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: 212aa MW: 24287.7 Da PI: 9.1153

Description

related to AP2 6l

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT5G13330.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	64.8	1.7e-20	38	87	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 +y+GVr+++ +g+W+AeIrdp+ + +r++lg+f taeeAa a+++a++k++g AT5G13330.1 38 HYRGVRQRP-WGKWAAEIRDPK----KaARVWLGTFETAEEAALAYDRAALKFKG 87 7******.******94....45**********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.730.10	3.4E-33	37	96	IPR001471	AP2/ERF domain
SMART	SM00380	2.6E-38	38	101	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.36E-23	38	96	IPR016177	DNA-binding domain
CDD	cd00018	1.06E-33	38	96	No hit	No description
Pfam	PF00847	2.4E-14	38	87	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	24.974	38	95	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.0E-12	39	50	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.0E-12	61	77	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009414	Biological Process	response to water deprivation
GO:0009651	Biological Process	response to salt stress
GO:0009723	Biological Process	response to ethylene
GO:0009737	Biological Process	response to abscisic acid
GO:0009751	Biological Process	response to salicylic acid
GO:0009753	Biological Process	response to jasmonic acid
GO:0009873	Biological Process	ethylene-activated signaling pathway
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0071497	Biological Process	cellular response to freezing
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: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:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0007115	developmental stage	LP.04 four 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: 212 aa Download sequence Send to blast
MVSALSRVIE NPTDPPVKQE LDKSDQHQPD QDQPRRRHYR GVRQRPWGKW AAEIRDPKKA 60 ARVWLGTFET AEEAALAYDR AALKFKGTKA KLNFPERVQG PTTTTTISHA PRGVSESMNS 120 PPPRPGPPST TTTSWPMTYN QDILQYAQLL TSNNEVDLSY YTSTLFSQPF STPSSSSSSS 180 QQTQQQQLQQ QQQQREEEEK NYGYNYYNYP RE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gcc_A	2e-27	37	98	1	63	ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
2gcc_A	2e-27	37	98	4	66	ATERF1
3gcc_A	2e-27	37	98	4	66	ATERF1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.32083	0.0	cell culture\| flower

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145357962	0.0
Genevisible	250287_at	0.0
Expression Atlas	AT5G13330	-
AtGenExpress	AT5G13330	-
ATTED-II	AT5G13330	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in pollen grains. {ECO:0000269\|PubMed:21069430}.

Functional Description ? help Back to Top
Source	Description
TAIR	encodes a member of the ERF (ethylene response factor) subfamily B-4 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 7 members in this subfamily.
UniProt	Transcriptional activator involved in the regulation of plant development and tolerance to abiotic stresses (PubMed:21069430). Acts as positive regulator of tolerance to waterlogging stress. Delays waterlogging-induced premature senescence by regulating stomatal closure and antioxidant enzyme activity. May function through ABI1-mediated abscisic acid (ABA) signaling pathway (PubMed:22661072). Involved in tissue reunion of wounded inflorescence stems. Required for the division of pith cells in the reunion process, which is dependent on polar-transported auxin and the wound-inducible hormones ethylene and jasmonate (PubMed:21911380). 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, ECO:0000269\|PubMed:21069430, ECO:0000269\|PubMed:21911380, ECO:0000269\|PubMed:22661072}.

Function -- GeneRIF ? help Back to Top
Data demonstrate that RAP2.6 (At1g43160), RAP2.6L (At5g13330), DREB 26 (At1g21910) and DREB19 (At2g38340) are transactivators, they exhibit tissue specific expression, and participate in developmental processes as well as biotic/abiotic stress signaling. [PMID: 21069430] Data show that two plant-specific transcription factor genes, ANAC071 (At4g17980) and RAP2.6L (At5g13330) were abundantly expressed. [PMID: 21911380] These results suggest that RAP2.6L overexpression delays waterlogging induced premature senescence and might function through ABI1-mediated abscissic acid signaling pathway. [PMID: 22661072] Results suggest that jasmonic acid (JA) and RAP2.6L, induced by grafting, are not necessary for cell proliferation process in healing. [PMID: 29344830] RAP2.6L expression is regulated by AMP1. [PMID: 29884678]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT5G13330.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by salt stress (PubMed:16133218, PubMed:21069430). Induced drought stress, jasmonate (JA), salicylic acid (SA), abscisic acid (ABA) and ethylene. Down-regulated by freezing stress (PubMed:21069430). Induced by wounding in the flowering stem (PubMed:21911380). Induced by waterlogging. {ECO:0000269\|PubMed:16133218, ECO:0000269\|PubMed:21069430, ECO:0000269\|PubMed:21911380}.

