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

AT3G16770.1

Common Name

ATEBP, EBP, ERF072, ERF72, MGL6.1, MGL6.24, RAP2-3, RAP2.3

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: 248aa MW: 27758 Da PI: 4.9441

Description

ethylene-responsive element binding protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G16770.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	61.7	1.7e-19	78	127	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+G+r ++ +g+W+AeIrdp++ r++lg+f taeeAa a++ a+k+++g AT3G16770.1 78 VYRGIRKRP-WGKWAAEIRDPRK---GVRVWLGTFNTAEEAAMAYDVAAKQIRG 127 69*****.******954...4**********************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00380	1.1E-36	78	141	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	24.171	78	135	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.23E-23	78	136	IPR016177	DNA-binding domain
Gene3D	G3DSA:3.30.730.10	2.0E-32	78	136	IPR001471	AP2/ERF domain
Pfam	PF00847	1.3E-13	78	127	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.6E-11	79	90	IPR001471	AP2/ERF domain
CDD	cd00018	3.09E-32	79	137	No hit	No description
PRINTS	PR00367	1.6E-11	101	117	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008219	Biological Process	cell death
GO:0009723	Biological Process	response to ethylene
GO:0009735	Biological Process	response to cytokinin
GO:0009753	Biological Process	response to jasmonic acid
GO:0009873	Biological Process	ethylene-activated signaling pathway
GO:0010286	Biological Process	heat acclimation
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051707	Biological Process	response to other organism
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0005886	Cellular Component	plasma membrane
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:0000013	anatomy	cauline 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: 248 aa Download sequence Send to blast
MCGGAIISDY APLVTKAKGR KLTAEELWSE LDASAADDFW GFYSTSKLHP TNQVNVKEEA 60 VKKEQATEPG KRRKRKNVYR GIRKRPWGKW AAEIRDPRKG VRVWLGTFNT AEEAAMAYDV 120 AAKQIRGDKA KLNFPDLHHP PPPNYTPPPS SPRSTDQPPA KKVCVVSQSE SELSQPSFPV 180 ECIGFGNGDE FQNLSYGFEP DYDLKQQISS LESFLELDGN TAEQPSQLDE SVSEVDMWML 240 DDVIASYE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gcc_A	3e-22	79	135	3	60	ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	71	85	RRKRKNVYRGIRKRP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.24773	0.0	flower\| leaf\| root\| seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145338605	0.0
Genevisible	258434_at	0.0
Expression Atlas	AT3G16770	-
AtGenExpress	AT3G16770	-
ATTED-II	AT3G16770	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in stems and leaves, and, to a lower extent, in roots, siliques and flowers. {ECO:0000269\|PubMed:18836139, ECO:0000269\|PubMed:9192694}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a member of the ERF (ethylene response factor) subfamily B-2 of the plant specific ERF/AP2 transcription factor family (RAP2.3). The protein contains one AP2 domain. There are 5 members in this subfamily including RAP2.2 AND RAP2.12.It is localized to the nucleus and acts as a transcriptional activator through the GCC-box. It has been identified as a suppressor of Bax-induced cell death by functional screening in yeast and can also suppress Bax-induced cell death in tobacco plants. Overexpression of this gene in tobacco BY-2 cells confers resistance to H2O2 and heat stresses. Overexpression in Arabidopsis causes upregulation of PDF1.2 and GST6. It is part of the ethylene signaling pathway and is predicted to act downstream of EIN2 and CTR1, but not under EIN3.
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, ECO:0000269\|PubMed:9159183}.

Function -- GeneRIF ? help Back to Top
Interaction of acyl-CoA-binding protein 4 with the ethylene-responsive element binding protein is induced by ethylene. [PMID: 18836139] AtEB domains bind to a target DNA motif with a universal CG step core recognition and different flanking bases preference [PMID: 19878300] RAP2.2, RAP2.3 and RAP2.12 play a role in modulating oxidative and osmotic stress tolerance during submergence acclimation. [PMID: 25847219]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00109	PBM	26531826	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G16770.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By 1-aminocyclopropane-1-carboxylic acid (ACC, ethylene precursor), methyl jasmonate (MeJA), and Botrytis cinerea. Also induced by cadmium. {ECO:0000269\|PubMed:18836139, ECO:0000269\|PubMed:9159183}.

