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 MDP0000225980
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family ARF
Protein Properties Length: 799aa    MW: 88445.6 Da    PI: 6.2126
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000225980genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.98.1e-23164264198
                    EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                    f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ F ++++L +gD v+F   + +++
  MDP0000225980 164 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFISQKNLVSGDAVLFL--RGENG 256
                    99****************************963.3445679************************************************..44999 PP

                    ..EEEEE- CS
             B3  91 elvvkvfr 98 
                    el++++++
  MDP0000225980 257 ELRLGIRK 264
                    99999997 PP
2Auxin_resp1201.8e-39290371182
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                    +a+a+stks+F+v+Y+Pras+seFv++++k+++++ ++v+ G+Rfkm+f+ +ds+e+r+sG+v+g+ dldp+rWpnSkWr+L
  MDP0000225980 290 VANAISTKSMFHVFYSPRASRSEFVIPYQKYVRSIANPVTSGTRFKMRFDRDDSPEKRCSGVVTGIADLDPFRWPNSKWRCL 371
                    689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.54E-44156277IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.0E-39157274IPR015300DNA-binding pseudobarrel domain
CDDcd100175.07E-22162264No hitNo description
PROSITE profilePS5086312.731164266IPR003340B3 DNA binding domain
SMARTSM010194.8E-23164266IPR003340B3 DNA binding domain
PfamPF023628.3E-21164265IPR003340B3 DNA binding domain
PfamPF065071.6E-33290371IPR010525Auxin response factor
SuperFamilySSF542779.81E-9670750No hitNo description
PROSITE profilePS5174520.108671755IPR000270PB1 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: 799 aa     Download sequence    Send to blast
MEIDLNHAVS EVEKNAYCNG DCGGVCVXCL SSSTSSSSSN SSSAPVASSI YLELWHACAG  60
PLISLPKKGN VVVYFPQGHL EQVASSSPFS PMEMPTFDLH PQIFCKVVNV QLLANKENDE  120
VYTHVTLLPQ PEFAGTNLEG KELEELGVDE GDGGSPTKST PHMFCKTLTA SDTSTHGGFS  180
VPRRAAEDCF PPLDYKQQRP SQELVAKDLH GVEWRFRHIY RGQPRRHLLT TGWSIFISQK  240
NLVSGDAVLF LRGENGELRL GIRKAVRPRN CLPDSVVGNQ NTYPSVLSLV ANAISTKSMF  300
HVFYSPRASR SEFVIPYQKY VRSIANPVTS GTRFKMRFDR DDSPEKRCSG VVTGIADLDP  360
FRWPNSKWRC LMVRWDEDIG NDHQDRVSPW EVDPSASLPP MNIQSSPRLK KLRTSLQGTQ  420
PIHSITAGGA GFKDFEESVK SSKVLQGQEN IGFISPLYGC DTVNRSQDFE MHAPAHLSLA  480
SNATQKATID ELMRARHTSY TGFAESDRFP KVLQGQEICP LRSLTGKANF TLGDWESNIG  540
CTPFNVYQPP KPNHFSLASE SLPNMYFPYG DVHRAXQEPT MCSNATNLPR ENMQINPYTV  600
QMGVTRNEVG RPNKPSEHKT QESTSALPAL VPNPRNPNDE DYNGTVTGCK LFGFSLTGEN  660
PTPNSQSSSK RSCTKVHKQG SLVGXAIDLA KLNGYGDLLT ELERLFGMEG LLRDSDEGWR  720
ILYTDSENDV MVVGDDPWHE FCNVVSKIHI YTQEEVEKMT IGMISDDTQS SLEQAPVMLE  780
VSKSSSVSQP DSSPTVIRV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-123363942354Auxin response factor 1
4ldy_B1e-123363942354Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mdo.115320.0cell culture| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008338388.20.0auxin response factor 4-like isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A498KB290.0A0A498KB29_MALDO; Auxin response factor
STRINGXP_008338388.10.0(Malus domestica)
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]