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 Phvul.005G136900.1
Common NamePHAVU_005G136900g
Organism
Phaseolus vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus
Family ARF
Protein Properties Length: 809aa    MW: 89407.9 Da    PI: 7.1112
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.005G136900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.14.1e-24165266199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   
  Phvul.005G136900.1 165 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVQWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL-- 252
                         99****************************963.3445679************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+++++r+
  Phvul.005G136900.1 253 RGENGELRLGIRRA 266
                         4499999****996 PP
2Auxin_resp119.82.1e-39291373182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                         +a+a+s ks+F+v+Y+Pras+++Fvv+++k++k++k++v++G+Rfkm+fe+++s+err+ sG+v+g+sdldp++Wp+SkWr+L
  Phvul.005G136900.1 291 VANAISAKSMFHVFYSPRASHADFVVPYQKYVKSIKNPVTIGTRFKMRFEMDESPERRCtSGIVTGTSDLDPYKWPKSKWRCL 373
                         689********************************************************9**********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-44156277IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-40158276IPR015300DNA-binding pseudobarrel domain
CDDcd100174.43E-23163265No hitNo description
SMARTSM010193.9E-24165267IPR003340B3 DNA binding domain
PROSITE profilePS5086313.239165267IPR003340B3 DNA binding domain
PfamPF023625.5E-22165266IPR003340B3 DNA binding domain
PfamPF065071.8E-33291373IPR010525Auxin response factor
PROSITE profilePS5174522.418680762IPR000270PB1 domain
SuperFamilySSF542778.5E-10682759No hitNo description
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: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: 809 aa     Download sequence    Send to blast
MEIDLNYAVI EAEKTASCNG ECGKGAACVC SLSSPTCSSS GSSSASVSSS YLELWHACAG  60
PLTSLPKKGN VVVYFPQGHL EQASSFAPFS PMDMPTYDLQ PQIFCRVVNI QLLANKENDE  120
VYTQVTLLPQ AELAGMYLEG KELEELGADE EGNETTPTKS TPHMFCKTLT ASDTSTHGGF  180
SVPRRAAEDC FPPLDYKQQR PSQELVAKDL HGVQWKFRHI YRGQPRRHLL TTGWSIFVSQ  240
KNLVSGDAVL FLRGENGELR LGIRRAARPR NGLPESIVGS QNYYPNFLSS VANAISAKSM  300
FHVFYSPRAS HADFVVPYQK YVKSIKNPVT IGTRFKMRFE MDESPERRCT SGIVTGTSDL  360
DPYKWPKSKW RCLMVRWDED IEINHQDRVS PWEIDPSASL PPLSIQSSRR LKKLRPGLQG  420
ASPSHLITGG SGFMDSEESV RSSKVLQGQE NSGFMSLYYG CDTVTKQPEF EIRSPTSHPN  480
FASTGVRKIA AGEFMRVHPS SYAGFSETNR FPRVLQSQEI CQLRSMTGKV DLNFGAWGKP  540
SLSCTNYNLR QATIPNFHSL GPEVIQTAYF PYGDIHKAGQ VSGTGMMCSK TSNFQGENVP  600
FNSPSSQSGI MRNEVGRSDV TIPNEQKLQD NISGAASLGA TMRIPNDDNF NGKVKACKLF  660
GFPLSGEATT QNLQQNSAKR SCTKVHKQGS LVGRAIDLSR LNSYSDLLIE LERLFSMEGL  720
LRDPKKGWRI LYTDSENDIM VVGDDPWHEF CEVVSKIHIH TQEEVEKMTI GMINDDTQSC  780
LEQAPVMIEA SKSSSVGQPD SSPTVVRI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-119393967354Auxin response factor 1
4ldw_A1e-119393967354Auxin response factor 1
4ldw_B1e-119393967354Auxin 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPhvul.005G136900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150400.0AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007150222.10.0hypothetical protein PHAVU_005G136900g
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLV7C0110.0V7C011_PHAVU; Auxin response factor
STRINGXP_007150222.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
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]