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 Lj0g3v0301059.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family ARF
Protein Properties Length: 373aa    MW: 41555.1 Da    PI: 7.193
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj0g3v0301059.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.61.4e-24163264199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +
  Lj0g3v0301059.1 163 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGE 253
                      99****************************963.3445679************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++++r+
  Lj0g3v0301059.1 254 NGELRLGIRRA 264
                      9999****996 PP
2Auxin_resp114.97.1e-38289371182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                      +a+a+st+s+F+v+Y+Pras+++Fvv+++k++k++ ++v+ G+Rfkm++e ++s+err+ sG+ +g+sdldp+rWpnSkWr+L
  Lj0g3v0301059.1 289 VANAISTRSMFRVFYSPRASHADFVVPYQKYVKSIMNPVTTGTRFKMRYEVDESPERRCsSGMLIGTSDLDPYRWPNSKWRCL 371
                      689********************************************************9**********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.5E-41155274IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-45155273IPR015300DNA-binding pseudobarrel domain
CDDcd100172.76E-24161263No hitNo description
PROSITE profilePS5086313.028163265IPR003340B3 DNA binding domain
PfamPF023621.6E-22163264IPR003340B3 DNA binding domain
SMARTSM010191.4E-24163265IPR003340B3 DNA binding domain
PfamPF065073.1E-32289371IPR010525Auxin 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: 373 aa     Download sequence    Send to blast
MEIDLNHEVI EVEKNALCER ECGSCVCCLS SSACSSNSSS SSPGVSSSYL ELWHACAGPL  60
TSLPKKGNVV VYFPQGHLEQ VASFSPFAPL EMPTYDLQPQ IFCKVVNVQL LANKENDEVY  120
TQVTLLPQAE CAGKHLEGKE LEELGADEEG DGGSPSKSTS HMFCKTLTAS DTSTHGGFSV  180
PRRAAEDCFP PLDYKQQRPS QELVAKDLHG VEWKFRHIYR GQPRRHLLTT GWSIFVSQKN  240
LVSGDAVLFL RGENGELRLG IRRAIRPRNG LPESIVGNQN CYPNILSSVA NAISTRSMFR  300
VFYSPRASHA DFVVPYQKYV KSIMNPVTTG TRFKMRYEVD ESPERRCSSG MLIGTSDLDP  360
YRWPNSKWRC LMV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-119333732333Auxin response factor 1
4ldw_A1e-119333732333Auxin response factor 1
4ldw_B1e-119333732333Auxin response factor 1
4ldx_A1e-119333732333Auxin response factor 1
4ldx_B1e-119333732333Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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
PlantRegMapLj0g3v0301059.1
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_007150222.10.0hypothetical protein PHAVU_005G136900g
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLV7C0110.0V7C011_PHAVU; Auxin response factor
STRINGXP_007150222.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.11e-174auxin 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]