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 Sp_005380_smnq.t1
Common NameSOVF_005380
Organism
Spinacia oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Chenopodioideae; Anserineae; Spinacia
Family ARF
Protein Properties Length: 795aa    MW: 88587.1 Da    PI: 6.5505
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sp_005380_smnq.t1genomeTBVRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.21.6e-23165266199
                        EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                        f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   +
  Sp_005380_smnq.t1 165 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKLQRP-SQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVAGDAVLFL--R 253
                        99****************************9977754.569************************************************..4 PP

                        SSEE..EEEEE-S CS
                 B3  87 rsefelvvkvfrk 99 
                         +++el+++++r+
  Sp_005380_smnq.t1 254 GEDGELRLGLRRT 266
                        499999*999985 PP
2Auxin_resp113.42.1e-37291372182
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                        +++a+s+k++F+v+Y+Pras++ F+v++++++k+++ ++s G+Rfkm+fe +ds+ rr+sG+++gv+d++p++WpnSkWr+L
  Sp_005380_smnq.t1 291 VVNAVSSKTMFHVYYCPRASHPAFIVPYHRYVKSISDPISTGTRFKMRFEVDDSPDRRCSGVIIGVNDINPYKWPNSKWRCL 372
                        6899*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-43157281IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.8E-40158277IPR015300DNA-binding pseudobarrel domain
CDDcd100177.91E-22163258No hitNo description
SMARTSM010192.2E-23165267IPR003340B3 DNA binding domain
PfamPF023621.1E-21165265IPR003340B3 DNA binding domain
PROSITE profilePS5086312.887165267IPR003340B3 DNA binding domain
PfamPF065075.7E-32292372IPR010525Auxin response factor
PfamPF023091.0E-7637751IPR033389AUX/IAA domain
SuperFamilySSF542771.47E-9664748No hitNo description
PROSITE profilePS5174523.473669751IPR000270PB1 domain
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: 795 aa     Download sequence    Send to blast
MEIDLNHEVM SEVEKIAYGN GHYEGGTYGC SYSSSSSCSS NTSPSAGTSY MELWHACAGP  60
LIFLPRKGNV VVYFPQGHLE QAVALSLFPP YPPMELPTYH LRPQIFCRVA NIQHLANKEN  120
DEVYIQLTLF PLPELGRTYL GSKAEGLGDE EDATKLLPKS TPHMFCKTLT ASDTSTHGGF  180
SVPRRAAEDC FPPLDYKLQR PSQELVAKDL HGVEWRFRHI YRGQPRRHLL TTGWSIFVSQ  240
KNLVAGDAVL FLRGEDGELR LGLRRTLRPK SGLPDSVIGK HSMYPNVLSA VVNAVSSKTM  300
FHVYYCPRAS HPAFIVPYHR YVKSISDPIS TGTRFKMRFE VDDSPDRRCS GVIIGVNDIN  360
PYKWPNSKWR CLMVRWDEDI VSDGQERVSP WEIDPSVSLP PLSIQSSPRI KKLRLGLPAS  420
LSSPVDCGGL GILDFEESVR SSKVLQGQEN VTYISPPYGC DKVNSMLDNV PGASGQQSLS  480
SSRIPRINMS EFRSLAQPVN YTGFLESNRF PKVLQGQEIC PLRSFTGKMN FNPGAWLNPT  540
LASTYFNGPK PSFYPLASEG TRNMYFPFDV YKSDLDSVTI PCENTMEKEN SAFGSSSFRT  600
NVLSQKFMTP NVDNEHTSAK NLSLLNSLNA SDKDQKDGLD DGPRPNCKLF GFSLEQETSG  660
TNSEIRSRRS CTKVHKQGSS VGRAIDLSKL KSYADLIIEL ERLFSMEEVL QDPAKGWRIL  720
YTDKENDVMV VGDDPWNEFC DVVSKIHIHT REEVEKMTVG MMTDDNQSCL EEAPATLDAC  780
KSSSVGQPDS SPSAT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1205239522354Auxin response factor 1
4ldw_A1e-1205239522354Auxin response factor 1
4ldw_B1e-1205239522354Auxin response factor 1
4ldy_A1e-1205239522354Auxin response factor 1
4ldy_B1e-1205239522354Auxin 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}.
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_021835555.10.0auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0K9S3750.0A0A0K9S375_SPIOL; Auxin response factor
STRINGXP_010689575.10.0(Beta vulgaris)
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]