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 XP_016508655.1
Organism
Nicotiana tabacum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family ARF
Protein Properties Length: 813aa    MW: 90516.9 Da    PI: 6.3876
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_016508655.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3741.8e-23179280199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + ++
  XP_016508655.1 179 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKEQ-RPSQELIAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEG 270
                     99****************************86333.45679************************************************..4489 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                     + l+++++r+
  XP_016508655.1 271 GDLRLGIRRA 280
                     999**99986 PP
2Auxin_resp119.92e-39305386182
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                     +a+a+s ks+F+v+Y+Pras+++Fvv+++k++k++++++ vG+Rfkm+f+ +ds+err+sG+v+g+sd+dp+rWpnSkWr+L
  XP_016508655.1 305 VATAVSAKSTFHVFYSPRASHADFVVPYQKYMKSINSRIPVGTRFKMRFDLDDSPERRYSGVVTGISDMDPFRWPNSKWRCL 386
                     6899*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.88E-44171297IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.5E-40173292IPR015300DNA-binding pseudobarrel domain
CDDcd100176.69E-22177279No hitNo description
PfamPF023622.4E-21179280IPR003340B3 DNA binding domain
PROSITE profilePS5086312.901179281IPR003340B3 DNA binding domain
SMARTSM010193.8E-23179281IPR003340B3 DNA binding domain
PfamPF065074.6E-33306386IPR010525Auxin response factor
SuperFamilySSF542774.12E-11678764No hitNo description
PfamPF023094.3E-6682769IPR033389AUX/IAA domain
PROSITE profilePS5174521.663685769IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 813 aa     Download sequence    Send to blast
MEIDLNHAIV SEVEKNACWN GECDKRGVGG SCVNCNLSTT STSSCSSNAS SSSSSSLALS  60
SIYMELWHAC AGPLTSLPKK GNVVVYFPQG HMEEAASVSP FSPIKMDFPT FGLQPQIFCR  120
VEDVQLLANK ENDEVYTQLT LLPLPESVAI SLKGKEHEDL GVDEEGNGIN PGKSASHMFC  180
KTLTASDTST HGGFSVPRRA AEDCFPPLDY KEQRPSQELI AKDLHGVEWK FRHIYRGQPR  240
RHLLTTGWSI FVSQKNLVSG DAVLFLRGEG GDLRLGIRRA ARPRNGLPES IIKSQYSDSD  300
VLSAVATAVS AKSTFHVFYS PRASHADFVV PYQKYMKSIN SRIPVGTRFK MRFDLDDSPE  360
RRYSGVVTGI SDMDPFRWPN SKWRCLMVRW DDDIMSNHQE RVSPWEIDSS VSLPPLSIQS  420
PRLKKLRTSQ QAPSLDSHFA GGSALLDFEE SVRSSKVLQG QENLGLISPP YGCDKTVRPL  480
DFELQNVARH NLMPTGIENI IVGDFVKTQP PTTYTGFLES NRFPKVLQGQ EICSLRSLTG  540
KGDVNFGAWG KPEFGCNVFS TYQRPKTNFY PLASEGARNV FLPYNAMYRA GQDSVVHSYF  600
NNNFQRENPT LSQNSVQNGV RREEGGMQKF ANEQRPLEMS KLSIPETNFK NENGGSLNAQ  660
ASCKLFGFSL IKEPSTPSSH SSGKRSCTKV HKQGSLVGRA IDLSRLNGYD DLLVELERLF  720
NMEDLLRDPN KGWRILYTDS ENDMMVVGDD PWHEFCEVVS KIHIYTQEEV EKMTIEGISD  780
DTQSCLEEAP AFMDASKSSS VGQPDFSPTV IRI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-115454082353Auxin response factor 1
4ldw_A1e-115454082353Auxin response factor 1
4ldw_B1e-115454082353Auxin response factor 1
4ldy_A1e-115454082353Auxin response factor 1
4ldy_B1e-115454082353Auxin response factor 1
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). 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3402590.0DQ340259.1 Lycopersicon esculentum auxin response factor 4 (ARF4) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016508655.10.0PREDICTED: auxin response factor 4-like
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1S4D5F10.0A0A1S4D5F1_TOBAC; Auxin response factor
STRINGXP_009779766.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA51432234
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]