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 NNU_003960-RA
Organism
Nelumbo nucifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo
Family ARF
Protein Properties Length: 907aa    MW: 100954 Da    PI: 6.769
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_003960-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.41.2e-22157258199
                    EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                    f+k+lt sd++++g +++ +++a+e+        +++++  +l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + ++
  NNU_003960-RA 157 FCKTLTASDTSTHGGFSVLRRHADEClppldmcRQPPTQ--ELVAKDLHGIEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 248
                    99*****************************87555544..8************************************************..4499 PP

                    E..EEEEE-S CS
             B3  90 felvvkvfrk 99 
                    +el+v+v+r+
  NNU_003960-RA 249 GELRVGVRRA 258
                    99*****996 PP
2Auxin_resp120.99.4e-40283365183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    a+ha+st+++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg+ d+dp rWp+SkWr+Lk
  NNU_003960-RA 283 AWHAVSTGTMFTVYYKPRTSPAEFIVPFDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIGDADPNRWPGSKWRCLK 365
                    89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.7E-41150272IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.84E-40151286IPR015300DNA-binding pseudobarrel domain
CDDcd100173.63E-21156257No hitNo description
PfamPF023621.6E-20157258IPR003340B3 DNA binding domain
SMARTSM010191.1E-22157259IPR003340B3 DNA binding domain
PROSITE profilePS5086311.533157259IPR003340B3 DNA binding domain
PfamPF065072.8E-37283365IPR010525Auxin response factor
SuperFamilySSF542776.87E-11779857No hitNo description
PROSITE profilePS5174521.245780864IPR000270PB1 domain
PfamPF023095.8E-7827862IPR033389AUX/IAA 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: 907 aa     Download sequence    Send to blast
MAASEVSIKG NGGNVHGESF SSGCSEPTSG SETPRGYSSF PGTGKESGDV LYTELWHACA  60
GPLVTVPREG ERVFYFPQGH IEQVVASTNQ VADKEMPLYH LSSKILCRVI NVQLKAEPDT  120
DEVFAQVTLL PEQNQDENAV EKEPVPPPPP RPHVHSFCKT LTASDTSTHG GFSVLRRHAD  180
ECLPPLDMCR QPPTQELVAK DLHGIEWRFR HIFRGQPRRH LLQSGWSVFV SSKRLVAGDA  240
FIFLRGENGE LRVGVRRAMR QQSNVPSSVI SSHSMHLGVL ATAWHAVSTG TMFTVYYKPR  300
TSPAEFIVPF DQYMESVKNN YSIGMRFKMR FEGEEAPEQR FTGTIVGIGD ADPNRWPGSK  360
WRCLKVRWDE TSSIPRPERV SPWKIEPTLT PPALNPLPMH RPKRPRANMV PSSPDSSVLT  420
REGILQFPFV CPSLLCCGLH HHLCPRMLGV GDLAPLNLLE INTKFLLLLP GSSKITADPS  480
PVNGFSRVLQ GQEVLTLRCN LSENNESDTA QKPILWSSSQ DDEKINMIST QRRYGSENWM  540
PFVRHEPTCT DLLSSFRTID SSHGFCPPYI DQSPDETNPV KRQFQDKEGK FNLLAGPWAM  600
MPSNPLPNML EFSMKAPAHA GDVPSQMPGN VKYGGLSGYP MVQNLGVDQQ SGNWLRPLLP  660
HSHSENPSHV KGPFPRSEVL QPEAVKSKGE GSYKLFGIPL ISKPVTSEPA LPHNTRNEPV  720
DVTYHTIHQQ ALDSDQRSEQ SKGSKSAVVA IGGNEREKPS HTSQQFARDV QSKLQGSSTR  780
SCTKVLKQGI ALGRSVDLTK FNDYDELIAE LDRIFEFNGE LIAPNKSWLV VYTDNEGDMM  840
LVGDDPWQEF CNIVRKIFIY TREEVQRMNH VSLGPKMVEE NPVLTGERLV AKVEICPLDA  900
PAATVDD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-173433878354Auxin response factor 1
4ldw_A1e-173433878354Auxin response factor 1
4ldw_B1e-173433878354Auxin 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010250544.10.0PREDICTED: auxin response factor 2 isoform X1
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A1U7ZGE90.0A0A1U7ZGE9_NELNU; Auxin response factor
STRINGXP_010250544.10.0(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.40.0auxin 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]