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 Lsa004897
Organism
Lactuca sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca
Family ARF
Protein Properties Length: 786aa    MW: 86476.2 Da    PI: 6.6299
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Lsa#S58696037PU_refUnigeneView CDS
PUT-187a-Lactuca_sativa-48944PU_unrefplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.61.2e-23157258199
                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++
  Lsa004897 157 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEGGELRL 253
                99****************************963.3445679************************************************..449999999 PP

                EEE-S CS
         B3  95 kvfrk 99 
                + +r+
  Lsa004897 254 GTRRA 258
                99986 PP
2Auxin_resp108.38.4e-36283364182
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                 +a+a+st+s+F+v+Y+Pr+s+++Fvv++ k++k++++ +s+G Rfkm+f +++s+err+sG+v+gv d dp++W+nSkWr+L
   Lsa004897 283 VAKAVSTNSIFHVFYSPRSSRADFVVPYTKYMKSVSNMISIGARFKMKFCMDESPERRFSGVVTGVGDKDPYKWNNSKWRCL 364
                 6899*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.19E-43150267IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-38151262IPR015300DNA-binding pseudobarrel domain
CDDcd100172.77E-21156257No hitNo description
PROSITE profilePS5086312.717157259IPR003340B3 DNA binding domain
SMARTSM010198.3E-23157259IPR003340B3 DNA binding domain
PfamPF023621.7E-21157258IPR003340B3 DNA binding domain
PfamPF065071.1E-30283364IPR010525Auxin response factor
PROSITE profilePS5174524.101666748IPR000270PB1 domain
SuperFamilySSF542772.11E-11668745No hitNo description
Gene3DG3DSA:3.10.20.2404.1E-4670738No 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: 786 aa     Download sequence    Send to blast
MEIDLNHAVS GQNAESFGNG GVSSLSTSSN SSNSSLKSPN SNPSSSVYME LWHACAGPLT  60
SLPNKGNVVV YFPQGHLEQI ASHSSTHFSP IEVPSLGLPP QIFCKIVDVQ LLANKDNDEV  120
YTKLALLPLP EGNLQEGEED QEEGGGVTPT RSTPQMFCKT LTASDTSTHG GFSVPRRAAE  180
DCFPPLDYKQ QRPSQELVAK DLHGVEWKFR HIYRGQPRRH LLTTGWSIFV SQKNLVSGDA  240
VLFLRGEGGE LRLGTRRATR PKNILPDITM SNLNSYSDTL ASVAKAVSTN SIFHVFYSPR  300
SSRADFVVPY TKYMKSVSNM ISIGARFKMK FCMDESPERR FSGVVTGVGD KDPYKWNNSK  360
WRCLMVRWDE DIGNDHQERI SPWEIDLSGG GFPLLNIQSS PRHKKLRAGL HATPSGHPAT  420
ARGGYVDFEE SIRSSKVLQG QENIGPMSPL YGRDKMNNSL SFGVQPSMHP SFSPNGMMMM  480
GRSSTNFVSE LMKTHHQPLT TTPYSGFLGS DNTTRFPKVL QGQEICSLRS LTGKIPPNIG  540
SWGLPRTHVG NNVLNMNQSF YPLGSEGGRN FGFPIGDVYE ARQNPGPVLP TNIMRSHIIP  600
PSVESGIMRD NNVASLQLPN EKTEQPNSSS EKDDGASDSI ESSCKLFGFP LNEPPTLLDA  660
KSLNKRSCTK VHKQGNKVGR AVDLSKVSSY RELFMELEAL FNMEGVFSNP DGGWRLLYTD  720
EENDMMVVGD DPWDEFARMA TKIHIYTAEE VEKLMSSGVI SDNTSCLEEA PGVVDTAKSS  780
SVGQPD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-120313863353Auxin response factor 1
4ldy_B1e-120313863353Auxin 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023751515.10.0auxin response factor 4-like isoform X2
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A2J6M5H10.0A0A2J6M5H1_LACSA; Auxin response factor
STRINGVIT_06s0004g03130.t010.0(Vitis vinifera)
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]