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 Vradi04g02680.1
Organism
Vigna radiata
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; Vigna
Family ARF
Protein Properties Length: 867aa    MW: 96295.8 Da    PI: 6.9296
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi04g02680.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.23.1e-23176277199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d+++ +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +
  Vradi04g02680.1 176 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHNVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGE 266
                      99****************************963.3445679************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++++r+
  Vradi04g02680.1 267 NGELRLGIRRA 277
                      9999****996 PP
2Auxin_resp90.14e-303564281182
       Auxin_resp  11 FevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                      F++    +as+++Fvv+++k++k++k++v++G+Rfkm+fe+++s+err+ sG+v+g+sdldp++Wp+S+Wr+L
  Vradi04g02680.1 356 FNIGKFHKASHADFVVPYQKYVKSIKNPVTIGTRFKMRFEMDESPERRCtSGIVTGMSDLDPYKWPKSRWRCL 428
                      666556689****************************************9**********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-44167288IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.7E-40169287IPR015300DNA-binding pseudobarrel domain
CDDcd100174.48E-22174276No hitNo description
SMARTSM010193.0E-23176278IPR003340B3 DNA binding domain
PfamPF023623.5E-21176277IPR003340B3 DNA binding domain
PROSITE profilePS5086312.717176278IPR003340B3 DNA binding domain
PfamPF065072.3E-24356428IPR010525Auxin response factor
PfamPF023094.9E-7730822IPR033389AUX/IAA domain
PROSITE profilePS5174521.581738820IPR000270PB1 domain
SuperFamilySSF542775.43E-10741817No hitNo description
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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 867 aa     Download sequence    Send to blast
MEIDLNYAVT EPEKTASCNG DCDKAAACVC VSSLSSPTCS SSGSSSARVS SSYLELWHAC  60
AGPLTSLPKK GNVVVYFPQG HLEQASSFSL FSPMDMPTYD LQPQIFCRVV NIQLLVSSQI  120
ESELANKEND EVYTQVTLLP QAELAGMYLE GKELEELGAD EEGNETTPTK STPHMFCKTL  180
TASDTSTHGG FSVPRRAAED CFPPLDYKQQ RPSQELVAKD LHNVEWKFRH IYRGQPRRHL  240
LTTGWSIFVS QKNLVSGDAV LFLRGENGEL RLGIRRAARP RNGLPESIVG SQNYYPNFLS  300
SVANAISSKS MFHVFYSPRC NPRIALWKLL TLLWNLTDTD MLYFSILSTV SELVSFNIGK  360
FHKASHADFV VPYQKYVKSI KNPVTIGTRF KMRFEMDESP ERRCTSGIVT GMSDLDPYKW  420
PKSRWRCLMV RWDEDIEINH QDRVSPWEID PSASLPPLSI QSSRRLKKLR PGLQGASPSH  480
LITGVAAGGS GFMDSEESVR SSKVLQGQEK SGFMSLYYGC DTVTKQPEFE IRSPSHPNFA  540
SSTGVRKIAA GEFMRVHPPS YAGFTEPNRF PRVLQSQEIC QLRSLTGKVD LNFGAWGKPS  600
VSFTNYNLQQ ATKPNFHSLG PEVIQTAYFP YGDIHKAGQG SGTSMLCSKP TNFQRENVPF  660
NSPSSQSGIM RNEVGRAEVT IQNEQKLQDN ISGAASLGTN VRIPSDENFN GKVNACKLFG  720
FPLSGEATTQ NLQNSAKRSC TKVHKQGSLV GRAIDLSRLN SYNDLLVELE RLFSMEGLLR  780
DPNKGWRILY TDSENDIMVV GDDPWHEFCE VVSKIHIHTQ EEVEKMTIGM MNDDTQSCLE  840
QAPVMIEASK SSSVGQPDSS PTVVRI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1095545122354Auxin response factor 1
4ldw_A1e-1095545122354Auxin response factor 1
4ldw_B1e-1095545122354Auxin response factor 1
4ldx_A1e-1095545122354Auxin response factor 1
4ldx_B1e-1095545122354Auxin 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
PlantRegMapVradi04g02680.1
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_014498033.10.0auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1S3TW800.0A0A1S3TW80_VIGRR; 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]