PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G18560.1
Common NameERF086, PUCHI, T28N17.40
Organism
Taxonomic ID
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: 348aa    MW: 38455.2 Da    PI: 6.5068
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G18560.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP255.81.1e-1755103355
          AP2   3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                  + GVr+++ +gr++AeIrdp++   + r++lg+f+ta eAa a+++a+++++g
  AT5G18560.1  55 FLGVRRRP-WGRYAAEIRDPTT---KERHWLGTFDTAHEAALAYDRAALSMRG 103
                  56******.**********965...5*************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5103220.69254111IPR001471AP2/ERF domain
SMARTSM003804.5E-3454117IPR001471AP2/ERF domain
CDDcd000187.63E-3054110No hitNo description
PRINTSPR003672.4E-75566IPR001471AP2/ERF domain
SuperFamilySSF541712.55E-2055111IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.106.4E-2855110IPR001471AP2/ERF domain
PfamPF008473.8E-1157103IPR001471AP2/ERF domain
PRINTSPR003672.4E-77793IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009873Biological Processethylene-activated signaling pathway
GO:0010102Biological Processlateral root morphogenesis
GO:0010432Biological Processbract development
GO:0010451Biological Processfloral meristem growth
GO:0010582Biological Processfloral meristem determinacy
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000016anatomylateral root primordium
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0000229anatomyflower meristem
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0009062anatomygynoecium
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020127anatomyprimary root
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001017developmental stageM germinated pollen stage
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007601developmental stagefloral organ meristem development stage
PO:0007602developmental stagefloral organ primordium development stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 348 aa     Download sequence    Send to blast
MSTSKTLDHN KPFETSQTQM GFALIHQNTS ANTTTTTTTG ERRGRRSKQA EPGRFLGVRR  60
RPWGRYAAEI RDPTTKERHW LGTFDTAHEA ALAYDRAALS MRGTQARTNF VYTPTDVHTI  120
LTNPNLHSLI VSPYNNNQSF LPNSSPQFVI DHHPHYQNYH QPQQPKHTLP QTVLPAASFK  180
TPVRHQSVDI QAFGNSPQNS SSNGSLSSSL DEENNFFFSL TSEEHNKSNN NSGYLDCIVP  240
NHCLKPPPEA TTTQNQAGAS FTTPVASKAS EPYGGFSNSY FEDGEMMMMN HHEFGSCDLS  300
AMITNYGAAA ASMSMEDYGM MEPQDLSSSS IAAFGDVVAD TTGFYSVF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wx9_A3e-2044110471Ethylene-responsive transcription factor ERF096
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible249992_at0.0
Expression AtlasAT5G18560-
AtGenExpressAT5G18560-
ATTED-IIAT5G18560-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the early stages of lateral root primordia formation (PubMed:17630277). Expressed in early floral meristem (stage 1 to 2) (PubMed:19482972). {ECO:0000269|PubMed:17630277, ECO:0000269|PubMed:19482972}.
Functional Description ? help Back to Top
Source Description
TAIREncodes PUCHI, a member of the ERF (ethylene response factor) subfamily B-1 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 15 members in this subfamily including ATERF-3, ATERF-4, ATERF-7, and leafy petiole. PUCHI is required for morphogenesis in the early lateral root primordium of Arabidopsis. Expressed in early floral meristem (stage 1 to 2). Required for early floral meristem growth and for bract suppression. Triple mutant with bop1 and bop2 displays a strong defect in the determination of floral meristem identity with reduced LFY expression and the lack of AP1 expression.
UniProtProbably acts as a transcriptional activator. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Involved in the control of cell division patterns during the early lateral root primordium development. Acts downstream of auxin signaling (PubMed:17630277). Regulated by ARF7 and ARF19 in response to auxin. Co-acts with LBD16 and LBD18 to control lateral root development (PubMed:23749813). Involved in the determination of floral meristem identity and suppression of bract growth. Required for proper conversion of secondary inflorescences to flowers. Acts together with NPR5/BOP2 and NPR6/BOP1 to promote expression of LFY and AP1, two central regulators of floral meristem identity (PubMed:19482972). {ECO:0000250|UniProtKB:Q9LND1, ECO:0000269|PubMed:17630277, ECO:0000269|PubMed:19482972, ECO:0000269|PubMed:23749813}.
