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

AT1G12980.1

Common Name

DRN, ERF089, ESR1, F3F19.1

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: 328aa MW: 36319.1 Da PI: 9.0825

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G12980.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	54.4	3.1e-17	55	105	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 ++y+GVr+++ +gr++AeIrdp + r +lg+f+tae+Aa a++ a+++++g AT1G12980.1 55 TRYRGVRRRP-WGRYAAEIRDPM----SkERRWLGTFDTAEQAACAYDSAARAFRG 105 68******.******84....35999*******************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	2.93E-29	55	112	No hit	No description
Pfam	PF00847	7.5E-10	55	105	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.1E-21	56	114	IPR016177	DNA-binding domain
Gene3D	G3DSA:3.30.730.10	4.2E-29	56	113	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	22.589	56	113	IPR001471	AP2/ERF domain
SMART	SM00380	9.6E-32	56	119	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.0E-9	57	68	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.0E-9	79	95	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:0009734	Biological Process	auxin-activated signaling pathway
GO:0009735	Biological Process	response to cytokinin
GO:0009736	Biological Process	cytokinin-activated signaling pathway
GO:0009873	Biological Process	ethylene-activated signaling pathway
GO:0009880	Biological Process	embryonic pattern specification
GO:0010084	Biological Process	specification of organ axis polarity
GO:0048825	Biological Process	cotyledon development
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
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:0000001	anatomy	plant embryo proper
PO:0006362	anatomy	embryo shoot apical meristem
PO:0009009	anatomy	plant embryo
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage

Sequence ? help Back to Top
Protein Sequence Length: 328 aa Download sequence Send to blast
MEKALRNFTE STHSPDPNPL TKFFTEPTAS PVSRNRKLSS KDTTVTIAGA GSSTTRYRGV 60 RRRPWGRYAA EIRDPMSKER RWLGTFDTAE QAACAYDSAA RAFRGAKART NFTYPTAVIM 120 PEPRFSFSNK KSSPSARCPL PSLPLDSSTQ NFYGAPAAQR IYNTQSIFLR DASCSSRKTT 180 PYNNSFNGSS SSYSASKTAC VSYSENENNE SFFPEESSDT GLLQEVVQEF LKKNRGVPPS 240 PPTPPPVTSH HDNSGYFSNL TIYSENMVQE TKETLSSKLD RYGNFQANDD GVRAVADGGL 300 SLGSNEWGYQ EMLMYGTQLG CTCRRSWG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wx9_A	4e-19	49	112	7	71	Ethylene-responsive transcription factor ERF096
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	AT1G12980
AtGenExpress	AT1G12980

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First observed in the embryo at four-cell stage. At the globular stage, localized in cotyledons primordia. Later confined to embryonic cotyledons tips. Expressed from embryogenesis onward in the central zone of the shoot apical and floral meristems, in organ anlagen, and (transiently) in the distal domains of organ primordia. {ECO:0000269\|PubMed:12615942, ECO:0000269\|PubMed:17376809}.
Uniprot	TISSUE SPECIFICITY: Expressed in shoot apical and floral meristems, and in organ primordia. Transient expression during shoot regeneration. {ECO:0000269\|PubMed:11752375, ECO:0000269\|PubMed:12615942, ECO:0000269\|PubMed:17376809}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes an AP2/ERF protein, is expressed in a subdomain of meristem stem cells, in lateral organ anlagen, and transiently in the distal domain of organ primordia. It is a member of the ERF (ethylene response factor) subfamily B-1 of ERF/AP2 transcription factor family (ESR1). The protein contains one AP2 domain. There are 15 members in this subfamily including ATERF-3, ATERF-4, ATERF-7, and leafy petiole. Can confer cytokinin-independent shoot formation and causes severe meristem defects when overexpressed in Arabidopsis root explants. Involved in controlling embryogenesis and embryo patterning by interaction with PHAVOLUTA.
UniProt	Regulates gene expression patterns in meristems and thus modulates organ development. Required for correct embryo patterning and cotyledon organogenesis. Modulates auxin signaling pathway in early embryos. Involved in the cytokinin signaling pathway that promotes shoot regeneration. 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:11752375, ECO:0000269\|PubMed:12615942, ECO:0000269\|PubMed:17376809}.

