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 XP_013587957.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family ARF
Protein Properties Length: 543aa    MW: 59727.8 Da    PI: 5.1049
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013587957.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.13.3e-23119220199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f k+ltpsd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv+ ++L +gD+vvF+  ++s
  XP_013587957.1 119 FAKILTPSDANNGGGFSVPRYCADSVfppldfhADPPVQ--KLFITDIHGVVWDFRHIYRGTPRRHLLTTGWSKFVNGKKLIAGDSVVFM--RKS 209
                     89*********************999*****97555555..7************************************************..447 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                       e++++v+r+
  XP_013587957.1 210 VDEMFIGVRRA 220
                     88899***997 PP
2Auxin_resp68.52.1e-23253326174
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrW 74 
                     a+++a ++ +FevvY+P a++s+Fvv++e+ve ++   +s+G+R+kma+etedss+ ++ +G+v++  + ++  W
  XP_013587957.1 253 AINKAVQGYPFEVVYYPTAGWSDFVVRAEDVEVSMAGYWSPGTRVKMAMETEDSSRVTWfQGVVSSRFQ-ETGLW 326
                     57889999***************************************************8999987655.44444 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.3E-33110222IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.31E-28112224IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.647119221IPR003340B3 DNA binding domain
PfamPF023621.7E-20119220IPR003340B3 DNA binding domain
CDDcd100177.50E-20119215No hitNo description
SMARTSM010194.2E-20119221IPR003340B3 DNA binding domain
PfamPF065073.0E-18253326IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 543 aa     Download sequence    Send to blast
MSPPPPATAD FLREVDPQIW RACAGASVQI PSLYSRVYYF PQGHVEHSCP SSLISSLSTA  60
PVPCVVSAVE LLPDPITDEV FAHLALQPIS PEHFSPSNFS GFGSDDDENN NSNSKVVTFA  120
KILTPSDANN GGGFSVPRYC ADSVFPPLDF HADPPVQKLF ITDIHGVVWD FRHIYRGTPR  180
RHLLTTGWSK FVNGKKLIAG DSVVFMRKSV DEMFIGVRRA PNSNHGDEYY GGGKKGFRRI  240
GMGKLTAEAV SEAINKAVQG YPFEVVYYPT AGWSDFVVRA EDVEVSMAGY WSPGTRVKMA  300
METEDSSRVT WFQGVVSSRF QETGLWKQLQ ITWDEPEILQ NLKRVNPWQV EVVANSSQLL  360
AIYPPTKRLK HSNSASGFLS GEGGEMLYSG RGQQAVDPSP YLFSYTTFPA GMQGARHYEF  420
GSFNSTGFIG ENTPQLCTNN FFNPLPGLRK ISTEMMNYGS PLSDDLSPNS NTTNLSSGNE  480
QVGNRGHAVR VNSIQLFGQI INVQELTESG LAEGLYEEDG SKESSDNEVV NETQLSLTYA  540
QGM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A6e-621535851395Auxin response factor 5
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013587957.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794790.0JN979479.1 Brassica rapa subsp. pekinensis auxin response factor 17-1 (ARF17-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013587957.10.0PREDICTED: auxin response factor 17-like
RefseqXP_013587958.10.0PREDICTED: auxin response factor 17-like
RefseqXP_013664487.10.0auxin response factor 17-like
RefseqXP_022566775.10.0auxin response factor 17-like
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A0D3CW320.0A0A0D3CW32_BRAOL; Auxin response factor
STRINGBo6g081980.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.10.0auxin response factor 17
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  3. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]