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

Carubv10026463m

Common Name

CARUB_v10026463mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

WRKY

Protein Properties

Length: 425aa MW: 47569 Da PI: 7.113

Description

WRKY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10026463m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRKY	105	3.9e-33	242	300	1	59
---SS-EEEEEEE--TT-SS-EEEEEE-STT---EEEEEE-SSSTTEEEEEEES--SS- CS WRKY 1 ldDgynWrKYGqKevkgsefprsYYrCtsagCpvkkkversaedpkvveitYegeHnhe 59 ldDgy+WrKYGqK vk+s++prsYYrCt+ gC vkk+vers++d ++v +tYeg+H+h+ Carubv10026463m 242 LDDGYRWRKYGQKAVKNSPYPRSYYRCTTVGCGVKKRVERSSDDSSIVMTTYEGQHTHP 300 59********************************************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.20.25.80	5.2E-34	227	302	IPR003657	WRKY domain
SuperFamily	SSF118290	1.44E-29	235	302	IPR003657	WRKY domain
PROSITE profile	PS50811	32.432	237	302	IPR003657	WRKY domain
SMART	SM00774	3.4E-40	242	301	IPR003657	WRKY domain
Pfam	PF03106	1.1E-26	243	300	IPR003657	WRKY domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010200	Biological Process	response to chitin
GO:0042742	Biological Process	defense response to bacterium
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
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: 425 aa Download sequence Send to blast
YHHLIDSIFF SLTYMEKKIE KDLHHHHHHH QQHQKEIKNT ETKIEQHQEQ KISQASSNIM 60 ANLVTSSSSD HHHHHHQLEL AAGNLSSIFG DTSSSLPFPY SYFEDHSSNN PNSFLDLLRQ 120 DHQFASSSNS SSFSFDAFPL PNNNTNPFFT DMPLPQAESS EVVNTAPTSP NSTSVSSSSN 180 EAANDNNNSI GKEVTVKDQE EGDQQQEQKG TTKPQLKAKK KNQKKAREAR FAFLTKSDID 240 NLDDGYRWRK YGQKAVKNSP YPRSYYRCTT VGCGVKKRVE RSSDDSSIVM TTYEGQHTHP 300 FPMTPRGHIG MLTSPILDHG ATTASSSSFS IPQPRYLLAQ HHQPYNMYNN NNNSLSMVNR 360 SSSDGTFVNL GPTSSSFPGF GYDMSQASTS TSSSIRDHGL LQDILPSQIR SDSINTQTNE 420 EVRK*

Sequence ? help Back to Top

Protein Sequence Length: 425 aa Download sequence Send to blast

YHHLIDSIFF SLTYMEKKIE KDLHHHHHHH QQHQKEIKNT ETKIEQHQEQ KISQASSNIM  60
ANLVTSSSSD HHHHHHQLEL AAGNLSSIFG DTSSSLPFPY SYFEDHSSNN PNSFLDLLRQ  120
DHQFASSSNS SSFSFDAFPL PNNNTNPFFT DMPLPQAESS EVVNTAPTSP NSTSVSSSSN  180
EAANDNNNSI GKEVTVKDQE EGDQQQEQKG TTKPQLKAKK KNQKKAREAR FAFLTKSDID  240
NLDDGYRWRK YGQKAVKNSP YPRSYYRCTT VGCGVKKRVE RSSDDSSIVM TTYEGQHTHP  300
FPMTPRGHIG MLTSPILDHG ATTASSSSFS IPQPRYLLAQ HHQPYNMYNN NNNSLSMVNR  360
SSSDGTFVNL GPTSSSFPGF GYDMSQASTS TSSSIRDHGL LQDILPSQIR SDSINTQTNE  420
EVRK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wj2_A	2e-26	235	302	10	77	Probable WRKY transcription factor 4
2lex_A	2e-26	235	302	10	77	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10026463m

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	AF442397	0.0	AF442397.1 Arabidopsis thaliana WRKY transcription factor 48 (WRKY48) mRNA, complete cds.
GenBank	AY063870	0.0	AY063870.1 Arabidopsis thaliana unknown protein (At5g49520) mRNA, complete cds.
GenBank	AY091224	0.0	AY091224.1 Arabidopsis thaliana unknown protein (At5g49520) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006280525.2	0.0	probable WRKY transcription factor 48
Swissprot	Q9FGZ4	0.0	WRK48_ARATH; Probable WRKY transcription factor 48
TrEMBL	R0GQF2	0.0	R0GQF2_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006280525.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5624	26	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G49520.1	1e-143	WRKY DNA-binding protein 48

Link Out ? help Back to Top
Phytozome	Carubv10026463m
Entrez Gene	17876409

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]