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

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT4G36920 (R)

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT2G47730(A), AT3G23240(A), AT4G36920(A), AT5G44420(A)

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT5G10030, AT1G14920
IntAct	Search P42736

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G16770

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF003096	0.0	AF003096.1 Arabidopsis thaliana AP2 domain containing protein RAP2.3 mRNA, complete cds.
GenBank	AY035100	0.0	AY035100.1 Arabidopsis thaliana putative AP2 domain containing protein RAP2.3 (At3g16770) mRNA, complete cds.
GenBank	AY059917	0.0	AY059917.1 Arabidopsis thaliana AP2 domain transcription factor RAP2.3 (MGL6.24) mRNA, complete cds.
GenBank	AY087488	0.0	AY087488.1 Arabidopsis thaliana clone 35981 mRNA, complete sequence.
GenBank	AY142562	0.0	AY142562.1 Arabidopsis thaliana putative AP2 domain containing protein RAP2.3 (At3g16770) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_188299.1	0.0	ethylene-responsive element binding protein
Swissprot	P42736	0.0	RAP23_ARATH; Ethylene-responsive transcription factor RAP2-3
TrEMBL	A0A178VEQ3	1e-156	A0A178VEQ3_ARATH; RAP2.3
TrEMBL	O23143	1e-156	O23143_ARATH; Putative Ckc2
STRING	AT3G16770.1	0.0	(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	AT3G16770.1
Entrez Gene	820929
iHOP	AT3G16770
wikigenes	AT3G16770

