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

Rsa1.0_04227.1_g00002.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

WRKY

Protein Properties

Length: 222aa MW: 25346.9 Da PI: 8.2233

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_04227.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	102.8	2e-32	147	204	1	58
---SS-EEEEEEE--TT-SS-EEEEEE-STT---EEEEEE-SSSTTEEEEEEES--SS CS WRKY 1 ldDgynWrKYGqKevkgsefprsYYrCtsagCpvkkkversaedpkvveitYegeHnh 58 ldDgy+WrKYGqK+vk+s +prsYYrCt+++C+vkk+ver +ed ++v++tYeg+Hnh Rsa1.0_04227.1_g00002.1 147 LDDGYKWRKYGQKVVKNSLHPRSYYRCTHNNCKVKKRVERLSEDCRMVITTYEGRHNH 204 59******************************************************** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.20.25.80	1.0E-33	132	204	IPR003657	WRKY domain
SuperFamily	SSF118290	2.22E-28	139	204	IPR003657	WRKY domain
PROSITE profile	PS50811	29.39	142	204	IPR003657	WRKY domain
SMART	SM00774	9.6E-38	147	206	IPR003657	WRKY domain
Pfam	PF03106	2.7E-25	148	204	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: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: 222 aa Download sequence Send to blast
MEGGEERRVV LNNYDLQQVT SSSTTIQENM NFLVPFEETN VLTFFSSSSS SSLSSPSFPI 60 YNSSSTTNTT HAPLRFFNNL QGGGPLGSKV VNDDQDNIRG GINNDGHSNS WWRSSSESGE 120 MTNKVKTRRK LREPRFCFQT KTDVDVLDDG YKWRKYGQKV VKNSLHPRSY YRCTHNNCKV 180 KKRVERLSED CRMVITTYEG RHNHIPSDES TSPDHDHCLS SF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj2_A	3e-26	138	204	8	74	Probable WRKY transcription factor 4
2lex_A	3e-26	138	204	8	74	Probable WRKY transcription factor 4
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00618	PBM	Transfer from AT2G44745	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_04227.1_g00002.1

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	AF404857	0.0	AF404857.1 Arabidopsis thaliana WRKY transcription factor 12 (WRKY12) mRNA, complete cds.
GenBank	BT028992	0.0	BT028992.1 Arabidopsis thaliana At2g44745 mRNA, complete cds.
GenBank	DQ446622	0.0	DQ446622.1 Arabidopsis thaliana clone pENTR221-At2g44745 WRKY family transcription factor (At2g44745) mRNA, complete cds.
GenBank	DQ653058	0.0	DQ653058.1 Arabidopsis thaliana clone 0000017096_0000011985 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018474950.1	1e-144	PREDICTED: probable WRKY transcription factor 12
Swissprot	Q93WY4	1e-128	WRK12_ARATH; Probable WRKY transcription factor 12
TrEMBL	A0A178VP12	1e-127	A0A178VP12_ARATH; WRKY12
STRING	fgenesh2_kg.4__2664__AT2G44745.1	1e-127	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6045	25	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G44745.1	1e-117	WRKY family protein

Publications ? help Back to Top
Yu Y, et al. MlWRKY12, a novel Miscanthus transcription factor, participates in pith secondary cell wall formation and promotes flowering. Plant Sci., 2013. 212: p. 1-9 [PMID:24094048] Yang L, et al. PtrWRKY19, a novel WRKY transcription factor, contributes to the regulation of pith secondary wall formation in Populus trichocarpa. Sci Rep, 2016. 6: p. 18643 [PMID:26819184] Li W,Wang H,Yu D Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions. Mol Plant, 2016. 9(11): p. 1492-1503 [PMID:27592586] Han Y, et al. WRKY12 represses GSH1 expression to negatively regulate cadmium tolerance in Arabidopsis. Plant Mol. Biol., 2019. 99(1-2): p. 149-159 [PMID:30617455]