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 Itr_sc002135.1_g00005.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family ARF
Protein Properties Length: 804aa    MW: 89318.6 Da    PI: 5.8312
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc002135.1_g00005.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.55.3e-23167268199
                              EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 
                              f+k+lt sd++++g +++p++ ae++      +++ +  ++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v
  Itr_sc002135.1_g00005.1 167 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKEQRPF-QELVARDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAV 251
                              99****************************76333333.59********************************************* PP

                              EEEE-SSSEE..EEEEE-S CS
                       B3  81 vFkldgrsefelvvkvfrk 99 
                              +F   + +++ l+++++r+
  Itr_sc002135.1_g00005.1 252 LFL--RGEGGDLRLGIRRA 268
                              ***..4489999**99986 PP
2Auxin_resp114.68.6e-38293374182
               Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                              + +a+s+ks+F+v+Y+Pras+++F+v+++k++k++++++ +G+Rfkm+f+++ds+ rr+sG+v+gv d+dp+rWp SkWr+L
  Itr_sc002135.1_g00005.1 293 VTNALSSKSTFNVFYSPRASHADFIVPYQKYVKSISNRIPIGTRFKMRFNMDDSPDRRFSGVVTGVGDSDPYRWPSSKWRCL 374
                              5789*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-43159286IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.9E-39161280IPR015300DNA-binding pseudobarrel domain
CDDcd100171.73E-21165267No hitNo description
PfamPF023627.2E-21167268IPR003340B3 DNA binding domain
SMARTSM010192.7E-23167269IPR003340B3 DNA binding domain
PROSITE profilePS5086312.562167269IPR003340B3 DNA binding domain
PfamPF065072.2E-31294374IPR010525Auxin response factor
SuperFamilySSF542771.57E-10669755No hitNo description
PfamPF023092.6E-7672760IPR033389AUX/IAA domain
PROSITE profilePS5174522.009676760IPR000270PB1 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: 804 aa     Download sequence    Send to blast
MEIDLNHEVR GGEEEEEKEE NKNGSCCYAE CEEGVLGSCG YNSSNASSSI YLELWHACAG  60
PLTCLPKKGN VVVYFPQGHL EQAASASPFP PLETDLPTLG LQPQIFCRVE DVQLLANKEN  120
DDVYTQLTLL PISEPVGMSL EGKEPEDLGM DEEGGGTAPT KSTSHMFCKT LTASDTSTHG  180
GFSVPRRAAE DCFPPLDYKE QRPFQELVAR DLHGVEWKFR HIYRGQPRRH LLTTGWSIFV  240
SQKNLVSGDA VLFLRGEGGD LRLGIRRAAR PRHGLPESII KNQTSYSSVL SAVTNALSSK  300
STFNVFYSPR ASHADFIVPY QKYVKSISNR IPIGTRFKMR FNMDDSPDRR FSGVVTGVGD  360
SDPYRWPSSK WRCLMVMWDD DFMSNHQERV SPWEIDSSVP FPPLSIQSSP RMKKLRTSQQ  420
ALPHESHFSG NGALLDFEES VRSSKVLQGQ ENLHLLSPLM GSEKTSCQKD FGRQPPIGHQ  480
NLGPTGIGKS QIGEFVRTQP PAIYTGFLES NRFPKVLQGQ EICSLRSLTM KSDINLGAWA  540
KPDLGCNIFQ ACQAPKNNFY PLGSEGARKV LLPYNGIYRA NQDPVMLPCM TNYQIESHVL  600
KPISIQGGAT REERIVQNYA NEQSPLEKGP KLPTPETHFT NEKIEPLNGT ASPCKLFGFS  660
LTNEPSTPSS QSSGKRSCTK VHKQGSLVGR AIDLSRLNSY DDLLVELEKL FGMEDLLRDP  720
NKGWRVLYTD SENDMMVVGD DPWHEFCEVV SKIHIYTQEE VEKMTIGGMS DDTQSCLEEA  780
PPATDASKSS SVGQPDSSPT VIRI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1174739616353Auxin response factor 1
4ldy_B1e-1174739616353Auxin 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019194894.10.0PREDICTED: auxin response factor 4-like
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1S3ZD940.0A0A1S3ZD94_TOBAC; Auxin response factor
TrEMBLA0A1U7WR300.0A0A1U7WR30_NICSY; 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]