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

AT1G78080.1

Common Name

AtWIND1, ERF059, F28K19.29, RAP2-4, RAP2.4, T11I11.1, WIND1

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: 334aa MW: 36609.9 Da PI: 7.0703

Description

related to AP2 4

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G78080.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	65.1	1.4e-20	151	200	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+GVr+++ +g+WvAeIr p++ r+r +lg+f+taeeAa a+++a+ kl+g AT1G78080.1 151 LYRGVRQRH-WGKWVAEIRLPRN---RTRLWLGTFDTAEEAALAYDKAAYKLRG 200 59****9.******955...5***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	1.00E-33	150	210	No hit	No description
SMART	SM00380	1.0E-37	151	214	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	23.169	151	208	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.3E-32	151	209	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	2.68E-23	151	209	IPR016177	DNA-binding domain
Pfam	PF00847	2.2E-14	152	200	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.1E-11	152	163	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.1E-11	174	190	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:0009414	Biological Process	response to water deprivation
GO:0009611	Biological Process	response to wounding
GO:0009736	Biological Process	cytokinin-activated signaling pathway
GO:0009873	Biological Process	ethylene-activated signaling pathway
GO:0010017	Biological Process	red or far-red light signaling pathway
GO:0045595	Biological Process	regulation of cell differentiation
GO:0071472	Biological Process	cellular response to salt stress
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000014	anatomy	rosette leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
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:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two 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: 334 aa Download sequence Send to blast
MAAAMNLYTC SRSFQDSGGE LMDALVPFIK SVSDSPSSSS AASASAFLHP SAFSLPPLPG 60 YYPDSTFLTQ PFSYGSDLQQ TGSLIGLNNL SSSQIHQIQS QIHHPLPPTH HNNNNSFSNL 120 LSPKPLLMKQ SGVAGSCFAY GSGVPSKPTK LYRGVRQRHW GKWVAEIRLP RNRTRLWLGT 180 FDTAEEAALA YDKAAYKLRG DFARLNFPNL RHNGSHIGGD FGEYKPLHSS VDAKLEAICK 240 SMAETQKQDK STKSSKKREK KVSSPDLSEK VKAEENSVSI GGSPPVTEFE ESTAGSSPLS 300 DLTFADPEEP PQWNETFSLE KYPSYEIDWD SILA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gcc_A	4e-21	150	208	1	60	ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.25524	0.0	bud\| flower\| leaf\| root\| seed\| silique\| vegetative tissue

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	13877778	0.0
Genevisible	262135_at	0.0
Expression Atlas	AT1G78080	-
AtGenExpress	AT1G78080	-
ATTED-II	AT1G78080	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in roots and leaves. Also detected in flowers and stems. {ECO:0000269\|PubMed:9192694}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a member of the DREB subfamily A-6 of ERF/AP2 transcription factor family (RAP2.4). The protein contains one AP2 domain. Role in mediating light and ethylene signaling.
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
BPM1-RAP2.4 interaction requires a complete MATH domain and the N-terminal region of RAP2.4. [PMID: 19843165] Rap2.4f is a positive regulator of senescence, promoting both developmental and dark-induced leaf senescence. [PMID: 20953945] The AP2/ERF transcription factor WIND1 controls cell dedifferentiation in Arabidopsis. [WIND1] [WOUND INDUCED DEDIFFERENTIATION 1] [PMID: 21396822] WIND1 is induced by wounding and promotes cell dedifferentiation. WIND proteins are required to activate the local cytokinin response at the wound site. [PMID: 22112447] the WIND1-mediated signaling cascade to promote cell dedifferentiation might be conserved in at least several species of Brassicaceae and Solanaceae. [PMID: 24389814] WIND1 directly binds the ESR1 promoter and activates tts expression. [PMID: 28011694]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00026	PBM	25215497	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G78080.1

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 Q8H1E4

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G78080

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC009243	0.0	AC009243.3 Genomic sequence for Arabidopsis thaliana BAC F28K19 from chromosome I, complete sequence.
GenBank	AY150468	0.0	AY150468.1 Arabidopsis thaliana putative AP2 domain containing protein (At1g78080) mRNA, complete cds.
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_177931.1	0.0	related to AP2 4
Swissprot	Q8H1E4	0.0	RAP24_ARATH; Ethylene-responsive transcription factor RAP2-4
TrEMBL	A0A178WKP5	0.0	A0A178WKP5_ARATH; WIND1
STRING	AT1G78080.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2716	26	70
Representative plant	OGRP6	16	1718

Link Out ? help Back to Top
Phytozome	AT1G78080.1
Entrez Gene	844143
iHOP	AT1G78080
wikigenes	AT1G78080

