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_012419-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: 808aa    MW: 89999.8 Da    PI: 6.7571
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_012419-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.23.7e-24167268199
                    EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                    f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +++
  NNU_012419-RA 167 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEDG 259
                    99****************************963.3445679************************************************..44999 PP

                    ..EEEEE-S CS
             B3  91 elvvkvfrk 99 
                    el+++v+r+
  NNU_012419-RA 260 ELRLGVRRA 268
                    9*****997 PP
2Auxin_resp121.94.7e-40293374182
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                    +a+a+st+s+F+v+Y+Pras++eFv++++k++k++++++s+G+Rfkm+fe+ed +err+sG+v+g+ dldp+rWpnSkWr+L
  NNU_012419-RA 293 VASAISTRSMFHVFYSPRASPAEFVIPYKKYVKSIRHPISIGTRFKMKFEMEDRAERRCSGVVTGIGDLDPCRWPNSKWRCL 374
                    6899*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019365.36E-45158289IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.0E-42160281IPR015300DNA-binding pseudobarrel domain
CDDcd100171.10E-22165267No hitNo description
SMARTSM010194.0E-24167269IPR003340B3 DNA binding domain
PfamPF023624.7E-22167268IPR003340B3 DNA binding domain
PROSITE profilePS5086313.239167269IPR003340B3 DNA binding domain
PfamPF065072.0E-34294374IPR010525Auxin response factor
SuperFamilySSF542771.13E-12673759No hitNo description
PROSITE profilePS5174524.182680764IPR000270PB1 domain
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: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: 808 aa     Download sequence    Send to blast
MEIDLNHAVK EGEKSACCQG DCEKGEGIGF CSLSSSSSSS CSSTSIPSES SSIYLELWHA  60
CAGPLTSLPK KGNLVVYFPQ GHLEQAATAS PFPCLEVPTF DLQPQILCRV VNVQLLANKE  120
NDEVYTQVTL LPQPELGERT LEGEGHEDDV GAEESGHIPS KSTPHMFCKT LTASDTSTHG  180
GFSVPRRAAE DCFPPLDYKQ QRPSQELVAK DLHGVEWRFR HIYRGQPRRH LLTTGWSIFV  240
SQKNLVSGDA VLFLRGEDGE LRLGVRRASK PRKSLPTSII SNHNMNLNVL SPVASAISTR  300
SMFHVFYSPR ASPAEFVIPY KKYVKSIRHP ISIGTRFKMK FEMEDRAERR CSGVVTGIGD  360
LDPCRWPNSK WRCLMVRWDE DIARKHQERV SPWEIEHSIS LPALSTPSTP RLKKLRMGLQ  420
STSPDNPATA TGCGLLGLDE SLRSFKVLQG QENVGFMSPQ YAGDKVNLPL DFEVHNLANQ  480
NLIKTGLAAS DISHSMYIQP TTYTGLSESN RFHKVLQGQE ICPPRSLLGR AEFSLGSWGK  540
NDFGCNVFNM YQKSNPHFHP FSPDGIRTIY MPFSDIYKSR HDPVLHPYMT NFHGGSVQTN  600
LSAQRNLSCL IRDEGCHPGS QNPTKEQKPQ EDLSILTIQA TEPKICGKDE IWDGSKTGCK  660
LFGFSLTGET PVPNSQSSRR SCIKVHKQGN LVGRAVDLSR LNSYDDLLNE LERLFNMEGL  720
LRDPNKGWQV VYTDSEDDMM MVGDDPWNEF CNIVSKIHIY TQEEVRKMTS GMVSDDTQSC  780
LEEPPALVDV SKSSSVGQPD SSPTVIRI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1235039616353Auxin response factor 1
4ldw_A1e-1235039616353Auxin response factor 1
4ldw_B1e-1235039616353Auxin response factor 1
4ldx_A1e-1235039616353Auxin response factor 1
4ldx_B1e-1235039616353Auxin response factor 1
4ldy_A1e-1235039616353Auxin response factor 1
4ldy_B1e-1235039616353Auxin 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_010264744.10.0PREDICTED: auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1U8AGB10.0A0A1U8AGB1_NELNU; Auxin response factor
STRINGXP_010264744.10.0(Nelumbo nucifera)
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]