PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC9_p6
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family ERF
Protein Properties Length: 261aa    MW: 29426.9 Da    PI: 6.6368
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC9_p6genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP262.59e-2091140255
      AP2   2 gykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
              +y+GVr+++ +g+W+AeIrdp     + +r++lg+f tae Aa a+++a++k++g
  RrC9_p6  91 HYRGVRQRP-WGKWAAEIRDPQ----KaARVWLGTFETAEAAALAYDEAALKFKG 140
              7********.**********93....36************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.730.105.1E-3390149IPR001471AP2/ERF domain
PROSITE profilePS5103224.94891148IPR001471AP2/ERF domain
SuperFamilySSF541714.51E-2291149IPR016177DNA-binding domain
SMARTSM003804.7E-3791154IPR001471AP2/ERF domain
PfamPF008476.3E-1491140IPR001471AP2/ERF domain
CDDcd000182.30E-2091149No hitNo description
PRINTSPR003671.7E-1192103IPR001471AP2/ERF domain
PRINTSPR003671.7E-11114130IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 261 aa     Download sequence    Send to blast
MANQRNYGKM PFLAGESEEK KEVDDEENIF PFLSARSQYD TRAMVSALTQ VIGNQSSTHD  60
TNQHHPVEYN QQDLIQHVPP TQDQGNLRKR HYRGVRQRPW GKWAAEIRDP QKAARVWLGT  120
FETAEAAALA YDEAALKFKG SKAKLNFPER AQLASSTSTI TGPPNYYSSN NQIYYSNPQT  180
NPVQTIPYYN QYYYNQYLQQ GGNSNDSLSY SLASGETGGS VYNHQSLSTT TSSSGGSSRQ  240
QEEQDYARFW HFGDSSPNSG F
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A2e-2690150162ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs as a transcriptional activator of the phytosulfokine PSK5 peptide hormone. Binds to the GCC-box pathogenesis-related promoter element. Rate-limiting factor of quiescent center cell division active when surrounding stem cells are damaged. Is a proteolytic target of APC/C-FZR1 complex. {ECO:0000269|PubMed:24158907}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00495DAPTransfer from AT5G07310Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by brassinosteroid, but not regulated by ethylene. {ECO:0000269|PubMed:24158907}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5608850.0AY560885.1 Arabidopsis thaliana putative AP2/EREBP transcription factor (At5g07310) mRNA, complete cds.
GenBankBT0257170.0BT025717.1 Arabidopsis thaliana At5g07310 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018444463.11e-145PREDICTED: ethylene-responsive transcription factor ERF115
SwissprotQ9LY291e-133EF115_ARATH; Ethylene-responsive transcription factor ERF115
TrEMBLA0A397ZYZ21e-137A0A397ZYZ2_BRACM; Uncharacterized protein
TrEMBLM4CNZ41e-137M4CNZ4_BRARP; Uncharacterized protein
TrEMBLV4N5C11e-137V4N5C1_EUTSA; Uncharacterized protein
STRINGBra005932.1-P1e-138(Brassica rapa)
STRINGXP_006399213.11e-138(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM52921851
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G07310.11e-98ERF family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Zhang Y, et al.
    Shade avoidance 6 encodes an Arabidopsis flap endonuclease required for maintenance of genome integrity and development.
    Nucleic Acids Res., 2016. 44(3): p. 1271-84
    [PMID:26721386]
  4. Zhang Y, et al.
    TOPOISOMERASE1α Acts through Two Distinct Mechanisms to Regulate Stele and Columella Stem Cell Maintenance.
    Plant Physiol., 2016. 171(1): p. 483-93
    [PMID:26969721]
  5. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]
  6. Kong X, et al.
    PHB3 Maintains Root Stem Cell Niche Identity through ROS-Responsive AP2/ERF Transcription Factors in Arabidopsis.
    Cell Rep, 2018. 22(5): p. 1350-1363
    [PMID:29386120]