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_003220-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: 831aa    MW: 92931.5 Da    PI: 6.5746
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_003220-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.81.7e-22121222199
                    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_003220-RA 121 FCKTLTASDTSTHGGFSVLRRHADEClppldmcRQPPTQ--ELVAKDLHGIEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GGN 212
                    99*****************************87555544..8************************************************4..378 PP

                    E..EEEEE-S CS
             B3  90 felvvkvfrk 99 
                    +el+v+v+r+
  NNU_003220-RA 213 GELRVGVRRA 222
                    999****996 PP
2Auxin_resp118.26.9e-39247329183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    a+ha+st+++F+v+Y+Pr+s+++F+v+++++++++k+ +s+GmRfkm+fe+e+++e+r++Gt+vg+ d+dp rWp+SkWr+Lk
  NNU_003220-RA 247 AWHAVSTGTMFTVYYKPRTSPADFIVPFDQYMESIKNYYSIGMRFKMRFEGEEAPEQRFTGTIVGIGDADPDRWPGSKWRCLK 329
                    89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.32E-40113250IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.2E-41114236IPR015300DNA-binding pseudobarrel domain
CDDcd100173.24E-21119221No hitNo description
SMARTSM010194.4E-23121223IPR003340B3 DNA binding domain
PfamPF023622.0E-20121222IPR003340B3 DNA binding domain
PROSITE profilePS5086311.603121223IPR003340B3 DNA binding domain
PfamPF065072.0E-36247329IPR010525Auxin response factor
SuperFamilySSF542772.21E-12695773No hitNo description
PROSITE profilePS5174525.756696789IPR000270PB1 domain
PfamPF023094.2E-8743787IPR033389AUX/IAA 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 831 aa     Download sequence    Send to blast
MASSEISIKD SEDALYTELW HACAGPLVTV PREGERVFYF PQGHIEQVEA STNQVADQKM  60
PVYQLSSKIL CRVINVQLKA EPDTDEVFAQ ITLLPEQNQD ENSVEKETLP SPTSRPHVHS  120
FCKTLTASDT STHGGFSVLR RHADECLPPL DMCRQPPTQE LVAKDLHGIE WRFRHIFRGQ  180
PRRHLLQSGW SVFVSSKRLV AGDAFIFLRG GNGELRVGVR RAMRQQSNVP SSVISSHSMH  240
LGVLATAWHA VSTGTMFTVY YKPRTSPADF IVPFDQYMES IKNYYSIGMR FKMRFEGEEA  300
PEQRFTGTIV GIGDADPDRW PGSKWRCLKV RWDETSSVHR PERVSPWQIE PALAPPALNP  360
LPMPRPKRPR SNMVPSSPDS SVLTREGSSK ITADPSPNGF PRVLQGQEIS TLRCTFSENN  420
ESDTAQKPVV WSSSHDEENS DMVSAERRFG TENWAPLVRH ETSYKDLLSG FRPTDSSHGF  480
CPPYVDQNPE DNLMKKHFQD QEEKLNLLSG PWSMMPSSSS MNMLEPSIKA PGQAGEIPCQ  540
KPGSGKYGGF SGYPMVQNFR VEQHSGNWLM SLLPPSRTEN IPHSRGKRPQ PEFSQPDARK  600
PKGDGSYKLF GIPLISKPVT SEPAVSHTNP KYEPEVCAHH AFQQQQGLDS DQHSEQSKGS  660
KSVDAAIPGN EKEKPYQAPQ HLSRDVQSKL QGASTRSCTK VHKQGIALGR SVDLTKFSGY  720
DELIAELDHM FDFNGELMSP QKSWLIVYTD NEGDMMLVGD DPWQEFCSIV RKICIYTREE  780
VQKMNPRSLN PKTEESPVVI EESASAKEGK CSGPKGADDT RLPVLDAIDS G
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1751335117354Auxin response factor 1
4ldw_A1e-1751335117354Auxin response factor 1
4ldw_B1e-1751335117354Auxin 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}.
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_010249209.10.0PREDICTED: auxin response factor 2-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A1U7ZLA60.0A0A1U7ZLA6_NELNU; Auxin response factor
STRINGXP_010249208.10.0(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin 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]