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 Bv9_208190_efdx.t1
Organism
Beta vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta
Family ARF
Protein Properties Length: 799aa    MW: 89067.4 Da    PI: 6.4246
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bv9_208190_efdx.t1genomeTBVRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.3e-24164265199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   
  Bv9_208190_efdx.t1 164 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKLQRP-SQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSVFVSQKNLVSGDAVLFL-- 251
                         99****************************9977754.569************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+++++r+
  Bv9_208190_efdx.t1 252 RGEDGELRLGLRRA 265
                         4499999**99986 PP
2Auxin_resp1102.4e-36290371182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                         +++a+stk++F+v+Y+Pras++eF+v+ ++++k++++++s+G+Rf+ ++e ++s+err+ G+vvgv+d+dp++WpnSkWr+L
  Bv9_208190_efdx.t1 290 VVNAVSTKTMFHVFYSPRASHPEFIVPHQRYVKSFSNPISAGTRFRTRIEVDESPERRCRGIVVGVNDIDPYKWPNSKWRCL 371
                         689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.11E-44154278IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.8E-40157276IPR015300DNA-binding pseudobarrel domain
CDDcd100174.43E-22162264No hitNo description
PROSITE profilePS5086312.957164266IPR003340B3 DNA binding domain
PfamPF023625.8E-22164265IPR003340B3 DNA binding domain
SMARTSM010195.0E-24164266IPR003340B3 DNA binding domain
PfamPF065077.9E-31291371IPR010525Auxin response factor
SuperFamilySSF542771.5E-10662750No hitNo description
PROSITE profilePS5174523.164671753IPR000270PB1 domain
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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 799 aa     Download sequence    Send to blast
MEIDLNHEVS EVEKIAYCYG DCEKGIYGCC VSSSSSSCSS NSSPSAVTSY MELWHACAGP  60
LISLPRRGNV VVYFPQGHLE QVVASSSPYS PVDLPTYDLP PQIFCRVANI QLLANKENDE  120
VYTQLTLFPL PEFGRISLGS KEVEGLGGEE DAAEVLPKST PHMFCKTLTA SDTSTHGGFS  180
VPRRAAEDCF PPLDYKLQRP SQELVAKDLH GVEWKFRHIY RGQPRRHLLT TGWSVFVSQK  240
NLVSGDAVLF LRGEDGELRL GLRRAIRPKS GVPDSVIGKQ SMYPNVLSAV VNAVSTKTMF  300
HVFYSPRASH PEFIVPHQRY VKSFSNPISA GTRFRTRIEV DESPERRCRG IVVGVNDIDP  360
YKWPNSKWRC LLVRWDEDIV SDKEERVSPW EIDPSVSLPP LSIQSSPRIK KLRTGLPSSP  420
SNPVDSGGLG NLDFEESVRS SKVLQGQENV SFISPPYGCD KVHSMLDNEP GAAGQQSLSS  480
TRLPPINVSE FRSLAQPMTY TGILESNRFP KVLQGQEICP LRSLTGKMNF NPSAWIKPSL  540
ATSYFNLYQG PKTSFYPLAS EGVRNMYFPF DIYKSDQDSV TVPCKNTMAK ENSVFNLSSF  600
HSNGFRKKDQ NPNIENEDRP AENMYVHNSL NTSRNDQKDA PGNGPRPHSK LFGFPLERET  660
SSTNSEICSR RSCTKVHKQG SLVGRAIDLS KLKSYADLMN ELEHLFGMEG LLQDPAKGWR  720
ILYTDKENDM MVVGDDPWNE FCDVVSKIHI YTREEVEKMT AGMVTDDNQS CLEEAPSMLD  780
ASKSSSVGQP DSSPTETKN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-121353942354Auxin response factor 1
4ldw_A1e-121353942354Auxin response factor 1
4ldw_B1e-121353942354Auxin response factor 1
4ldy_A1e-121353942354Auxin response factor 1
4ldy_B1e-121353942354Auxin response factor 1
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010689575.10.0PREDICTED: auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0K9S3750.0A0A0K9S375_SPIOL; Auxin response factor
STRINGXP_010689575.10.0(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]