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

AT1G50640.1

Common Name

ATERF3, ERF082, ERF3, ERF-3, F11F12.4, F17J6.16

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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: 225aa MW: 25216.1 Da PI: 9.3731

Description

ethylene responsive element binding factor 3

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G50640.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	63.1	6e-20	28	76	3	55
AP2 3 ykGVrwdkkrgrWvAeIrd.psengkrkrfslgkfgtaeeAakaaiaarkkleg 55 ++GVr ++ +gr++AeIrd ++ ++r++lg+f++aeeAa+a++ a+++l+g AT1G50640.1 28 FRGVRKRP-WGRFAAEIRDpWK----KARVWLGTFDSAEEAARAYDSAARNLRG 76 8*****.******883....5***********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00380	2.7E-36	27	90	IPR001471	AP2/ERF domain
Pfam	PF00847	2.5E-13	27	76	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	23.393	27	84	IPR001471	AP2/ERF domain
CDD	cd00018	6.84E-30	27	86	No hit	No description
PRINTS	PR00367	2.3E-10	28	39	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	2.6E-31	28	84	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.95E-22	28	85	IPR016177	DNA-binding domain
PRINTS	PR00367	2.3E-10	50	66	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006952	Biological Process	defense response
GO:0010105	Biological Process	negative regulation of ethylene-activated signaling pathway
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020100	anatomy	hypocotyl
PO:0025022	anatomy	collective leaf structure
PO:0025195	anatomy	pollen tube cell
PO:0025281	anatomy	pollen
PO:0001016	developmental stage	L mature pollen stage
PO:0001017	developmental stage	M germinated pollen stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral 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:0007131	developmental stage	seedling development stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 225 aa Download sequence Send to blast
MRRGRGSSAV AGPTVVAAIN GSVKEIRFRG VRKRPWGRFA AEIRDPWKKA RVWLGTFDSA 60 EEAARAYDSA ARNLRGPKAK TNFPIDSSSP PPPNLRFNQI RNQNQNQVDP FMDHRLFTDH 120 QQQFPIVNRP TSSSMSSTVE SFSGPRPTTM KPATTKRYPR TPPVVPEDCH SDCDSSSSVI 180 DDDDDIASSS RRRNPPFQFD LNFPPLDCVD LFNGADDLHC TDLRL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wx9_A	3e-20	27	84	14	72	Ethylene-responsive transcription factor ERF096
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.1645	0.0	leaf\| root\| seed\| silique

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	42562651	0.0
Genevisible	261874_at	0.0
Expression Atlas	AT1G50640	-
AtGenExpress	AT1G50640	-
ATTED-II	AT1G50640	-

Functional Description ? help Back to Top
Source	Description
TAIR	encodes a member of the ERF (ethylene response factor) subfamily B-1 of ERF/AP2 transcription factor family (ATERF-3). The protein contains one AP2 domain. There are 15 members in this subfamily including ATERF-3, ATERF-4, ATERF-7, and leafy petiole.
UniProt	Acts as a transcriptional repressor. Binds to the GCC-box pathogenesis-related promoter element. Involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways and could also regulate other AtERFs. {ECO:0000269\|PubMed:10715325, ECO:0000269\|PubMed:11487705, ECO:0000269\|PubMed:9756931}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00194	DAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G50640.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by jasmonate (JA), ethylene and Alternaria brassicicola (locally and systemically). Moderate induction by wounding or drought stress does not require EIN2, whereas induction by NaCl does. Transcripts accumulate slightly in cycloheximide-treated plants, a protein synthesis inhibitor. Seems to not be influenced by ethylene, exogenous abscisic acid (ABA), cold and heat stress. {ECO:0000269\|PubMed:10715325, ECO:0000269\|PubMed:12805630}.

