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 RrC15006_p1
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: 312aa    MW: 34636.6 Da    PI: 6.0039
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC15006_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP260.15.2e-19113163155
          AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                  ++y+GVr+++ +grW+AeIrdp     r  r +lg++ taeeAa  ++ a+ +l+g
  RrC15006_p1 113 KKYRGVRQRP-WGRWAAEIRDPL----RrVRLWLGTYNTAEEAALVYDSAAIQLRG 163
                  59********.**********72....45*************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.47E-31113170No hitNo description
PfamPF008476.0E-13114163IPR001471AP2/ERF domain
SMARTSM003802.3E-36114177IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.6E-30114171IPR001471AP2/ERF domain
PROSITE profilePS5103223.933114171IPR001471AP2/ERF domain
SuperFamilySSF541712.29E-21114171IPR016177DNA-binding domain
PRINTSPR003674.8E-10115126IPR001471AP2/ERF domain
PRINTSPR003674.8E-10137153IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042991Biological Processtranscription factor import into nucleus
GO:0048364Biological Processroot development
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 312 aa     Download sequence    Send to blast
METEKQLVLP KTKSTEHKTN TTRTEPDLTN HHHYQPRILR ISVTDPDATD SSSDEEEQRL  60
VSKRRRIKKF VNEVALDSGR TSQTEPKKRR KRAVTVKPEP ASAPALPTTT TEKKYRGVRQ  120
RPWGRWAAEI RDPLRRVRLW LGTYNTAEEA ALVYDSAAIQ LRGPDALTNF SSPPPSTEKT  180
SPPPPPVKRK RKIRYDAASS SASSDGVCSP VSVLRSPFAA DETAAVIVKE EPSPSASASE  240
AFSDFSAPLF TDEDLFDFGS YVVPDYLGGD IFADTCTDMS FGFDFGSGLS DWHVDDHFQD  300
IGDLFGSDPM IV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2gcc_A2e-19113170462ATERF1
3gcc_A2e-19113170462ATERF1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16266KRRRI
28690KKRRK
Functional Description ? help Back to Top
Source Description
UniProtComponent of the cytokinin signaling pathway involved in cotyledons, leaves, and embryos development. 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:16832061}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00027PBMTransfer from AT4G23750Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cytokinins. {ECO:0000269|PubMed:16832061}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018468552.10.0PREDICTED: ethylene-responsive transcription factor CRF2-like
SwissprotQ9SUQ21e-133CRF2_ARATH; Ethylene-responsive transcription factor CRF2
TrEMBLA0A3P5Z4D31e-163A0A3P5Z4D3_BRACM; Uncharacterized protein
STRINGBra013730.1-P1e-164(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM10281650
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23750.21e-113cytokinin response factor 2
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. Ckurshumova W,Berleth T
    Overcoming recalcitrance - Auxin response factor functions in plant regeneration.
    Plant Signal Behav, 2015. 10(7): p. e993293
    [PMID:26098229]
  4. Raines T, et al.
    The cytokinin response factors modulate root and shoot growth and promote leaf senescence in Arabidopsis.
    Plant J., 2016. 85(1): p. 134-47
    [PMID:26662515]
  5. Jeon J,Cho C,Lee MR,Van Binh N,Kim J
    CYTOKININ RESPONSE FACTOR2 (CRF2) and CRF3 Regulate Lateral Root Development in Response to Cold Stress in Arabidopsis.
    Plant Cell, 2016. 28(8): p. 1828-43
    [PMID:27432872]