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 PGSC0003DMP400050217
Common NameLOC102598519
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: 885aa    MW: 97971.2 Da    PI: 6.5083
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400050217genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.81e-23129230199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++p++ ae+        ++++ +  +l+ +d++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F
  PGSC0003DMP400050217 129 FCKTLTASDTSTHGGFSVPRRAAEKVfppldysQQPPVQ--ELIGKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIF 215
                           99****************************996555544..8999******************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              ++++ +l+++++r+
  PGSC0003DMP400050217 216 I--WNENNQLLLGIRRA 230
                           *..7888889****997 PP
2Auxin_resp111.11.1e-36255338183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aaha++t+s F++++nPra++seFv++++k+ ka++ ++vsvGmRf+m fete+ss rr++Gt++g+ dldp rWpnS+W+s+k
  PGSC0003DMP400050217 255 AAHATATNSRFTIFFNPRACPSEFVIPLAKYAKAVYhTRVSVGMRFRMLFETEESSIRRYMGTITGIGDLDPARWPNSHWQSVK 338
                           79*********************************9789*****************************************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-46114258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-42123244IPR015300DNA-binding pseudobarrel domain
CDDcd100177.07E-21128229No hitNo description
PfamPF023626.3E-22129230IPR003340B3 DNA binding domain
PROSITE profilePS5086312.816129231IPR003340B3 DNA binding domain
SMARTSM010192.6E-24129231IPR003340B3 DNA binding domain
PfamPF065077.6E-32255337IPR010525Auxin response factor
PfamPF023091.5E-6738830IPR033389AUX/IAA domain
PROSITE profilePS5174522.163748832IPR000270PB1 domain
SuperFamilySSF542771.9E-7749823No hitNo description
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: 885 aa     Download sequence    Send to blast
MKVSTSGFNS QPEEAGEKKC LNSELWHACA GPLVSLPHVG TRVVYFPQGH SEQVAASTNK  60
EINGHIPNYP GLPPQLICQL HNVTMDADVE TDEVYAQMTL QPLTPQEQKD VCLLPAELGT  120
LSKQPNNYFC KTLTASDTST HGGFSVPRRA AEKVFPPLDY SQQPPVQELI GKDLHGNEWK  180
FRHIFRGQPK RHLLTTGWSV FVSAKRLVAG DSVIFIWNEN NQLLLGIRRA NRPQTVLPSS  240
VLSSDSMHIG LLAAAAHATA TNSRFTIFFN PRACPSEFVI PLAKYAKAVY HTRVSVGMRF  300
RMLFETEESS IRRYMGTITG IGDLDPARWP NSHWQSVKVG WDESTAGERQ PRVSLWEIEP  360
LTTFPMYPSP FSLRLKRPWP PGLPSFPGLS NGDMTMSSQL PWLHGGMGDQ GIQSLNFQGF  420
GVTPFVHPRF DASMLGLQPD ILQAMATLDS SKLANQPLMQ FQHIPSGSAS SIQNQLLHPS  480
NLQHTFLQGL PENQLISQAQ MLQQQLQCHQ SYNAQQQQLQ RQQLYHDQQL QEPHQVHLQR  540
QDQQQTKAQL CSATQSQLSH LQVLGSTGSQ QTFSDLVGNH INTSNNRSTM QSLLSSFSRN  600
GASTFLNMPE TNSLVSPSSS SKRIALESQI PSQAPYIVTQ AEVLTVPNTK VSDFSTLFSP  660
NPGRQVLDYQ AVAVSQNNAL FGVNGMSNLK GNSPENRSLP MPYATSAFTS TVGSEYPVTS  720
DMTTSSCVDE SGVLQSSENV DQANSLTETF VKVYKSESFG RSLDISKFSS YNELRSELAR  780
MFGLEGLLED PERSGWQLVF VDRENDVLLL GDDPWHEFVN SVWYIKILSP LEVQQMGKEG  840
LDLPSAGKTQ RITSNGNGNG CDDFMNRNHS CNIMNGIPLG SLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1601335942388Auxin response factor 5
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).
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400050217
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGQ3600360.0GQ360036.2 Solanum lycopersicum auxin response factor 6 (ARF6) mRNA, complete cds.
GenBankHM5946840.0HM594684.1 Solanum lycopersicum auxin response factor 6 (ARF6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006351989.10.0PREDICTED: auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLM1CTA30.0M1CTA3_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000741690.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA23682452
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]