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

Regulation -- Hormone ? help Back to Top
Source	Hormone
AHD	ethylene

Interaction ? help Back to Top
Source	Intact With
IntAct	Search O80339

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G50640

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB008105	0.0	AB008105.1 Arabidopsis thaliana AtERF-3 mRNA for ethylene responsive element binding factor 3, complete cds.
GenBank	AC012561	0.0	AC012561.2 Arabidopsis thaliana chromosome I BAC F11F12 genomic sequence, complete sequence.
GenBank	AC079279	0.0	AC079279.4 Arabidopsis thaliana chromosome 1 BAC F17J6 genomic sequence, complete sequence.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_175479.1	1e-165	ethylene responsive element binding factor 3
Swissprot	O80339	1e-166	ERF82_ARATH; Ethylene-responsive transcription factor 3
TrEMBL	C0SV01	1e-163	C0SV01_ARATH; Uncharacterized protein At1g50640 (Fragment)
STRING	AT1G50640.1	1e-164	(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	AT1G50640.1
Entrez Gene	841486
iHOP	AT1G50640
wikigenes	AT1G50640

Publications ? help Back to Top
Fujimoto SY,Ohta M,Usui A,Shinshi H,Ohme-Takagi M Arabidopsis ethylene-responsive element binding factors act as transcriptional activators or repressors of GCC box-mediated gene expression. Plant Cell, 2000. 12(3): p. 393-404 [PMID:10715325] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Ohta M,Matsui K,Hiratsu K,Shinshi H,Ohme-Takagi M Repression domains of class II ERF transcriptional repressors share an essential motif for active repression. Plant Cell, 2001. 13(8): p. 1959-68 [PMID:11487705] Brown RL,Kazan K,McGrath KC,Maclean DJ,Manners JM A role for the GCC-box in jasmonate-mediated activation of the PDF1.2 gene of Arabidopsis. Plant Physiol., 2003. 132(2): p. 1020-32 [PMID:12805630] Cluis CP,Mouchel CF,Hardtke CS The Arabidopsis transcription factor HY5 integrates light and hormone signaling pathways. Plant J., 2004. 38(2): p. 332-47 [PMID:15078335] Jeter CR,Tang W,Henaff E,Butterfield T,Roux SJ Evidence of a novel cell signaling role for extracellular adenosine triphosphates and diphosphates in Arabidopsis. Plant Cell, 2004. 16(10): p. 2652-64 [PMID:15367717] Tsukagoshi H,Saijo T,Shibata D,Morikami A,Nakamura K Analysis of a sugar response mutant of Arabidopsis identified a novel B3 domain protein that functions as an active transcriptional repressor. Plant Physiol., 2005. 138(2): p. 675-85 [PMID:15894743] Ramonell K, et al. Loss-of-function mutations in chitin responsive genes show increased susceptibility to the powdery mildew pathogen Erysiphe cichoracearum. Plant Physiol., 2005. 138(2): p. 1027-36 [PMID:15923325] Kim S,Soltis PS,Wall K,Soltis DE Phylogeny and domain evolution in the APETALA2-like gene family. Mol. Biol. Evol., 2006. 23(1): p. 107-20 [PMID:16151182] Wang J, et al. Genomewide nonadditive gene regulation in Arabidopsis allotetraploids. Genetics, 2006. 172(1): p. 507-17 [PMID:16172500] 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] 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] Song CP,Galbraith DW AtSAP18, an orthologue of human SAP18, is involved in the regulation of salt stress and mediates transcriptional repression in Arabidopsis. Plant Mol. Biol., 2006. 60(2): p. 241-57 [PMID:16429262] 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] Jung J, et al. The barley ERF-type transcription factor HvRAF confers enhanced pathogen resistance and salt tolerance in Arabidopsis. Planta, 2007. 225(3): p. 575-88 [PMID:16937017] Wang Y, et al. Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis. Plant Physiol., 2008. 148(3): p. 1201-11 [PMID:18775970] Causier B,Ashworth M,Guo W,Davies B The TOPLESS interactome: a framework for gene repression in Arabidopsis. Plant Physiol., 2012. 158(1): p. 423-38 [PMID:22065421] Koyama T, et al. A regulatory cascade involving class II ETHYLENE RESPONSE FACTOR transcriptional repressors operates in the progression of leaf senescence. Plant Physiol., 2013. 162(2): p. 991-1005 [PMID:23629833] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Le MH,Cao Y,Zhang XC,Stacey G LIK1, a CERK1-interacting kinase, regulates plant immune responses in Arabidopsis. PLoS ONE, 2014. 9(7): p. e102245 [PMID:25036661] Hao D,Ohme-Takagi M,Sarai A Unique mode of GCC box recognition by the DNA-binding domain of ethylene-responsive element-binding factor (ERF domain) in plant. J. Biol. Chem., 1998. 273(41): p. 26857-61 [PMID:9756931]