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 PGSC0003DMP400025462
Common NameLOC102594206
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: 830aa    MW: 92634.3 Da    PI: 6.8468
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400025462genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.61e-22128229199
                           EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                           f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F 
  PGSC0003DMP400025462 128 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL 215
                           99*****************************7333.34459************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                             + +++el+v+v+r+
  PGSC0003DMP400025462 216 --RGENGELRVGVRRA 229
                           ..449999*****996 PP
2Auxin_resp117.61e-38254336183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           a+ha++tk+ F+v+Y+Pr+s++eF+v++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg++++d  rWp+SkWr+Lk
  PGSC0003DMP400025462 254 AWHAIQTKTLFTVYYKPRTSPAEFIVPYDQYMESLKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIENADLKRWPESKWRCLK 336
                           89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.19E-40124257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-40124243IPR015300DNA-binding pseudobarrel domain
CDDcd100171.37E-20126228No hitNo description
SMARTSM010194.1E-22128230IPR003340B3 DNA binding domain
PROSITE profilePS5086311.42128230IPR003340B3 DNA binding domain
PfamPF023621.4E-20128229IPR003340B3 DNA binding domain
PfamPF065075.7E-36254336IPR010525Auxin response factor
PfamPF023092.7E-10700788IPR033389AUX/IAA domain
PROSITE profilePS5174524.31703787IPR000270PB1 domain
SuperFamilySSF542772.5E-12704780No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 830 aa     Download sequence    Send to blast
MATSESCRNA TGAGKVDAEK ALYTELWRAC AGPLVTVPCE DELVFYFPQG HIEQVEASTN  60
QASDQQMPVY NLRSKILCRV INVLLKAEPD TDEVYAQVTL LPEPNQDENV VSKEPMPSPP  120
PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS RQPPTQELVA KDLHANEWRF  180
RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG ELRVGVRRAM RQQGNAPSSV  240
ISSHSMHLGV LATAWHAIQT KTLFTVYYKP RTSPAEFIVP YDQYMESLKN NYSIGMRFKM  300
RFEGEEAPEQ RFTGTIVGIE NADLKRWPES KWRCLKVRWD ETSAIPRPDR VSPWKVEPAL  360
SPPALDPLPI PRQKRPRSNV LPSSPDSSVL TREGSSKVTV DPSQASGFSR VLQGQEISTL  420
RGNFVENNES DSSEKPPVWQ PLLDDEKADV HSASRKCISD KRFPLARPES SLTDLLSGFG  480
GQSSSSHGFH SPTRGQTAPA SWVKRQALDK ETDFSLLGKQ WSLVSSGLSL NLMDSGLKGA  540
DTLYQMRGTS RLNGFNEYPT LPGHRTDNQQ GSWLMSPSVL PYIQMSTRSG EIMPKPMASP  600
QPEAMKPKEG NCKLFGIPLV SKCATIDPVM LRKNSPIDST SNMHFGIHPH QFPITESDQR  660
SEQSKGSKLP DDGITVHDQE EQFQTSHPGT RDREGKVLVN STRSCTKVHK QGTALGRSVD  720
LAKFNNYEEL IAELDHIFDF NGELKARNKN WLVVYTDDEG DMMLVGDDPW QEFCGMVRKI  780
FIYTKDEVQR MNPGTLNSKG EDISSVAEGS DGKEVKNLQL HSDSSPEDS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1712135818354Auxin response factor 1
4ldw_A1e-1712135818354Auxin response factor 1
4ldw_B1e-1712135818354Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs) (By similarity). Could act as transcriptional activator or repressor. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400025462
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269|PubMed:26716451}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM1439400.0HM143940.1 Solanum lycopersicum auxin response factor 11-like (ARF11) mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006346635.10.0PREDICTED: auxin response factor 2-like
SwissprotK4DF010.0ARF2B_SOLLC; Auxin response factor 2B
TrEMBLM1B5E80.0M1B5E8_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000374540.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA26182444
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
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. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  3. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]