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 496192
Common NameARALYDRAFT_496192
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family ARF
Protein Properties Length: 792aa    MW: 87908.8 Da    PI: 6.1568
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
496192genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.92.3e-24172273199
             EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
      B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 
             f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   +++++el+++++
  496192 172 FCKTLTASDTSTHGGFSVPRRAAEDCfapldyK-QQRPSQELIAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLASGDAVLFL--RDEGGELRLGIR 271
             99****************************963.3445679************************************************..5699*******9 PP

             -S CS
      B3  98 rk 99 
             r+
  496192 272 RA 273
             96 PP
2Auxin_resp122.14.1e-40298378282
  Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                 a+a+stks+F+v+Y+Pra+++eFv+++ek+ +++++++++G+Rf+m+fe++ds+err++G+v+gv dldp+rWpnSkWr+L
      496192 298 ANAVSTKSMFHVFYSPRATHAEFVIPYEKYITSIRNPICIGTRFRMRFEMDDSPERRCAGVVTGVCDLDPYRWPNSKWRCL 378
                 789*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.3E-40162286IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.46E-42166281IPR015300DNA-binding pseudobarrel domain
CDDcd100172.56E-20170272No hitNo description
PfamPF023623.6E-22172273IPR003340B3 DNA binding domain
SMARTSM010191.1E-22172274IPR003340B3 DNA binding domain
PROSITE profilePS5086313.267172274IPR003340B3 DNA binding domain
PfamPF065079.3E-34298378IPR010525Auxin response factor
SuperFamilySSF542772.26E-10665745No hitNo description
PROSITE profilePS5174523.609668750IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
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: 792 aa     Download sequence    Send to blast
MEFDLNTEIA EVEEEENDDV GVGGTRIDRG RLGISPSSSS SCSSGSSSSS TGSASSIYSE  60
LWHACAGPLT CLPKKGNVVV YFPQGHLEQD AMVSYSSPLE IPKFDLNPQI FCRVVHVQLL  120
ANKETDEVYT QVTLLPLQEF SMLNTEGKEV KELGGDEERN VSSSVKRTPH MFCKTLTASD  180
TSTHGGFSVP RRAAEDCFAP LDYKQQRPSQ ELIAKDLHGV EWKFRHIYRG QPRRHLLTTG  240
WSIFVSQKNL ASGDAVLFLR DEGGELRLGI RRAARPRNGL PDSIIEKNSC SNILSLLANA  300
VSTKSMFHVF YSPRATHAEF VIPYEKYITS IRNPICIGTR FRMRFEMDDS PERRCAGVVT  360
GVCDLDPYRW PNSKWRCLLV RWDESFVSDH QERVSPWEID PSISLPHLSI QSSPRPKRPW  420
AGLLDTTPPG NPITERGGFL DFEESVRPSK VLQGQENIGS ASPSQGFDVM NRRILDFAMQ  480
SHASPVLLSS RVKDRFGEFV DATALNPACS GVMDLDRFPR VLQGQEICSL KSFPQFAGFS  540
PAVASGKPNL GYTDPFAYQA NKSSFYPLAL QGIRSTHVPY QNPYNAGNQS SGHPSRAINF  600
GEETRKFDAQ NGGGLPNNVT ADLPFKIDMM GKQKGSDFDM NASSGCKLFG FSLPVETPAS  660
NPQSSSKRIC TKVHKQGSQV GRAIDLSRLN GYDDLLTELE RLFNMEGLLR DPEKGWRILY  720
TDSENDMMVV GDDPWHDFCN VVWKIHLYTK EEVENANDDN KSCLEQAAIM MEASKSSSVS  780
QPDSSPTITR V*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-112454012354Auxin response factor 1
4ldw_A1e-112454012354Auxin response factor 1
4ldw_B1e-112454012354Auxin response factor 1
4ldy_A1e-112454012354Auxin response factor 1
4ldy_B1e-112454012354Auxin 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap496192
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0808320.0AY080832.1 Arabidopsis thaliana auxin response factor ARF4 (At5g60450) mRNA, complete cds.
GenBankAY1139770.0AY113977.1 Arabidopsis thaliana auxin response factor ARF4 (At5g60450) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020889184.10.0auxin response factor 4
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLD7MTU60.0D7MTU6_ARALL; Auxin response factor
STRINGfgenesh2_kg.8__2008__AT5G60450.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95302636
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]