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 Lsa009914
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: 764aa    MW: 84434.9 Da    PI: 6.3199
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-187a-Lactuca_sativa-24940PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.61.1e-23164265199
                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++
  Lsa009914 164 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEGGELRL 260
                99****************************963.3445679************************************************..449999999 PP

                EEE-S CS
         B3  95 kvfrk 99 
                + +r+
  Lsa009914 261 GTRRA 265
                99986 PP
2Auxin_resp1058.6e-35290371182
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                 +a+a+st+++F+v+Y+Pr+ +++Fvv++ k+++ +++ ++ G+Rfkm+f +++s+err+ Gtv+gvsd+dp++W++SkWr+L
   Lsa009914 290 VANAVSTNTTFDVFYSPRSNRADFVVPYVKYMDCINNMITNGTRFKMRFSMDESPERRFRGTVTGVSDMDPYKWSKSKWRCL 371
                 689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-43157277IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.2E-39158274IPR015300DNA-binding pseudobarrel domain
CDDcd100174.86E-21163264No hitNo description
PROSITE profilePS5086312.717164266IPR003340B3 DNA binding domain
PfamPF023621.7E-21164265IPR003340B3 DNA binding domain
SMARTSM010198.3E-23164266IPR003340B3 DNA binding domain
PfamPF065077.4E-30290371IPR010525Auxin response factor
SuperFamilySSF542774.76E-12644726No hitNo description
PROSITE profilePS5174524.992647729IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2404.0E-5650722No 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: 764 aa     Download sequence    Send to blast
MEIDLNHAVN GIEAGEQVYS VDSSGNGGDS SLSASSNSSN SSLKSSNPNF ESSVYMELWH  60
ACAGPLTTLP NKGNVVVYFP QGHLEQIASH SSIQFSPTEV PSFGLQPQIF CKVVDVQLLA  120
NKENDEIYTK LTLLPLPELT DKNLQEGEEE GGGGTLAKST PQMFCKTLTA SDTSTHGGFS  180
VPRRAAEDCF PPLDYKQQRP SQELVAKDLH GVEWKFRHIY RGQPRRHLLT TGWSIFVSQK  240
NLVSGDAVLF LRGEGGELRL GTRRATRPRN VLPDTIMPNS NSFMDILAPV ANAVSTNTTF  300
DVFYSPRSNR ADFVVPYVKY MDCINNMITN GTRFKMRFSM DESPERRFRG TVTGVSDMDP  360
YKWSKSKWRC LMVRWDEDVG NSNQERISPW EIDLSGASVP LLSIHPSLRF KKLRANLHSS  420
PSEHPVNAWG GCLDFEESTR SSKVLQGQEN IGGTINNSLN FGVQPSMHGV QVQPSMHTGF  480
TPSQMLLTGR STNIVSELMR NHHHHSGFLG SENRFPKVLQ GQEICSMRSL TGKINGSWGP  540
PRTNIPNNPG FYPLASEGGR NFCFPNLPPV LPMTGFPINR EGFGNGVMRD DVSALKLQLQ  600
VPKTVEPNSG SEKDDGGSDS NGSSCKLFGF HLNGVNSTPD AQSLSKRSCI KVHKQGNKVG  660
RAIHLSKMSS YEELFSELEA LFQMEGLLKN RDGGWRLLYT DEENDMMVVG DDPWEEFARM  720
ATKIHIYTNE EVEKLMSGGV ISDDTSCLEE APAMVVDTAK SSPE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1195739322353Auxin response factor 1
4ldw_A1e-1195739322353Auxin response factor 1
4ldw_B1e-1195739322353Auxin response factor 1
4ldy_A1e-1195739322353Auxin response factor 1
4ldy_B1e-1195739322353Auxin 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_023729795.10.0auxin response factor 4-like
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A251SS300.0A0A251SS30_HELAN; 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]