Function -- GeneRIF ? help Back to Top
Drn Drnl double mutants with weak or strong drnl alleles show more highly penetrant and extreme phenotypes, including a pin-like embryo without cotyledons, confirming a high degree of functional redundancy for the two genes in embryo patterning. [PMID: 17376809] while overexpression of ESR1 fused with a strong repression domain, SRDX, inhibited shoot regeneration. These results suggest that ESR1 induces shoot regeneration through its transactivating ability [PMID: 18771931] interaction of BIM1 with DRN, involved with auxin signalling, represents a possible point of hormonal crosstalk in embryonic patterning and the first example of an interaction of components of the auxin and BR signalling pathways [PMID: 18830673] MP binds in vivo to two AuxRE-spanning fragments in the DRN promoter; MP is required for expression of DRN in cotyledon tips. Hence, DRN represents a direct target of MP and functions downstream of MP in cotyledon development [PMID: 19369397] DRN and DRNL act cell-autonomously and are co-expressed in the early globular embryo, whereas expression patterns diverge during later stages of embryogeny [PMID: 21161330] ESR1 is expressed both prior to and during shoot formation, whereas ESR2 is expressed only during shoot formation. [PMID: 21600396] Although DRN and DRNL transgenic lines are both activated in surface cells, their promoter activity marks different cell identities. [PMID: 23011125] These results define new roles for KH-domain containing proteins with ESR1 unlinking jasmonic acid-mediated growth and defense responses. [PMID: 25985302] Study shows that DRN and DRNL promote cell proliferation, most probably via the G1-S transition. [PMID: 27277595] WIND1 directly binds the ESR1 promoter and activates tts expression. [PMID: 28011694] The combined loss of function of DORNROSCHEN, DORNROSCHEN-LIKE, and PUCHI leads to synergistic floral phenotypes, including reduced floral merosity in all whorls, which reflects redundant functions of all three genes in organ initiation rather than outgrowth. [PMID: 28859377] Auxin signaling in stem cells is mediated, at least in part, by AUXIN RESPONSE FACTOR 5/MONOPTEROS (ARF5/MP), which directly represses the transcription of DORNROSCHEN/ENHANCER OF SHOOT REGENERATION 1 (DRN/ESR1). DRN expressed in stem cells positively regulates CLAVATA3 (CLV3) expression and has important meristematic functions. [PMID: 29730265]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G12980.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cytokinins. {ECO:0000269\|PubMed:11752375}.

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	AT1G19850 (A)

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT2G17950(A), AT2G27250(A)

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

Interaction ? help Back to Top
Source	Intact With
BioGRID	AT1G14920, AT1G24590, AT1G30490
IntAct	Search Q9SAD4

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G12980

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBank	F3F19	0.0	AC007357.2 Arabidopsis thaliana chromosome 1 BAC F3F19 sequence, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_172758.1	0.0	Integrase-type DNA-binding superfamily protein
Swissprot	Q9SAD4	0.0	ESR1_ARATH; Ethylene-responsive transcription factor ESR1
TrEMBL	A0A178WKM4	0.0	A0A178WKM4_ARATH; ESR1
STRING	AT1G12980.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14072	17	23
Representative plant	OGRP6	16	1718

Link Out ? help Back to Top
Phytozome	AT1G12980.1
Entrez Gene	837856
iHOP	AT1G12980
wikigenes	AT1G12980

