PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_013590621.1
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: 557aa    MW: 60514.6 Da    PI: 5.3487
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013590621.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.71.9e-22117218199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f kvlt sd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv++++L  gD+vvF+  ++s
  XP_013590621.1 117 FAKVLTASDANNGGGFSVPRYCADSVfppldfqADPPVQ--KLFITDVHGGVWDFRHIYRGTPRRHLLTTGWSKFVNSKKLICGDSVVFM--RKS 207
                     89*********************999*****95444444..8************************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                       e++++v+r+
  XP_013590621.1 208 VHEMFIGVRRA 218
                     88899***997 PP
2Auxin_resp71.32.9e-24275341368
      Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsd 68 
                      +as + +FevvY+P a++seFvv++e+ve++++v +++G+R+kma+etedss++++ +G+v+++ +
  XP_013590621.1 275 GKASRGLPFEVVYYPTAGWSEFVVRAEDVEASTNVYWTPGTRVKMAMETEDSSRITWfQGIVSATFQ 341
                     5789999**************************************************9999987655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.9E-32111221IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.15E-28111219IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.182117219IPR003340B3 DNA binding domain
SMARTSM010197.1E-20117219IPR003340B3 DNA binding domain
CDDcd100175.45E-19117213No hitNo description
PfamPF023627.8E-20117218IPR003340B3 DNA binding domain
PfamPF065073.1E-19276341IPR010525Auxin 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 557 aa     Download sequence    Send to blast
MSPPSAIADV HRVIDPKIWR ACAGASVQIP ALFSRVYYYP QGHVEHCCPS SSAVTTSPIA  60
CVVSSIDLLA DPITDEVFAH LALLPVAAAA AAAQDQFQFP PQSRFEEDGE SEKVVTFAKV  120
LTASDANNGG GFSVPRYCAD SVFPPLDFQA DPPVQKLFIT DVHGGVWDFR HIYRGTPRRH  180
LLTTGWSKFV NSKKLICGDS VVFMRKSVHE MFIGVRRAPI SNKSGGGSYY GDEYIAGGYY  240
YGGGGGGAKK EDGGEKFRRV GMGKLTAEAV SEAIGKASRG LPFEVVYYPT AGWSEFVVRA  300
EDVEASTNVY WTPGTRVKMA METEDSSRIT WFQGIVSATF QETWKQLQIT WDEPEILQNL  360
KRVNPWQVEV VTASSTQLHA TYPPPTKRPK YPHASSGVLS GEEGEMIYYG RGQQAMDPIP  420
YGYTYTTVPA GMQGARHYEF GSYNNSTGFI GENAHPEFNF FSPLPGLGRV STQVMSFGSP  480
PSDDLSPNSN TTNVSSGNDA AGNNRCISFQ LFGKVINVQE PAESGVAESS LCEEDGSKES  540
SDNEVPNEAQ LLGRGGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-611336950388Auxin 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_013590621.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794800.0JN979480.1 Brassica rapa subsp. pekinensis auxin response factor 17-2 (ARF17-2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013590621.10.0PREDICTED: auxin response factor 17-like
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A0D3D1F70.0A0A0D3D1F7_BRAOL; Auxin response factor
STRINGBo6g121520.10.0(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]