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] P New molecular phenotypes in the dst mutants of Arabidopsis revealed by DNA microarray analysis. Plant Cell, 2001. 13(12): p. 2703-17 [PMID:11752382] Ekman DR,Lorenz WW,Przybyla AE,Wolfe NL,Dean JF SAGE analysis of transcriptome responses in Arabidopsis roots exposed to 2,4,6-trinitrotoluene. Plant Physiol., 2003. 133(3): p. 1397-406 [PMID:14551330] Dal Bosco C, et al. Inactivation of the chloroplast ATP synthase gamma subunit results in high non-photochemical fluorescence quenching and altered nuclear gene expression in Arabidopsis thaliana. J. Biol. Chem., 2004. 279(2): p. 1060-9 [PMID:14576160] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Gepstein S, et al. Large-scale identification of leaf senescence-associated genes. Plant J., 2003. 36(5): p. 629-42 [PMID:14617064] Kasukabe Y, et al. Overexpression of spermidine synthase enhances tolerance to multiple environmental stresses and up-regulates the expression of various stress-regulated genes in transgenic Arabidopsis thaliana. Plant Cell Physiol., 2004. 45(6): p. 712-22 [PMID:15215506] Souret FF,Kastenmayer JP,Green PJ AtXRN4 degrades mRNA in Arabidopsis and its substrates include selected miRNA targets. Mol. Cell, 2004. 15(2): p. 173-83 [PMID:15260969] Iwase A,Ishii H,Aoyagi H,Ohme-Takagi M,Tanaka H Comparative analyses of the gene expression profiles of Arabidopsis intact plant and cultured cells. Biotechnol. Lett., 2005. 27(15): p. 1097-103 [PMID:16132859] 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] McGrath KC, et al. Repressor- and activator-type ethylene response factors functioning in jasmonate signaling and disease resistance identified via a genome-wide screen of Arabidopsis transcription factor gene expression. Plant Physiol., 2005. 139(2): p. 949-59 [PMID:16183832] 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] Pischke MS,Huttlin EL,Hegeman AD,Sussman MR A transcriptome-based characterization of habituation in plant tissue culture. Plant Physiol., 2006. 140(4): p. 1255-78 [PMID:16489130] Xiong Y,Fei SZ Functional and phylogenetic analysis of a DREB/CBF-like gene in perennial ryegrass (Lolium perenne L.). Planta, 2006. 224(4): p. 878-88 [PMID:16614820] Pati A,Vasquez-Robinet C,Heath LS,Grene R,Murali TM XcisClique: analysis of regulatory bicliques. BMC Bioinformatics, 2006. 7: p. 218 [PMID:16630346] 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] Catala R, et al. The Arabidopsis E3 SUMO ligase SIZ1 regulates plant growth and drought responses. Plant Cell, 2007. 19(9): p. 2952-66 [PMID:17905899] Shaikhali J, et al. The redox-sensitive transcription factor Rap2.4a controls nuclear expression of 2-Cys peroxiredoxin A and other chloroplast antioxidant enzymes. BMC Plant Biol., 2008. 8: p. 48 [PMID:18439303] Welling A,Palva ET Involvement of CBF transcription factors in winter hardiness in birch. Plant Physiol., 2008. 147(3): p. 1199-211 [PMID:18467468] Kim JM, et al. Alterations of lysine modifications on the histone H3 N-tail under drought stress conditions in Arabidopsis thaliana. Plant Cell Physiol., 2008. 49(10): p. 1580-8 [PMID:18779215] Weber H,Hellmann H Arabidopsis thaliana BTB/ POZ-MATH proteins interact with members of the ERF/AP2 transcription factor family. FEBS J., 2009. 276(22): p. 6624-35 [PMID:19843165] Lin RC,Park HJ,Wang HY Role of Arabidopsis RAP2.4 in regulating light- and ethylene-mediated developmental processes and drought stress tolerance. Mol Plant, 2008. 1(1): p. 42-57 [PMID:20031913] Xu H,Wang X,Chen J Overexpression of the Rap2.4f transcriptional factor in Arabidopsis promotes leaf senescence. Sci China Life Sci, 2010. 53(10): p. 1221-6 [PMID:20953945] Iwase A, et al. The AP2/ERF transcription factor WIND1 controls cell dedifferentiation in Arabidopsis. Curr. Biol., 2011. 21(6): p. 508-14 [PMID:21396822] Rae L,Lao NT,Kavanagh TA Regulation of multiple aquaporin genes in Arabidopsis by a pair of recently duplicated DREB transcription factors. Planta, 2011. 234(3): p. 429-44 [PMID:21509693] Iwase A,Ohme-Takagi M,Sugimoto K WIND1: a key molecular switch for plant cell dedifferentiation. Plant Signal Behav, 2011. 6(12): p. 1943-5 [PMID:22112447] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Iwase A, et al. Arabidopsis WIND1 induces callus formation in rapeseed, tomato, and tobacco. Plant Signal Behav, 2013. 8(12): p. e27432 [PMID:24389814] Hiltscher H, et al. The radical induced cell death protein 1 (RCD1) supports transcriptional activation of genes for chloroplast antioxidant enzymes. Front Plant Sci, 2014. 5: p. 475 [PMID:25295044] Iwase A, et al. WIND1-based acquisition of regeneration competency in Arabidopsis and rapeseed. J. Plant Res., 2015. 128(3): p. 389-97 [PMID:25810222] Ikeuchi M, et al. PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis. Nat Plants, 2015. 1: p. 15089 [PMID:27250255] Iwase A, et al. WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis. Plant Cell, 2017. 29(1): p. 54-69 [PMID:28011694] Okamuro JK,Caster B,Villarroel R,Van Montagu M,Jofuku KD The AP2 domain of APETALA2 defines a large new family of DNA binding proteins in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 1997. 94(13): p. 7076-81 [PMID:9192694]