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] Eckardt NA, et al. Arabidopsis research 2001. Plant Cell, 2001. 13(9): p. 1973-82 [PMID:11549757] Banno H,Ikeda Y,Niu QW,Chua NH Overexpression of Arabidopsis ESR1 induces initiation of shoot regeneration. Plant Cell, 2001. 13(12): p. 2609-18 [PMID:11752375] Kirch T,Simon R,Grünewald M,Werr W The DORNROSCHEN/ENHANCER OF SHOOT REGENERATION1 gene of Arabidopsis acts in the control of meristem ccll fate and lateral organ development. Plant Cell, 2003. 15(3): p. 694-705 [PMID:12615942] 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] Zimmermann R,Werr W Transcription of the putative maize orthologue of the Arabidopsis DORNROSCHEN gene marks early asymmetry in the proembryo and during leaf initiation in the shoot apical meristem. Gene Expr. Patterns, 2007. 7(1-2): p. 158-64 [PMID:16880009] Lim TS,Chitra TR,Han P,Pua EC,Yu H Cloning and characterization of Arabidopsis and Brassica juncea flavin-containing amine oxidases. J. Exp. Bot., 2006. 57(15): p. 4155-69 [PMID:17122409] Chandler JW,Cole M,Flier A,Grewe B,Werr W The AP2 transcription factors DORNROSCHEN and DORNROSCHEN-LIKE redundantly control Arabidopsis embryo patterning via interaction with PHAVOLUTA. Development, 2007. 134(9): p. 1653-62 [PMID:17376809] Matsuo N,Banno H The Arabidopsis transcription factor ESR1 induces in vitro shoot regeneration through transcriptional activation. Plant Physiol. Biochem., 2008. 46(12): p. 1045-50 [PMID:18771931] Chandler JW,Cole M,Flier A,Werr W BIM1, a bHLH protein involved in brassinosteroid signalling, controls Arabidopsis embryonic patterning via interaction with DORNROSCHEN and DORNROSCHEN-LIKE. Plant Mol. Biol., 2009. 69(1-2): p. 57-68 [PMID:18830673] Cole M, et al. DORNROSCHEN is a direct target of the auxin response factor MONOPTEROS in the Arabidopsis embryo. Development, 2009. 136(10): p. 1643-51 [PMID:19369397] Chandler JW,Cole M,Werr W The role of DORNROESCHEN (DRN) and DRN-LIKE (DRNL) in Arabidopsis embryonic patterning. Plant Signal Behav, 2008. 3(1): p. 49-51 [PMID:19704719] Chandler JW,Cole M,Jacobs B,Comelli P,Werr W Genetic integration of DORNR Plant Mol. Biol., 2011. 75(3): p. 223-36 [PMID:21161330] Chandler JW,Jacobs B,Cole M,Comelli P,Werr W DORNR Plant Mol. Biol., 2011. 76(1-2): p. 171-85 [PMID:21547450] Matsuo N,Makino M,Banno H Arabidopsis ENHANCER OF SHOOT REGENERATION (ESR)1 and ESR2 regulate in vitro shoot regeneration and their expressions are differentially regulated. Plant Sci., 2011. 181(1): p. 39-46 [PMID:21600396] Eklund DM, et al. Expression of Arabidopsis SHORT INTERNODES/STYLISH family genes in auxin biosynthesis zones of aerial organs is dependent on a GCC box-like regulatory element. Plant Physiol., 2011. 157(4): p. 2069-80 [PMID:21976484] Meinke DW A survey of dominant mutations in Arabidopsis thaliana. Trends Plant Sci., 2013. 18(2): p. 84-91 [PMID:22995285] Cole M, et al. Live imaging of DORNR Plant Cell Rep., 2013. 32(1): p. 45-59 [PMID:23011125] 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] Thatcher LF,Kamphuis LG,Hane JK,O The Arabidopsis KH-Domain RNA-Binding Protein ESR1 Functions in Components of Jasmonate Signalling, Unlinking Growth Restraint and Resistance to Stress. PLoS ONE, 2015. 10(5): p. e0126978 [PMID:25985302] Seeliger I, et al. The AP2-type transcription factors DORNRÖSCHEN and DORNRÖSCHEN-LIKE promote G1/S transition. Mol. Genet. Genomics, 2016. 291(5): p. 1835-49 [PMID:27277595] 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] Capua Y,Eshed Y Coordination of auxin-triggered leaf initiation by tomato LEAFLESS. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(12): p. 3246-3251 [PMID:28270611] Chandler JW,Werr W DORNRÖSCHEN, DORNRÖSCHEN-LIKE, and PUCHI redundantly control floral meristem identity and organ initiation in Arabidopsis. J. Exp. Bot., 2017. 68(13): p. 3457-3472 [PMID:28859377] Luo L,Zeng J,Wu H,Tian Z,Zhao Z A Molecular Framework for Auxin-Controlled Homeostasis of Shoot Stem Cells in Arabidopsis. Mol Plant, 2018. 11(7): p. 899-913 [PMID:29730265]