PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.002G089900.1
Common NamePOPTR_0002s09050g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family ARF
Protein Properties Length: 595aa    MW: 65766.2 Da    PI: 6.3333
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.002G089900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.56.9e-25128229199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f k+ltpsd+++ g +++p+ +a+++        +++ +  tlt+ d +g sW++++iyr++++r++lt+GW++Fv+ ++L +gD+vvF+ 
  Potri.002G089900.1 128 FSKILTPSDANNGGGFSVPRFCADSIfpplnyqAEPPVQ--TLTVADIHGVSWDFRHIYRGTPRRHLLTTGWSKFVNNKKLIAGDSVVFM- 215
                         88*********************999****985444444..9************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++ ++e++++v+r+
  Potri.002G089900.1 216 -RNLKGEMFIGVRRA 229
                         .568999*****996 PP
2Auxin_resp86.36.3e-29273357183
          Auxin_resp   1 aahaastksvFevvYnPrast.seFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+++a+++ +FevvY+Pra++ s+Fvv++e ve+al+v +++GmR+kma+etedss+ ++ +Gtv+g+   d   W++S+Wr+L+
  Potri.002G089900.1 273 AVERAAKGLPFEVVYYPRAGWySDFVVRAEVVEAALRVFWTAGMRVKMAVETEDSSRMTWfQGTVSGTGLPDCGAWRGSPWRMLQ 357
                         678999*************9779************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.7E-34120231IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.68E-30123236IPR015300DNA-binding pseudobarrel domain
CDDcd100174.43E-20128228No hitNo description
SMARTSM010192.8E-21128230IPR003340B3 DNA binding domain
PROSITE profilePS5086312.647128230IPR003340B3 DNA binding domain
PfamPF023621.6E-22128229IPR003340B3 DNA binding domain
PfamPF065074.3E-27273357IPR010525Auxin 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
Sequence ? help Back to Top
Protein Sequence    Length: 595 aa     Download sequence    Send to blast
MPQPQLTELS RVDPRFWRAC AGSSVQIPAV NSRVYYFPQG HFEQSSSSTA PHPPFLSNLA  60
LSKPSIPCQI SAVDFLADPV TDEVFTRLLL IPLDNPFSNL PLSFLEPCRS EGEGANDVDD  120
DERKILAFSK ILTPSDANNG GGFSVPRFCA DSIFPPLNYQ AEPPVQTLTV ADIHGVSWDF  180
RHIYRGTPRR HLLTTGWSKF VNNKKLIAGD SVVFMRNLKG EMFIGVRRAV RFNNSARWRE  240
QVSDSGGDGK VKVEEGFSRS WRGRLSQEAV VEAVERAAKG LPFEVVYYPR AGWYSDFVVR  300
AEVVEAALRV FWTAGMRVKM AVETEDSSRM TWFQGTVSGT GLPDCGAWRG SPWRMLQITW  360
DEPEVLQNVK RVSPWQVEFV ATTLPLQDAS PPMKKLRYPN DSGFLTNGEL FFPMSDLTNS  420
RTGHMNASML NYSTFPAGMQ GARQDPFSTF SLSNLISENA SQVFGDKVFG NNLVPKMKRM  480
PSEMNIGSLQ SGDLSPESQS SAHSFGKDFT GNRSFNPKKV GISSIQLFGK IIHMNQPVEN  540
GFDSVGFMDN SSKGCNETEG VNALELSLTS SYTELLNRID VQCQSASAVE ACSA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-661237851388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.5420.0leaf
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
PlantRegMapPotri.002G089900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002301020.30.0auxin response factor 17
RefseqXP_024451916.10.0auxin response factor 17
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A2K2BFU50.0A0A2K2BFU5_POPTR; Auxin response factor
STRINGPOPTR_0002s09050.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40303056
Representative plantOGRP1509234
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.11e-174auxin response factor 17
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  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]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]