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_009592534.1
Organism
Nicotiana tomentosiformis
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 B3
Protein Properties Length: 337aa    MW: 36719.6 Da    PI: 6.8248
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009592534.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3764.2e-24179280199
                     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_009592534.1 179 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKEQ-RPSQELIAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEG 270
                     99****************************86333.45679************************************************..4489 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                     + l+++++r+
  XP_009592534.1 271 GDLRLGIRRA 280
                     999**99986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.15E-45171297IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.3E-41173293IPR015300DNA-binding pseudobarrel domain
CDDcd100171.94E-23177279No hitNo description
PROSITE profilePS5086312.901179281IPR003340B3 DNA binding domain
SMARTSM010193.8E-23179281IPR003340B3 DNA binding domain
PfamPF023625.6E-22179280IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 337 aa     Download sequence    Send to blast
MEIDLNHAIV SEVEKNACCN 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 AKSSFHVFYS PRYFAKSLCM VFCLVVA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A8e-91453222267Auxin response factor 1
4ldw_A8e-91453222267Auxin response factor 1
4ldw_B8e-91453222267Auxin response factor 1
4ldx_A1e-90453222267Auxin response factor 1
4ldx_B1e-90453222267Auxin response factor 1
4ldy_A9e-91453222267Auxin response factor 1
4ldy_B9e-91453222267Auxin 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
GenBankGQ4755330.0GQ475533.1 Petunia x hybrida putative ARF4 protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009592534.10.0PREDICTED: auxin response factor 4-like
SwissprotQ9ZTX91e-136ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1S4D5F10.0A0A1S4D5F1_TOBAC; Auxin response factor
STRINGXP_009592534.10.0(Nicotiana tomentosiformis)
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
AT5G60450.11e-128auxin 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]