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_025919-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: 756aa    MW: 83235.4 Da    PI: 8.5098
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_025919-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.84.9e-24161262199
                    EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                    f kvlt sd++++g +++ k++a+e+     +++++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD ++F   + +++e
  NNU_025919-RA 161 FSKVLTASDTSTHGGFSVLKRHADEClppldMSQQTPSQELIAKDLHGVQWRFRHIYRGQPKRHLLTSGWSTFVSSKRLTTGDAFIFL--RGENGE 254
                    88*****************************66777788*************************************************..449999 PP

                    .EEEEE-S CS
             B3  92 lvvkvfrk 99 
                    l+v+ +r+
  NNU_025919-RA 255 LRVGTRRS 262
                    ****9996 PP
2Auxin_resp104.61.1e-34288369283
     Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    +ha+st+++F+v+Y+Pr+++seF+v+++++ +++++ +svGmRf+m+f++e+++ ++l+Gtvv+v+dldp+ Wp+SkWr+Lk
  NNU_025919-RA 288 SHALSTGTIFSVYYRPRTCPSEFIVPYDQYIASISRVYSVGMRFRMKFQSEEFPDQSLAGTVVDVEDLDPIGWPGSKWRCLK 369
                    699*****************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.4E-40153274IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.85E-37154289IPR015300DNA-binding pseudobarrel domain
CDDcd100171.58E-20159261No hitNo description
SMARTSM010192.6E-21161263IPR003340B3 DNA binding domain
PfamPF023621.4E-21161262IPR003340B3 DNA binding domain
PROSITE profilePS5086312.576161263IPR003340B3 DNA binding domain
PfamPF065072.0E-30288369IPR010525Auxin response factor
PfamPF023093.0E-9650743IPR033389AUX/IAA domain
PROSITE profilePS5174520.644655739IPR000270PB1 domain
SuperFamilySSF542774.97E-8656732No hitNo description
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
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 756 aa     Download sequence    Send to blast
MGSAFVGAEL NLPGQYPNLE AEGTSYNGGQ VLRPTRQEEK DPLYWDLWHA CAGPLAAVPR  60
VGEKVFYLPQ GHIEQVEAFS KLDNDLKMPI YHIPSNIQCA VVNVELKAEK ETDEVFAQIT  120
LLPETKIRIT FGFLHQNDNN LRHGLLESLP RSPQRPKVFS FSKVLTASDT STHGGFSVLK  180
RHADECLPPL DMSQQTPSQE LIAKDLHGVQ WRFRHIYRGQ PKRHLLTSGW STFVSSKRLT  240
TGDAFIFLRG ENGELRVGTR RSTKPQSNAS ASVISGHSMQ IGVVATTSHA LSTGTIFSVY  300
YRPRTCPSEF IVPYDQYIAS ISRVYSVGMR FRMKFQSEEF PDQSLAGTVV DVEDLDPIGW  360
PGSKWRCLKV RWDETSATAM LPDRVSPWKI EPIGVTSMSC PSLLSRVKRA CPSHSATHEP  420
SSSTLVADGS SQGSIMPGLP TQRQPGVLQG QEMGDTSAHS SGNVQRPFLP LRVPPLSSDK  480
VQTQMELENN LPLPMHAPPY LYSGNAIPNG IRQGSGLSTY RPPPFSSYGS GGKVGLRRNC  540
SGSDFASHGS GLQEQMAPEK RERTERPMIQ PKPSGSCMLF GVDLVKRPTV CPSQPVVAGG  600
EVRHPSPVPT LASQSGTTES VQLSEPSRRM NPSNSCASGS LPEKPCKNCC SIASRSFTKV  660
HKYGSVLGRS VDLTRFNGYD QLVGELDQMF EFGGKLKDRS NGWVIAYKDI DGDIMSIGDS  720
PWLEFRSMVR KLLIYPEKEA DKLLARSPTS PDDKIT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1394139917361Auxin response factor 1
4ldw_A1e-1394139917361Auxin response factor 1
4ldw_B1e-1394139917361Auxin response factor 1
4ldx_A1e-1394139917361Auxin response factor 1
4ldx_B1e-1394139917361Auxin 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. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952, ECO:0000269|PubMed:16339187}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019052029.10.0PREDICTED: auxin response factor 23-like
SwissprotQ94JM31e-161ARFB_ARATH; Auxin response factor 2
TrEMBLA0A1U8PZP80.0A0A1U8PZP8_NELNU; Auxin response factor
STRINGXP_010247122.10.0(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-164auxin response factor 2
Publications ? help Back to Top
  1. Chao WS,Doğramaci M,Foley ME,Horvath DP,Anderson JV
    Selection and validation of endogenous reference genes for qRT-PCR analysis in leafy spurge (Euphorbia esula).
    PLoS ONE, 2012. 7(8): p. e42839
    [PMID:22916167]
  2. 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]
  3. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  4. Lyons R, et al.
    Fusarium oxysporum triggers tissue-specific transcriptional reprogramming in Arabidopsis thaliana.
    PLoS ONE, 2015. 10(4): p. e0121902
    [PMID:25849296]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  7. Zhao S,Zhang ML,Ma TL,Wang Y
    Phosphorylation of ARF2 Relieves Its Repression of Transcription of the K+ Transporter Gene HAK5 in Response to Low Potassium Stress.
    Plant Cell, 2016. 28(12): p. 3005-3019
    [PMID:27895227]
  8. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  9. 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]
  10. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]
  11. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]
  12. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  13. 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]
  14. Sarkar Das S, et al.
    Expression dynamics of miRNAs and their targets in seed germination conditions reveals miRNA-ta-siRNA crosstalk as regulator of seed germination.
    Sci Rep, 2018. 8(1): p. 1233
    [PMID:29352229]