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 Potri.016G090300.3
Common NamePOPTR_0016s09150g
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: 686aa    MW: 76231.8 Da    PI: 7.7183
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.016G090300.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3733.7e-23120221199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f k+lt+sd+++ g +++p+ +ae +         ++ +  tl  +d +g++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+vvF  
  Potri.016G090300.3 120 FAKTLTQSDANNGGGFSVPRYCAEMIfprldytADPPVQ--TLLAKDVHGETWKFRHIYRGTPRRHLLTTGWSPFVNHKKLVAGDSVVFL- 207
                         89*********************999****997555555..8999*********************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++ l+v+v+r+
  Potri.016G090300.3 208 -RAENGDLCVGVRRA 221
                         .4488889****996 PP
2Auxin_resp101.79.4e-34290372283
          Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         a  a+++ +Fe vY+Pra t+eF vk++ v++ ++++++ GmRfkmafetedss++++ +Gtv +v+d+dp+ Wp+S+Wr+L+
  Potri.016G090300.3 290 AVLAANGLPFETVYYPRANTPEFFVKASLVKTVMQIRWCSGMRFKMAFETEDSSRISWfMGTVCSVQDADPLCWPGSPWRLLQ 372
                         667899***************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.9E-37110226IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.85E-30114238IPR015300DNA-binding pseudobarrel domain
CDDcd100178.93E-21119220No hitNo description
SMARTSM010195.2E-21120222IPR003340B3 DNA binding domain
PROSITE profilePS5086312.802120222IPR003340B3 DNA binding domain
PfamPF023629.4E-21120221IPR003340B3 DNA binding domain
PfamPF065071.1E-28289372IPR010525Auxin response factor
PROSITE profilePS5174512.076615685IPR000270PB1 domain
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: 686 aa     Download sequence    Send to blast
MEAKEILKEE ADKCLDSQLW HACAGGMVQM PAVNSKVFYF PQGHAEHACE PVDFRNLPGA  60
SHTLCRVSAI KFMADPETDE VFAKIRLVPI NSNEIDLDDQ EVAVNGEKEA AHDNKKPVSF  120
AKTLTQSDAN NGGGFSVPRY CAEMIFPRLD YTADPPVQTL LAKDVHGETW KFRHIYRGTP  180
RRHLLTTGWS PFVNHKKLVA GDSVVFLRAE NGDLCVGVRR AKRAISGGPE SLWNPALGNL  240
VVPYGGFGAF SREDEHKMVK NGRGNGNGSK SNESLMGRGK VRAESVIQAA VLAANGLPFE  300
TVYYPRANTP EFFVKASLVK TVMQIRWCSG MRFKMAFETE DSSRISWFMG TVCSVQDADP  360
LCWPGSPWRL LQVTWDEPDL LQNVKRVSPW LVELASHMSA IHLSPFSSPR KKLRLPQHPD  420
FPIDGQFPMP IFSGNLLQPS SPFGFLPNNI PAGMQGARHA HYGLPLSDLN LNKLHTGLLR  480
AGFPPLLDHT ASLTKASNIQ TIQKPILSEG VSCELTMSHS TQTSKRADDV KIPQLVLFGQ  540
RIVAEQYISR SCSDNTGSPV LARNSCFEGK LDKMAKFSEG SVSTLPHRGL SKHSSCEGLQ  600
WNKNNHRKSE QSLEIGHCKV FLESEDVGRT LDLQLLESYE ELYRKLADMF GLRNSEKFSN  660
LLYRDDNGIT KHIGEEPFRC DSFSF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-81139334388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.016G090300.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT5854790.0KT585479.1 Populus tomentosa auxin response factor 16 (ARF16) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011007683.10.0PREDICTED: auxin response factor 18-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLB9IFN40.0B9IFN4_POPTR; Auxin response factor
STRINGPOPTR_0016s09150.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
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. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]