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 XP_009769543.1
Organism
Nicotiana sylvestris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family ARF
Protein Properties Length: 799aa    MW: 88712.5 Da    PI: 6.6098
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009769543.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.11.6e-181311953399
                     -SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
              B3  33 sktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                     +++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + +++el+v+v+r+
  XP_009769543.1 131 TQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGENGELRVGVRRA 195
                     3589***********************************************..449999*****996 PP
2Auxin_resp122.23.7e-40220302183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a+ha++tk++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d+dp rWp+SkWr+Lk
  XP_009769543.1 220 AWHAIQTKTMFTVYYKPRTSPAEFIVPYDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGTEDSDPKRWPESKWRCLK 302
                     89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010194.3E-10114196IPR003340B3 DNA binding domain
SuperFamilySSF1019367.72E-25118223IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-27122209IPR015300DNA-binding pseudobarrel domain
CDDcd100171.20E-14129194No hitNo description
PfamPF023623.8E-16129195IPR003340B3 DNA binding domain
PROSITE profilePS5086311.251133196IPR003340B3 DNA binding domain
PfamPF065072.8E-37220302IPR010525Auxin response factor
PfamPF023098.1E-11663758IPR033389AUX/IAA domain
SuperFamilySSF542771.32E-12668750No hitNo description
PROSITE profilePS5174525.219673757IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 799 aa     Download sequence    Send to blast
MATSEVSIKG YNEPIDGSRP VSETVRSAPV VGKVDAETAL YTELWRACAG PLVTVPREGE  60
LVYYFPQGHI EQVEASTNQV ADQQMPLYNL PSKILCRVVN VLLKAEPDTD EVFAQVTLMP  120
EPNDMSRQPP TQELVAKDLH GNEWRFRHIF RGQPRRHLLQ SGWSVFVSSK RLVAGDAFIF  180
LRGENGELRV GVRRAMRQQG NAPSSVISSH SMHLGVLATA WHAIQTKTMF TVYYKPRTSP  240
AEFIVPYDQY MESVKNNYSI GMRFKMRFEG EEAPEQRFTG TIVGTEDSDP KRWPESKWRC  300
LKVRWDENST IPRPDRVSPW KIEPALSPPA LNAPPIARPK RPRSSILPSS PDSSVLTREG  360
SSRITADPSQ ASGFSRVLQG QELSALRGGF AESNDSDVSE KPMLWPPSVD DEKIDIHSAS  420
KRYLSDKWLP LGRPESSLTD LLSGFGVQNN SSHGFCLPSA DQTAFGASLV KRQAQDQEKD  480
FSLLGKPWLL LSSSLSLNLM DSGSKAPGQG ADTPYQMQGD ARYSGFGKFS VLPGHRVDNQ  540
QGSWFMPQSV SPYFQLSSHS RDLMHKPTVV QKPEAVKPKE GNCKLFGIPL TSNVCTDPVM  600
TRKSSLMDSA SNMNIGINSH QSPATDSDQR SEQSKGSKVL DDGITANDQD KQFHTSHLAA  660
RDRDAKGHSS STRSCTKVHK QGTALGRSVD LAKFNNYDEL IAELDQLFDF NGELKARSKS  720
WLVVYTDDEG DMMLVGDDPW QEFCGMVRKI FIYTKEEVQR MNPGTLNSKG EDTSSVAEGS  780
EAKEVKSLQH PSESGQEES
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1403932418354Auxin response factor 1
4ldw_A1e-1403932418354Auxin response factor 1
4ldw_B1e-1403932418354Auxin 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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3402550.0DQ340255.1 Lycopersicon esculentum auxin response factor 2 (ARF2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009769543.10.0PREDICTED: auxin response factor 2-like isoform X2
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A1U7VT580.0A0A1U7VT58_NICSY; Auxin response factor
STRINGXP_009769542.10.0(Nicotiana sylvestris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]
  3. Xu T, et al.
    SlARF2a plays a negative role in mediating axillary shoot formation.
    Sci Rep, 2016. 6: p. 33728
    [PMID:27645097]
  4. Ren Z,Liu R,Gu W,Dong X
    The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence.
    Plant Sci., 2017. 256: p. 103-111
    [PMID:28167023]