWRKY28, a PAMP-responsive transrepressor, negatively regulates innate immune responses in rice against rice blast fungus. Plant Mol. Biol., 2013. 82(1-2): p. 23-37 [PMID:23462973] Nakayama A, et al. Genome-wide identification of WRKY45-regulated genes that mediate benzothiadiazole-induced defense responses in rice. BMC Plant Biol., 2013. 13: p. 150 [PMID:24093634] Hou Y, et al. JMJ704 positively regulates rice defense response against Xanthomonas oryzae pv. oryzae infection via reducing H3K4me2/3 associated with negative disease resistance regulators. BMC Plant Biol., 2015. 15: p. 286 [PMID:26646110] Liu J, et al. Alternative Splicing of Rice WRKY62 and WRKY76 Transcription Factor Genes in Pathogen Defense. Plant Physiol., 2016. 171(2): p. 1427-42 [PMID:27208272]