PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

ERF

Protein Properties

Length: 153aa MW: 17007.6 Da PI: 10.2978

Description

cooperatively regulated by ethylene and jasmonate 1

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G50260.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	56.6	6.2e-18	21	69	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 +kG+r +k +g+WvAeIr+p +kr r +lg++ t+e Aa+a++ a +l+g AT3G50260.1 21 FKGIRMRK-WGKWVAEIREP---NKRSRLWLGSYSTPEAAARAYDTAVFYLRG 69 8***99.******9...336***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00380	1.4E-36	20	83	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	22.484	20	77	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.1E-8	21	32	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.3E-29	21	78	IPR001471	AP2/ERF domain
Pfam	PF00847	1.0E-11	21	69	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.1E-21	21	78	IPR016177	DNA-binding domain
CDD	cd00018	4.18E-27	21	79	No hit	No description
PRINTS	PR00367	2.1E-8	43	59	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009409	Biological Process	response to cold
GO:0009873	Biological Process	ethylene-activated signaling pathway
GO:0010200	Biological Process	response to chitin
GO:0010941	Biological Process	regulation of cell death
GO:0042742	Biological Process	defense response to bacterium
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009031	anatomy	sepal
PO:0009047	anatomy	stem
PO:0020030	anatomy	cotyledon
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 153 aa Download sequence Send to blast
MDAGVAVKAD VAVKMKRERP FKGIRMRKWG KWVAEIREPN KRSRLWLGSY STPEAAARAY 60 DTAVFYLRGP TATLNFPELL PCTSAEDMSA ATIRKKATEV GAQVDAIGAT VVQNNKRRRV 120 FSQKRDFGGG LLELVDLNKL PDPENLDDDL VGK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wx9_A	2e-15	21	85	15	80	Ethylene-responsive transcription factor ERF096
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	115	119	KRRRV

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.1423	0.0	root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	252214_at	0.0
Expression Atlas	AT3G50260	-
AtGenExpress	AT3G50260	-
ATTED-II	AT3G50260	-

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a member of the DREB subfamily A-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. Involved in defense and freezing stress responses. There are 16 members in this subfamily including RAP2.1, RAP2.9 and RAP2.10.
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). {ECO:0000250}.

Function -- GeneRIF ? help Back to Top
The transcriptional repressor ERF9 participates in plant defense mechanisms against necrotic fungi mediated by the DEAR1-dependent ethylene/JA signaling pathway. [PMID: 24157210]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00401	DAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G50260.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G50260

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AL132976	0.0	AL132976.2 Arabidopsis thaliana DNA chromosome 3, BAC clone F11C1.
GenBank	AY045579	0.0	AY045579.1 Arabidopsis thaliana AT3g50260/F11C1_100 mRNA, complete cds.
GenBank	AY093792	0.0	AY093792.1 Arabidopsis thaliana AT3g50260/F11C1_100 mRNA, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_190595.1	1e-109	cooperatively regulated by ethylene and jasmonate 1
Swissprot	Q9SNE1	1e-110	ERF11_ARATH; Ethylene-responsive transcription factor ERF011
TrEMBL	A0A178VN80	1e-107	A0A178VN80_ARATH; DEAR1
STRING	AT3G50260.1	1e-108	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10	28	1650
Representative plant	OGRP6	16	1718

Link Out ? help Back to Top
Phytozome	AT3G50260.1
Entrez Gene	824188
iHOP	AT3G50260
wikigenes	AT3G50260

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Guan Y,Nothnagel EA Binding of arabinogalactan proteins by Yariv phenylglycoside triggers wound-like responses in Arabidopsis cell cultures. Plant Physiol., 2004. 135(3): p. 1346-66 [PMID:15235117] Hass C, et al. The response regulator 2 mediates ethylene signalling and hormone signal integration in Arabidopsis. EMBO J., 2004. 23(16): p. 3290-302 [PMID:15282545] Lee BH,Henderson DA,Zhu JK The Arabidopsis cold-responsive transcriptome and its regulation by ICE1. Plant Cell, 2005. 17(11): p. 3155-75 [PMID:16214899] 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] Raghavan C,Ong EK,Dalling MJ,Stevenson TW Regulation of genes associated with auxin, ethylene and ABA pathways by 2,4-dichlorophenoxyacetic acid in Arabidopsis. Funct. Integr. Genomics, 2006. 6(1): p. 60-70 [PMID:16317577] Nakano T,Suzuki K,Fujimura T,Shinshi H Genome-wide analysis of the ERF gene family in Arabidopsis and rice. Plant Physiol., 2006. 140(2): p. 411-32 [PMID:16407444] Truman W,de Zabala MT,Grant M Type III effectors orchestrate a complex interplay between transcriptional networks to modify basal defence responses during pathogenesis and resistance. Plant J., 2006. 46(1): p. 14-33 [PMID:16553893] Thilmony R,Underwood W,He SY Genome-wide transcriptional analysis of the Arabidopsis thaliana interaction with the plant pathogen Pseudomonas syringae pv. tomato DC3000 and the human pathogen Escherichia coli O157:H7. Plant J., 2006. 46(1): p. 34-53 [PMID:16553894] Nakano T, et al. Identification of genes of the plant-specific transcription-factor families cooperatively regulated by ethylene and jasmonate in Arabidopsis thaliana. J. Plant Res., 2006. 119(4): p. 407-13 [PMID:16820983] Ma S,Bohnert HJ Integration of Arabidopsis thaliana stress-related transcript profiles, promoter structures, and cell-specific expression. Genome Biol., 2007. 8(4): p. R49 [PMID:17408486] Libault M,Wan J,Czechowski T,Udvardi M,Stacey G Identification of 118 Arabidopsis transcription factor and 30 ubiquitin-ligase genes responding to chitin, a plant-defense elicitor. Mol. Plant Microbe Interact., 2007. 20(8): p. 900-11 [PMID:17722694] Ramel F, et al. Genome-wide interacting effects of sucrose and herbicide-mediated stress in Arabidopsis thaliana: novel insights into atrazine toxicity and sucrose-induced tolerance. BMC Genomics, 2007. 8: p. 450 [PMID:18053238] Veley KM,Michaels SD Functional redundancy and new roles for genes of the autonomous floral-promotion pathway. Plant Physiol., 2008. 147(2): p. 682-95 [PMID:18408043] Tsutsui T, et al. DEAR1, a transcriptional repressor of DREB protein that mediates plant defense and freezing stress responses in Arabidopsis. J. Plant Res., 2009. 122(6): p. 633-43 [PMID:19618250] Sudre D, et al. Iron-dependent modifications of the flower transcriptome, proteome, metabolome, and hormonal content in an Arabidopsis ferritin mutant. J. Exp. Bot., 2013. 64(10): p. 2665-88 [PMID:23682113] Maruyama Y, et al. The Arabidopsis transcriptional repressor ERF9 participates in resistance against necrotrophic fungi. Plant Sci., 2013. 213: p. 79-87 [PMID:24157210] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Shen PC,Hour AL,Liu LD Microarray meta-analysis to explore abiotic stress-specific gene expression patterns in Arabidopsis. Bot Stud, 2017. 58(1): p. 22 [PMID:28510204]