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 PGSC0003DMP400014194
Common NameLOC102602099
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family ARF
Protein Properties Length: 812aa    MW: 90314.8 Da    PI: 6.1592
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400014194genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3741.8e-23176277199
                           EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                           f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F 
  PGSC0003DMP400014194 176 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKEQ-RPSQELIAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL 263
                           99****************************86333.45679************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                             + +++ l+++++r+
  PGSC0003DMP400014194 264 --RGEGGDLRLGIRRA 277
                           ..4489999**99986 PP
2Auxin_resp119.62.4e-39302383182
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                           +a+a+s ks+F+v+Y+Pras+++Fvv+++k++ka+++++ vG+Rfkm+f+ +ds+err+sG+v+g+sd+dp+rWpnSkWr+L
  PGSC0003DMP400014194 302 VASALSAKSTFHVFYSPRASHADFVVPYQKYVKAINTRIPVGTRFKMKFDLDDSPERRYSGVVTGISDMDPFRWPNSKWRCL 383
                           68899****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.66E-44168293IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.8E-40169289IPR015300DNA-binding pseudobarrel domain
CDDcd100175.12E-22174276No hitNo description
PfamPF023622.4E-21176277IPR003340B3 DNA binding domain
PROSITE profilePS5086312.901176278IPR003340B3 DNA binding domain
SMARTSM010193.8E-23176278IPR003340B3 DNA binding domain
PfamPF065077.1E-33303383IPR010525Auxin response factor
SuperFamilySSF542774.12E-11676762No hitNo description
PROSITE profilePS5174521.663683767IPR000270PB1 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: 812 aa     Download sequence    Send to blast
MEFDLNHALV SEVEKNVCCN EECDKGGGGG CVNCSLYTST TSSCSSNVSS SSSLALTSIY  60
KELWHACAGP LTSLPKKGNV VVYFPQGHME EAVSAFPFSP IKIDFPTFGL QPQIFCRVED  120
VQLLANKEND EVYTQLTLLP LPESMAISLE GKEHEDSGTD EEGNGVNPGK SASHMFCKTL  180
TASDTSTHGG FSVPRRAAED CFPPLDYKEQ RPSQELIAKD LHGVEWKFRH IYRGQPRRHL  240
LTTGWSIFVS QKNLVSGDAV LFLRGEGGDL RLGIRRAARP RNGLPESIIK SQYSGPDVLS  300
SVASALSAKS TFHVFYSPRA SHADFVVPYQ KYVKAINTRI PVGTRFKMKF DLDDSPERRY  360
SGVVTGISDM DPFRWPNSKW RCLMVRWDED IMSNHQERVS PWEIDSSVSL PPLSIQSSPR  420
LKKLRTSQQA PSVLDGHFAG GSALLDFEES IRSSKVLQGQ ENLGLISPPY GCDKPVRPLD  480
FELQRVARHN LMPNGVENII VGDFVKTQPP TTYTGFLESN RFPKVLQGQE ICSLRSLTGK  540
GDVNFGAWGK PEFGCNVFGT YQRPRANFYP LASEGARNVF LPYNAMYRAG QDPVVPSYIT  600
TFQRENPTLN QNSIQNVVRR EEVGMPKFVN EQRPPEMSKV SIPENHFKNE NDGSFNAQAS  660
CKLFGFSLTK EPSTPSSQSS GKRSCTKVHK QGSLVGRAID LSRLNGYDDL LVELERLFNM  720
EDLLRDPNKG WRILYTDSEN DMMVVGDDPW HEFCEVVSKI HIYTQEEVEK MTIEGISDDT  780
QSCLEEAPAI MDVSKSSSVG QPDSSPTVIR I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1145840518353Auxin response factor 1
4ldw_A1e-1145840518353Auxin response factor 1
4ldw_B1e-1145840518353Auxin response factor 1
4ldx_A1e-1145840518353Auxin response factor 1
4ldx_B1e-1145840518353Auxin response factor 1
4ldy_A1e-1145840518353Auxin response factor 1
4ldy_B1e-1145840518353Auxin 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
PlantRegMapPGSC0003DMP400014194
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3402590.0DQ340259.1 Lycopersicon esculentum auxin response factor 4 (ARF4) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006340145.10.0PREDICTED: auxin response factor 4
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLM1AE600.0M1AE60_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000208390.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA51432234
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. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  7. 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]