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_005655-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: 691aa    MW: 76719.8 Da    PI: 7.0443
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_005655-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.13.9e-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_005655-RA 167 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELIAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEDG 259
                    99****************************963.3445679************************************************..44999 PP

                    ..EEEEE-S CS
             B3  91 elvvkvfrk 99 
                    el+++v+r+
  NNU_005655-RA 260 ELRLGVRRA 268
                    9*****997 PP
2Auxin_resp124.38.7e-41293374182
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                    +a+a+st+s+F+v+Y+Pras++eFv++++k++k+++++vs+G+Rfkm+fe+ed +err+sG+v+g+ dldp rWpnSkWr+L
  NNU_005655-RA 293 VANAISTRSMFHVFYSPRASPAEFVIPYQKYVKSIRHPVSIGTRFKMRFEMEDTPERRCSGVVTGMGDLDPHRWPNSKWRCL 374
                    689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.19E-44159288IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.0E-41161278IPR015300DNA-binding pseudobarrel domain
CDDcd100178.39E-23165267No hitNo description
SMARTSM010196.1E-24167269IPR003340B3 DNA binding domain
PROSITE profilePS5086313.197167269IPR003340B3 DNA binding domain
PfamPF023625.5E-22167268IPR003340B3 DNA binding domain
PfamPF065072.2E-35293374IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 691 aa     Download sequence    Send to blast
MEIDLNHAIK DGEKSSCCPG DCDKGGGVAG CSMSSPSSCC SSTSSVSSVS SSTYLELWHA  60
CAGPLTSLPK KGSLVVYFPQ GHLEQAASYS PFPCLEVPTF GLQPQIFCRV VNVQLLANKE  120
NDEVYTQVTL LPQPELGEMS MEGEGHEEDV GAEEGGHLPR KSTPHMFCKT LTASDTSTHG  180
GFSVPRRAAE DCFPPLDYKQ QRPSQELIAK DLHGVEWRFR HIYRGQPRRH LLTTGWSIFV  240
SQKNLVSGDA VLFLRGEDGE LRLGVRRASR PRNGLPNSIV GNHNMNLNVL SPVANAISTR  300
SMFHVFYSPR ASPAEFVIPY QKYVKSIRHP VSIGTRFKMR FEMEDTPERR CSGVVTGMGD  360
LDPHRWPNSK WRCLMIRWDE DIARENQERV SPWEIEPSIT LPALSTPSAP RLKKLRMSLQ  420
STSPNNHVTA VGGGFLDFDE SLRSSKVLQG QEKAGFMSPH YEGDMVNHPV GFEVHNPANQ  480
SLMITGSAAT DIGGSMQSQP TTYTGFAESN RFQKVLQGQE ICPLRSLHKR AEFNLNAWGX  540
NDLGYNMYQG PNPYHYPLAP DGIRTMYVPF NDVYKSSHNP IMHPYMTNXQ RGSFHPLVSA  600
QQKFFDIIRD EERHPGSNHT AKELKPLENL SSPTTQDLDP KDDGKDEIMN GSKTGCKLFG  660
FSLTGETRVP NSQSSNRSCD NISCNSSTVG Y
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1245639722354Auxin response factor 1
4ldw_A1e-1245639722354Auxin response factor 1
4ldw_B1e-1245639722354Auxin response factor 1
4ldy_A1e-1245639722354Auxin response factor 1
4ldy_B1e-1245639722354Auxin 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_010253600.10.0PREDICTED: auxin response factor 4-like isoform X3
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A1U7ZY840.0A0A1U7ZY84_NELNU; Auxin response factor
STRINGXP_010253598.10.0(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]