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 PGSC0003DMP400050216
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: 884aa    MW: 97900.1 Da    PI: 6.5083
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400050216genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.81e-23128229199
                           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
  PGSC0003DMP400050216 128 FCKTLTASDTSTHGGFSVPRRAAEKVfppldysQQPPVQ--ELIGKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIF 214
                           99****************************996555544..8999******************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              ++++ +l+++++r+
  PGSC0003DMP400050216 215 I--WNENNQLLLGIRRA 229
                           *..7888889****997 PP
2Auxin_resp111.11.1e-36254337183
            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
  PGSC0003DMP400050216 254 AAHATATNSRFTIFFNPRACPSEFVIPLAKYAKAVYhTRVSVGMRFRMLFETEESSIRRYMGTITGIGDLDPARWPNSHWQSVK 337
                           79*********************************9789*****************************************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-46113257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-42122243IPR015300DNA-binding pseudobarrel domain
CDDcd100177.06E-21127228No hitNo description
SMARTSM010192.6E-24128230IPR003340B3 DNA binding domain
PfamPF023626.3E-22128229IPR003340B3 DNA binding domain
PROSITE profilePS5086312.816128230IPR003340B3 DNA binding domain
PfamPF065077.6E-32254336IPR010525Auxin response factor
PfamPF023091.5E-6737829IPR033389AUX/IAA domain
PROSITE profilePS5174522.163747831IPR000270PB1 domain
SuperFamilySSF542771.9E-7748822No 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: 884 aa     Download sequence    Send to blast
MKVSTSGFNS QPEEGEKKCL NSELWHACAG PLVSLPHVGT RVVYFPQGHS EQVAASTNKE  60
INGHIPNYPG LPPQLICQLH NVTMDADVET DEVYAQMTLQ PLTPQEQKDV CLLPAELGTL  120
SKQPNNYFCK TLTASDTSTH GGFSVPRRAA EKVFPPLDYS QQPPVQELIG KDLHGNEWKF  180
RHIFRGQPKR HLLTTGWSVF VSAKRLVAGD SVIFIWNENN QLLLGIRRAN RPQTVLPSSV  240
LSSDSMHIGL LAAAAHATAT NSRFTIFFNP RACPSEFVIP LAKYAKAVYH TRVSVGMRFR  300
MLFETEESSI RRYMGTITGI GDLDPARWPN SHWQSVKVGW DESTAGERQP RVSLWEIEPL  360
TTFPMYPSPF SLRLKRPWPP GLPSFPGLSN GDMTMSSQLP WLHGGMGDQG IQSLNFQGFG  420
VTPFVHPRFD ASMLGLQPDI LQAMATLDSS KLANQPLMQF QHIPSGSASS IQNQLLHPSN  480
LQHTFLQGLP ENQLISQAQM LQQQLQCHQS YNAQQQQLQR QQLYHDQQLQ EPHQVHLQRQ  540
DQQQTKAQLC SATQSQLSHL QVLGSTGSQQ TFSDLVGNHI NTSNNRSTMQ SLLSSFSRNG  600
ASTFLNMPET NSLVSPSSSS KRIALESQIP SQAPYIVTQA EVLTVPNTKV SDFSTLFSPN  660
PGRQVLDYQA VAVSQNNALF GVNGMSNLKG NSPENRSLPM PYATSAFTST VGSEYPVTSD  720
MTTSSCVDES GVLQSSENVD QANSLTETFV KVYKSESFGR SLDISKFSSY NELRSELARM  780
FGLEGLLEDP ERSGWQLVFV DRENDVLLLG DDPWHEFVNS VWYIKILSPL EVQQMGKEGL  840
DLPSAGKTQR ITSNGNGNGC DDFMNRNHSC NIMNGIPLGS LDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1601635847388Auxin 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
PlantRegMapPGSC0003DMP400050216
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_006351990.10.0PREDICTED: auxin response factor 6-like isoform X2
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLM1CTA20.0M1CTA2_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000741690.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin 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]