Publications ? help Back to Top
Kang HG,Fang Y,Singh KB A glucocorticoid-inducible transcription system causes severe growth defects in Arabidopsis and induces defense-related genes. Plant J., 1999. 20(1): p. 127-33 [PMID:10571872] Belles-Boix E,Babiychuk E,Van Montagu M,Inzé D,Kushnir S CEO1, a new protein from Arabidopsis thaliana, protects yeast against oxidative damage. FEBS Lett., 2000. 482(1-2): p. 19-24 [PMID:11018516] 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] Li HY,Chye ML Arabidopsis Acyl-CoA-binding protein ACBP2 interacts with an ethylene-responsive element-binding protein, AtEBP, via its ankyrin repeats. Plant Mol. Biol., 2004. 54(2): p. 233-43 [PMID:15159625] Ogawa T, et al. Functional analysis of Arabidopsis ethylene-responsive element binding protein conferring resistance to Bax and abiotic stress-induced plant cell death. Plant Physiol., 2005. 138(3): p. 1436-45 [PMID:15980186] 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] Ogawa T,Uchimiya H,Kawai-Yamada M Mutual regulation of Arabidopsis thaliana ethylene-responsive element binding protein and a plant floral homeotic gene, APETALA2. Ann. Bot., 2007. 99(2): p. 239-44 [PMID:17204538] Bueso E, et al. The lithium tolerance of the Arabidopsis cat2 mutant reveals a cross-talk between oxidative stress and ethylene. Plant J., 2007. 52(6): p. 1052-65 [PMID:17931347] 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] Li HY,Xiao S,Chye ML Ethylene- and pathogen-inducible Arabidopsis acyl-CoA-binding protein 4 interacts with an ethylene-responsive element binding protein. J. Exp. Bot., 2008. 59(14): p. 3997-4006 [PMID:18836139] Govrin EM,Rachmilevitch S,Tiwari BS,Solomon M,Levine A An Elicitor from Botrytis cinerea Induces the Hypersensitive Response in Arabidopsis thaliana and Other Plants and Promotes the Gray Mold Disease. Phytopathology, 2006. 96(3): p. 299-307 [PMID:18944445] Ceserani T,Trofka A,Gandotra N,Nelson T VH1/BRL2 receptor-like kinase interacts with vascular-specific adaptor proteins VIT and VIK to influence leaf venation. Plant J., 2009. 57(6): p. 1000-14 [PMID:19000166] Wang S, et al. Molecular dynamics simulations reveal the disparity in specific recognition of GCC-box by AtERFs transcription factors super family in Arabidopsis. J. Mol. Recognit., 2009 Nov-Dec. 22(6): p. 474-9 [PMID:19533627] Yang S, et al. Four divergent Arabidopsis ethylene-responsive element-binding factor domains bind to a target DNA motif with a universal CG step core recognition and different flanking bases preference. FEBS J., 2009. 276(23): p. 7177-86 [PMID:19878300] Ahn IP Disturbance of the Ca(2+)/calmodulin-dependent signalling pathway is responsible for the resistance of Arabidopsis dnd1 against Pectobacterium carotovorum infection. Mol. Plant Pathol., 2007. 8(6): p. 747-59 [PMID:20507535] Gao W,Li HY,Xiao S,Chye ML Protein interactors of acyl-CoA-binding protein ACBP2 mediate cadmium tolerance in Arabidopsis. Plant Signal Behav, 2010. 5(8): p. 1025-7 [PMID:20657176] S Determination of primary sequence specificity of Arabidopsis MAPKs MPK3 and MPK6 leads to identification of new substrates. Biochem. J., 2012. 446(2): p. 271-8 [PMID:22631074] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Chen YC, et al. Root defense analysis against Fusarium oxysporum reveals new regulators to confer resistance. Sci Rep, 2014. 4: p. 5584 [PMID:24998294] Mar Large-scale identification of gibberellin-related transcription factors defines group VII ETHYLENE RESPONSE FACTORS as functional DELLA partners. Plant Physiol., 2014. 166(2): p. 1022-32 [PMID:25118255] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Papdi C, et al. The low oxygen, oxidative and osmotic stress responses synergistically act through the ethylene response factor VII genes RAP2.12, RAP2.2 and RAP2.3. Plant J., 2015. 82(5): p. 772-84 [PMID:25847219] Deslauriers SD,Alvarez AA,Lacey RF,Binder BM,Larsen PB Dominant gain-of-function mutations in transmembrane domain III of ERS1 and ETR1 suggest a novel role for this domain in regulating the magnitude of ethylene response in Arabidopsis. New Phytol., 2015. 208(2): p. 442-55 [PMID:25988998] Bui LT,Giuntoli B,Kosmacz M,Parlanti S,Licausi F Constitutively expressed ERF-VII transcription factors redundantly activate the core anaerobic response in Arabidopsis thaliana. Plant Sci., 2015. 236: p. 37-43 [PMID:26025519] Gasch P, et al. Redundant ERF-VII Transcription Factors Bind to an Evolutionarily Conserved cis-Motif to Regulate Hypoxia-Responsive Gene Expression in Arabidopsis. Plant Cell, 2016. 28(1): p. 160-80 [PMID:26668304] Liu W, et al. Ethylene response factor AtERF72 negatively regulates Arabidopsis thaliana response to iron deficiency. Biochem. Biophys. Res. Commun., 2017. 491(3): p. 862-868 [PMID:28390898] Yao Y,Chen X,Wu AM ERF-VII members exhibit synergistic and separate roles in Arabidopsis. Plant Signal Behav, 2017. 12(6): p. e1329073 [PMID:28537474] Büttner M,Singh KB Arabidopsis thaliana ethylene-responsive element binding protein (AtEBP), an ethylene-inducible, GCC box DNA-binding protein interacts with an ocs element binding protein. Proc. Natl. Acad. Sci. U.S.A., 1997. 94(11): p. 5961-6 [PMID:9159183] 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]