Function -- GeneRIF ? help Back to Top
  1. These results suggest that PUCHI acts downstream of auxin signaling and that this gene contributes to lateral root morphogenesis.[PUCHI]
    [PMID: 17630277]
  2. PUCHI is required for flower meristem identity.
    [PMID: 19482972]
  3. STY1 expression in the strong drnl-2 mutant or the drn drnl-1 puchi-1 triple mutant, carrying knockdown mutations in both DRNL and its close paralogue DRN as well as one of their closest homologs, PUCHI, was significantly reduced.
    [PMID: 21976484]
  4. PUCHI co-acts with LBD16 and LBD18 to control lateral root primordium development and lateral root emergence.
    [PMID: 23749813]
  5. 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]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00520DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G18560.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:17630277, ECO:0000269|PubMed:23749813}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT5G61850(A)
Regulation -- Hormone ? help Back to Top
Source Hormone
AHDauxin
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Disturbed cell division patterns in lateral root primordia leading to the expansion of the proximal region of lateral roots. Short lateral roots in young seedlings (PubMed:17630277). In the shoot, formation of small pin-shaped protrusions at the base of pedicels (PubMed:17630277, PubMed:19482972). {ECO:0000269|PubMed:17630277, ECO:0000269|PubMed:19482972}.
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G18560
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0693280.0AC069328.1 Genomic Sequence For Arabidopsis thaliana Clone T28N17 From Chromosome V, complete sequence.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_197357.20.0Integrase-type DNA-binding superfamily protein
SwissprotQ6J9Q20.0ERF86_ARATH; Ethylene-responsive transcription factor ERF086
TrEMBLA0A178URC30.0A0A178URC3_ARATH; PUCHI
STRINGAT5G18560.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM54872650
Representative plantOGRP6161718
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. 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]
  3. Czechowski T,Bari RP,Stitt M,Scheible WR,Udvardi MK
    Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes.
    Plant J., 2004. 38(2): p. 366-79
    [PMID:15078338]
  4. 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]
  5. Rajagopalan R,Vaucheret H,Trejo J,Bartel DP
    A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana.
    Genes Dev., 2006. 20(24): p. 3407-25
    [PMID:17182867]
  6. Hirota A,Kato T,Fukaki H,Aida M,Tasaka M
    The auxin-regulated AP2/EREBP gene PUCHI is required for morphogenesis in the early lateral root primordium of Arabidopsis.
    Plant Cell, 2007. 19(7): p. 2156-68
    [PMID:17630277]
  7. 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]
  8. 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]
  9. Bertoni G
    PUCHI and floral meristem identity.
    Plant Cell, 2009. 21(5): p. 1327
    [PMID:19482969]
  10. Karim MR,Hirota A,Kwiatkowska D,Tasaka M,Aida M
    A role for Arabidopsis PUCHI in floral meristem identity and bract suppression.
    Plant Cell, 2009. 21(5): p. 1360-72
    [PMID:19482972]
  11. 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]
  12. Gaudinier A, et al.
    Enhanced Y1H assays for Arabidopsis.
    Nat. Methods, 2011. 8(12): p. 1053-5
    [PMID:22037706]
  13. Kang NY,Lee HW,Kim J
    The AP2/EREBP gene PUCHI Co-Acts with LBD16/ASL18 and LBD18/ASL20 downstream of ARF7 and ARF19 to regulate lateral root development in Arabidopsis.
    Plant Cell Physiol., 2013. 54(8): p. 1326-34
    [PMID:23749813]
  14. Chandler JW,Werr W
    Arabidopsis floral phytomer development: auxin response relative to biphasic modes of organ initiation.
    J. Exp. Bot., 2014. 65(12): p. 3097-110
    [PMID:24744428]
  15. 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]
  16. Chandler JW,Werr W
    DORNRĂ–SCHEN, DORNRĂ–SCHEN-LIKE, and PUCHI redundantly control floral meristem identity and organ initiation in Arabidopsis.
    J. Exp. Bot., 2017. 68(13): p. 3457-3472
    [PMID:28859377]
  17. Chandler JW
    Class VIIIb APETALA2 Ethylene Response Factors in Plant Development.
    Trends Plant Sci., 2018. 23(2): p. 151-162
    [PMID:29074232]