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_018202-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: 738aa    MW: 80858.5 Da    PI: 6.1767
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_018202-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.31.3e-22131235199
                    EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                    f+k+lt sd++++g +++p++ ae++         +++++  ++l+ +d++   W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F   ++
  NNU_018202-RA 131 FCKTLTASDTSTHGGFSVPRRAAEKIfpplvctdfSMQPPA-QELVARDLHDVAWTFRHIYRGQPKRHLLTTGWSVFVSTKRLLAGDSVLFI--RD 223
                    99********************************9445444.48************************************************..45 PP

                    SEE..EEEEE-S CS
             B3  88 sefelvvkvfrk 99 
                    ++ +l+++++r+
  NNU_018202-RA 224 EKSQLLLGIRRA 235
                    677789999997 PP
2Auxin_resp124.48e-41260342183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    aahaa+++s+F+++YnPras+seFvv+++k+ ka++++vs+GmRf+m+fete+s  rr++Gt++g+sdldpvrW+nS+Wr+++
  NNU_018202-RA 260 AAHAAANNSPFTIFYNPRASPSEFVVPLAKYTKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDLDPVRWKNSQWRNIQ 342
                    79******************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-43119263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.7E-39123249IPR015300DNA-binding pseudobarrel domain
CDDcd100176.86E-20130234No hitNo description
SMARTSM010194.8E-22131236IPR003340B3 DNA binding domain
PROSITE profilePS5086311.956131236IPR003340B3 DNA binding domain
PfamPF023626.7E-21131235IPR003340B3 DNA binding domain
PfamPF065078.1E-36260342IPR010525Auxin response factor
PfamPF023097.9E-9611700IPR033389AUX/IAA domain
PROSITE profilePS5174525.174614698IPR000270PB1 domain
SuperFamilySSF542771.23E-8631693No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0010311Biological Processlateral root formation
GO:0048366Biological Processleaf development
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 738 aa     Download sequence    Send to blast
MKAPSNGFPA NSGEVGIETG ERKGINSELW HACAGPLVSL PPVGSLVVYF PQGHSEQVAA  60
SMQKQTDSIP SYPNLPSKLI CVLHNVTLHA DAETDEVYAQ MTLQPVNKYD REALLASDMA  120
LKQNRQPTEF FCKTLTASDT STHGGFSVPR RAAEKIFPPL VCTDFSMQPP AQELVARDLH  180
DVAWTFRHIY RGQPKRHLLT TGWSVFVSTK RLLAGDSVLF IRDEKSQLLL GIRRANRQQP  240
TLASSVISSD SMHIGILAAA AHAAANNSPF TIFYNPRASP SEFVVPLAKY TKAMYTQVSL  300
GMRFRMMFET EESGVRRYMG TITGISDLDP VRWKNSQWRN IQVGWDESAA GERPGRVSIW  360
DIEPVATPFY ICPPPFFRPK FSRQPGMLGQ QKQSVAIRAH SGPTDGDAPS CSTSPSTNNC  420
QISASRVLNG THQGPTILGE DTVVQPASNP GQELRSKPDI QAKHELANLT DPDQLVHRGV  480
TADQLDASSS ATSYCLDGSS VQQSVSLPTF GLEGEAQGDP PNNLLFGVNI DGLTPETLLS  540
RGFGSGKDLQ NLLSSYGGTQ RDIETELSTA AISTQSFGVP DMSFKPGCSS DAAVNESGVL  600
NRSLWXNQTP QRMRTFTKVQ KRGSVGRSID VTRYKGYDEL RYDLARMFGI EGQLEDPHKN  660
EWKLVYVDHE NDILLVGDDP WGEFVSCVQS IKILSAAEVQ QMSLDGDLGN LRIPNQACSR  720
SDSENAWRGH YDDNLGAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1721836343388Auxin response factor 5
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. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16461383, ECO:0000269|PubMed:17259263}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and ethylene. {ECO:0000269|PubMed:16461383}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010273878.10.0PREDICTED: auxin response factor 7-like
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A1R3IUW20.0A0A1R3IUW2_9ROSI; Auxin response factor
STRINGPavir.Db01975.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Perilli S, et al.
    RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling.
    Plant Cell, 2013. 25(11): p. 4469-78
    [PMID:24285791]
  3. Sun Y, et al.
    Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas.
    Sci Rep, 2017. 7: p. 40844
    [PMID:28102350]
  4. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  5. Olmo R, et al.
    Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program?
    Front Plant Sci, 2017. 8: p. 875
    [PMID:28603536]
  6. Lee K,Seo PJ
    High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis.
    Planta, 2017. 246(4): p. 797-802
    [PMID:28766014]
  7. Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J
    Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana.
    Plant Sci., 2017. 264: p. 168-178
    [PMID:28969797]
  8. Nakamura M, et al.
    Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells.
    Plant Physiol., 2018. 176(1): p. 378-391
    [PMID:29084900]
  9. Hong L, et al.
    Alternative polyadenylation is involved in auxin-based plant growth and development.
    Plant J., 2018. 93(2): p. 246-258
    [PMID:29155478]
  10. Lee K,Park OS,Seo PJ
    Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation.
    Sci Signal, 2018.
    [PMID:29184030]
  11. Kimura T, et al.
    Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis.
    Plant Cell Physiol., 2018. 59(4): p. 823-835
    [PMID:29401292]
  12. Schoenaers S, et al.
    The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth.
    Curr. Biol., 2018. 28(5): p. 722-732.e6
    [PMID:29478854]
  13. Huang KL, et al.
    The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots.
    Plant Physiol., 2018. 178(1): p. 413-427
    [PMID:30026290]