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 PGSC0003DMP400000261
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: 340aa    MW: 38450.8 Da    PI: 8.1667
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400000261genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.65.6e-24111211198
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++ +k+a+e+       +   + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD +vF
  PGSC0003DMP400000261 111 FCKILTASDTSTHGGFSVLRKHANEClpqldmtQ--ATPTQDLVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDAFVF 197
                           99**************************999543..445568*********************************************** PP

                           EE-SSSEE..EEEEE- CS
                    B3  83 kldgrsefelvvkvfr 98 
                              +++++el+v+v+r
  PGSC0003DMP400000261 198 L--RDDNGELRVGVRR 211
                           *..5589999****98 PP
2Auxin_resp103.32.9e-34237316183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           a+ha++t++ F v+Y+Pr+  s+F+v ++k+++a+++ +svGmRf+m+fe+eds+err++Gt+vg+ d+++ +W++SkWrsLk
  PGSC0003DMP400000261 237 ASHAITTQTRFVVYYKPRT--SQFIVGLNKYLEAVSHGFSVGMRFRMRFEGEDSPERRFTGTIVGTGDISS-QWSESKWRSLK 316
                           789***************6..9**********************************************777.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.45E-40103240IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.7E-40105226IPR015300DNA-binding pseudobarrel domain
CDDcd100172.27E-20109211No hitNo description
SMARTSM010192.3E-21111213IPR003340B3 DNA binding domain
PROSITE profilePS5086312.252111213IPR003340B3 DNA binding domain
PfamPF023627.4E-22111211IPR003340B3 DNA binding domain
PfamPF065073.9E-32237316IPR010525Auxin response factor
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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 340 aa     Download sequence    Send to blast
MGSEDLYRDL WKACAGPLVD VPRDAERVYY FPQGHIEQLE ASTNQAVNQQ IPQFNLSSKI  60
LCRVVHVQLL AETETDEVYA QITLHPEAEQ EEPSKPDPCP PDLPKRTVHS FCKILTASDT  120
STHGGFSVLR KHANECLPQL DMTQATPTQD LVAKDLHGYE WRFKHIFRGQ PRRHLLTTGW  180
STFVTSKRLV AGDAFVFLRD DNGELRVGVR RLARQQSPIP QSVISSQSMH LGVLATASHA  240
ITTQTRFVVY YKPRTSQFIV GLNKYLEAVS HGFSVGMRFR MRFEGEDSPE RRFTGTIVGT  300
GDISSQWSES KWRSLKVKNM FGFIDGNVWH IHCLVLILV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-158331816334Auxin response factor 1
4ldw_A1e-158331816334Auxin response factor 1
4ldw_B1e-158331816334Auxin 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}.
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
PlantRegMapPGSC0003DMP400000261
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2331203e-83AC233120.6 Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-101i8 map 1, complete sequence.
GenBankHG9754403e-83HG975440.1 Solanum pennellii chromosome ch01, complete genome.
GenBankHG9755133e-83HG975513.1 Solanum lycopersicum chromosome ch01, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006339723.10.0PREDICTED: auxin response factor 18 isoform X1
RefseqXP_006339725.10.0PREDICTED: auxin response factor 18 isoform X3
SwissprotQ9C5W91e-174ARFR_ARATH; Auxin response factor 18
SwissprotQ9ZPY61e-174ARFK_ARATH; Auxin response factor 11
TrEMBLM0ZGK20.0M0ZGK2_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000003450.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61830.11e-166auxin response factor 18
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  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]