PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID 676740016
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family ARF
Protein Properties Length: 835aa    MW: 92979.9 Da    PI: 6.0911
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676740016genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.52.9e-24174275199
                EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   +++++el++
  676740016 174 FCKTLTASDTSTHGGFSVPRRAAEDCfapldyK-QQRPSQELIAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RDEDGELRL 270
                99****************************963.3445679************************************************..5699999** PP

                EEE-S CS
         B3  95 kvfrk 99 
                +++r+
  676740016 271 GIRRS 275
                **996 PP

2Auxin_resp106.82.5e-35299391182
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserr.......l....sGtvvgvsdldpvrWpnSkWrsL 82 
                 +a+a+stks+F+v+Y+Pra+++eFv+++ek+ +++++++++G+Rf+m+fe++ds+err       +    sG+v+gv dldp+rWpnSkWr+L
   676740016 299 VANAVSTKSMFHVFYSPRATHAEFVIPYEKYITSIRNPICIGTRFRMRFEMDDSPERRsenivalFscrcSGVVTGVCDLDPYRWPNSKWRCL 391
                 689*****************************************************974443333134558*********************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.1E-40165286IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.58E-42168281IPR015300DNA-binding pseudobarrel domain
CDDcd100174.46E-21172274No hitNo description
PfamPF023623.1E-22174275IPR003340B3 DNA binding domain
PROSITE profilePS5086313.437174276IPR003340B3 DNA binding domain
SMARTSM010193.4E-23174276IPR003340B3 DNA binding domain
PfamPF065072.8E-29299391IPR010525Auxin response factor
PROSITE profilePS5174519.562712794IPR000270PB1 domain
SuperFamilySSF542772.16E-9716787No 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: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: 835 aa     Download sequence    Send to blast
MEFDLNTEIA EVEEEESDDG GGVVGARIEK GRFGVLPSSS SSCSSGSSSS SSTASASSIY  60
SELWHACAGP LTSLPKKGNV VAYFPQGHLE QDAMVSYPSP LDIPKFDLSP QIFCRVVNVQ  120
LLANKETDEV YTQVTLLPLQ EFSMLNAEGK EARELGGEEE RNGSSSVKRT PHMFCKTLTA  180
SDTSTHGGFS VPRRAAEDCF APLDYKQQRP SQELIAKDLH GVEWKFRHIY RGQPRRHLLT  240
TGWSIFVSQK NLVSGDAVLF LRDEDGELRL GIRRSARPRN GLPDSILEKN SCSNILSLVA  300
NAVSTKSMFH VFYSPRATHA EFVIPYEKYI TSIRNPICIG TRFRMRFEMD DSPERRSENI  360
VALFSCRCSG VVTGVCDLDP YRWPNSKWRC LLVRWDESFM SDHQERVSPW EIDPSASLPP  420
LSIQSSPRPK RPWAGLLDTT PQRNPITGTH PFSLEDMLLQ IVLYIFSGAD DWLLFLESVR  480
PSKVLQGQEN IGSASSPLQG FDVMNRRILD FAMQSHANPV LFSSRVKDRF SEFVDSTSLD  540
PACPSVMDLD RYPRVLQGQE ICSLRSFPQV AGFSPGAASG KPNLGYTDPF AYQNKSSFYP  600
LASQGIRSSH IPYQNPYNAG DKSLSHPSRA VNFGGESRNF VAQNEGGLPK NVTADLPFKI  660
DMMGTQKEGD FNMNASTGCK LFGFSLPVET PSSNPQSSSK RICTKVSLIM ISRVQKVHKQ  720
GSLVGRAIDL SRLNGYNDLL TELERLFNME GLLRDPEKGW RILYTDSEND MMVVGDDPWH  780
DFCNVVLKIH LYTKEEVENA NDDNKSCLEQ AALMMEASKS SSVSQPDFSP TVTRV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-110424142354Auxin response factor 1
4ldw_A1e-110424142354Auxin response factor 1
4ldw_B1e-110424142354Auxin 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
PlantRegMap676740016
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0808320.0AY080832.1 Arabidopsis thaliana auxin response factor ARF4 (At5g60450) mRNA, complete cds.
GenBankAY1139770.0AY113977.1 Arabidopsis thaliana auxin response factor ARF4 (At5g60450) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024011962.10.0auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLV4N9650.0V4N965_EUTSA; Auxin response factor
STRINGXP_006400848.10.0(Eutrema salsugineum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95302636
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]