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

Interaction ? help Back to Top
Source	Intact With
IntAct	Search Q9LYU3

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT5G13330

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY560861	0.0	AY560861.1 Arabidopsis thaliana putative AP2/EREBP transcription factor (At5g13330) mRNA, complete cds.
GenBank	BT011609	0.0	BT011609.1 Arabidopsis thaliana At5g13330 mRNA, complete cds.
GenBank	BT012250	0.0	BT012250.1 Arabidopsis thaliana At5g13330 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_196837.1	1e-155	related to AP2 6l
Swissprot	Q9LYU3	1e-156	EF113_ARATH; Ethylene-responsive transcription factor ERF113
TrEMBL	A0A178UKL8	1e-154	A0A178UKL8_ARATH; Rap2.6L
STRING	AT5G13330.1	1e-155	(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	AT5G13330.1
Entrez Gene	831174
iHOP	AT5G13330
wikigenes	AT5G13330

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] Sun K,Cui Y,Hauser BA Environmental stress alters genes expression and induces ovule abortion: reactive oxygen species appear as ovules commit to abort. Planta, 2005. 222(4): p. 632-42 [PMID:16133218] Brenner WG,Romanov GA,K Immediate-early and delayed cytokinin response genes of Arabidopsis thaliana identified by genome-wide expression profiling reveal novel cytokinin-sensitive processes and suggest cytokinin action through transcriptional cascades. Plant J., 2005. 44(2): p. 314-33 [PMID:16212609] 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] Cai S,Lashbrook CC Stamen abscission zone transcriptome profiling reveals new candidates for abscission control: enhanced retention of floral organs in transgenic plants overexpressing Arabidopsis ZINC FINGER PROTEIN2. Plant Physiol., 2008. 146(3): p. 1305-21 [PMID:18192438] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Krishnaswamy SS, et al. Transcriptional profiling of pea ABR17 mediated changes in gene expression in Arabidopsis thaliana. BMC Plant Biol., 2008. 8: p. 91 [PMID:18783601] Van Leene J, et al. Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana. Mol. Syst. Biol., 2010. 6: p. 397 [PMID:20706207] Krishnaswamy S,Verma S,Rahman MH,Kav NN Functional characterization of four APETALA2-family genes (RAP2.6, RAP2.6L, DREB19 and DREB26) in Arabidopsis. Plant Mol. Biol., 2011. 75(1-2): p. 107-27 [PMID:21069430] Asahina M, et al. Spatially selective hormonal control of RAP2.6L and ANAC071 transcription factors involved in tissue reunion in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2011. 108(38): p. 16128-32 [PMID:21911380] Liu P,Sun F,Gao R,Dong H RAP2.6L overexpression delays waterlogging induced premature senescence by increasing stomatal closure more than antioxidant enzyme activity. Plant Mol. Biol., 2012. 79(6): p. 609-22 [PMID:22661072] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Huang Z,Zhao P,Medina J,Meilan R,Woeste K Roles of JnRAP2.6-like from the transition zone of black walnut in hormone signaling. PLoS ONE, 2013. 8(11): p. e75857 [PMID:24265672] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Asahina M,Satoh S Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues. J. Plant Res., 2015. 128(3): p. 381-8 [PMID:25736731] Hickman R, et al. Architecture and Dynamics of the Jasmonic Acid Gene Regulatory Network. Plant Cell, 2017. 29(9): p. 2086-2105 [PMID:28827376] Li B, et al. Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis. Plant Cell, 2018. 30(1): p. 178-195 [PMID:29317470] Matsuoka K, et al. RAP2.6L and jasmonic acid-responsive genes are expressed upon Arabidopsis hypocotyl grafting but are not needed for cell proliferation related to healing. Plant Mol. Biol., 2018. 96(6): p. 531-542 [PMID:29344830] Yang S,Poretska O,Sieberer T ALTERED MERISTEM PROGRAM1 Restricts Shoot Meristem Proliferation and Regeneration by Limiting HD-ZIP III-Mediated Expression of RAP2.6L. Plant Physiol., 2018. 177(4): p. 1580-1594 [PMID:29884678] 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]