PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bv5_113390_yzaj.t1
Organism
Beta vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta
Family ARF
Protein Properties Length: 840aa    MW: 94146.6 Da    PI: 6.7977
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bv5_113390_yzaj.t1genomeTBVRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.99.5e-24145246199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +gD ++F   
  Bv5_113390_yzaj.t1 145 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL-- 232
                         99*****************************7333.34459************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+v+v+r+
  Bv5_113390_yzaj.t1 233 RGENGELRVGVRRA 246
                         449999*****996 PP
2Auxin_resp119.62.5e-39271353183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a ha+s++++F+v+Y+Pr+s+++F+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d++p rW++SkWr+Lk
  Bv5_113390_yzaj.t1 271 ALHAISSGTMFTVYYKPRTSPAQFIVPYDQYMESVKNQYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDANPNRWQDSKWRCLK 353
                         689******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.9E-41138260IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-41141274IPR015300DNA-binding pseudobarrel domain
CDDcd100177.55E-22143245No hitNo description
SMARTSM010192.0E-23145247IPR003340B3 DNA binding domain
PfamPF023621.1E-21145246IPR003340B3 DNA binding domain
PROSITE profilePS5086312.012145247IPR003340B3 DNA binding domain
PfamPF065071.9E-36271353IPR010525Auxin response factor
PfamPF023091.0E-11701805IPR033389AUX/IAA domain
PROSITE profilePS5174523.164714807IPR000270PB1 domain
SuperFamilySSF542771.86E-12716791No hitNo description
Gene3DG3DSA:3.10.20.2408.1E-4736790No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 840 aa     Download sequence    Send to blast
MSSSEISIKA TDEGGAIKAG QQHHRHHQVP GAGKVDPETA LYTELWHACA GPLVTVPRLN  60
ELVYYFPQGH IEQVEASTNQ VADQQMPVYN LPWKILCRVI DVQLKAEADT DEVYAQVMLL  120
PQREENSLEK EPQPPPQPHF HVHSFCKTLT ASDTSTHGGF SVLRRHADEC LPPLDMSRQP  180
PTQELVAKDL HGNEWRFRHI FRGQPRRHLL QSGWSVFVSS KRLVAGDAFI FLRGENGELR  240
VGVRRAMRQQ GIVPSSVISS HSMHLGVLAT ALHAISSGTM FTVYYKPRTS PAQFIVPYDQ  300
YMESVKNQYS IGMRFKMRFE GEEAPEQRFT GTIVGIEDAN PNRWQDSKWR CLKVRWDETS  360
TIPRPDRVSP WQIEPALTPP TINPLPVTRA KRPRANVMTQ SSESSVLTRE GFSKVAADAS  420
PVGGFSRVLQ GQEYSTLRPS LADSNESETV EKPHVWPNSV DEEKFENANA SRKYVPENWI  480
SATRPEPTYA DLLSSFGVHN ETASGFHSPY QTAASSPMKK HILDQDGRFS MLGSSWSIMP  540
TSLSLNMSES TMKIHPQSGN VSNQAPGNTR YGGFNEMSVL RGHRIDHHNG SWRMPPPGQS  600
CFESREIATR PSQIEQEPIK SKDGNYKLFG MSLISSPTNQ EPSTFSRRNV DEPATNLPPM  660
LHHHNSEPDR SLEQSKGSKQ MDNLPACSEQ DKKMPCSQSL SRDAQAKVQG GSSRSCTKVQ  720
KQGIALGRSV DLSKFSDYDQ LVEELDHLFD FNGELKIPEK NWLIVYTDDE GDMMLVGDDP  780
WQEFCSMVRK IFIYTKEEVQ KMTPRTLNAR IEENTPAAGG SDSKEAKQSL PSSASNAESH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1724037518354Auxin response factor 1
4ldw_A1e-1724037518354Auxin response factor 1
4ldw_B1e-1724037518354Auxin 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010678349.10.0PREDICTED: auxin response factor 2
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLD7SH690.0D7SH69_VITVI; Auxin response factor
STRINGXP_010678349.10.0(Beta vulgaris)
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]