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 WALNUT_00008953-RA
Organism
Juglans regia
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans
Family ARF
Protein Properties Length: 852aa    MW: 94719.5 Da    PI: 6.4537
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
WALNUT_00008953-RAgenomeJHUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.62.1e-22150251199
                         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++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F   
  WALNUT_00008953-RA 150 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKKLVAGDAFIFL-- 237
                         99*****************************7333.34459************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+v+v+r+
  WALNUT_00008953-RA 238 RGENEELRVGVRRA 251
                         3488889****996 PP
2Auxin_resp118.74.8e-39276358183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha+st+++F+v+Y+Pr+s++eF+v+++++++++k++ s+GmRfkm+fe+e+++e+r+ Gt+vgv+d+d+ rWp+SkWr+Lk
  WALNUT_00008953-RA 276 AWHAISTRTIFTVYYKPRTSPAEFIVPYDQYMESVKNNHSIGMRFKMRFEGEEAPEQRFPGTIVGVEDADTKRWPKSKWRCLK 358
                         89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.97E-40146279IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.2E-40147265IPR015300DNA-binding pseudobarrel domain
CDDcd100176.07E-20148250No hitNo description
PfamPF023622.3E-20150251IPR003340B3 DNA binding domain
PROSITE profilePS5086311.11150252IPR003340B3 DNA binding domain
SMARTSM010193.0E-22150252IPR003340B3 DNA binding domain
PfamPF065075.1E-36276358IPR010525Auxin response factor
PfamPF023091.5E-11710811IPR033389AUX/IAA domain
SuperFamilySSF542772.35E-11724803No hitNo description
PROSITE profilePS5174524.564726810IPR000270PB1 domain
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: 852 aa     Download sequence    Send to blast
MAASDVSING NSGYSDHNDV PNSTDGEKGH STFSGTSKEA ETALYTELWH ACAGPLVTVP  60
PENERVFYFP QGHIEQVEAS TNQVADQQMP LYDLPSKILC RVINVQLKAE ADTDEVFVQV  120
TLIPEANQDE NSVEKEPPPP PPPRFHVHSF CKTLTASDTS THGGFSVLRR HADECLPPLD  180
MSRQPPTQEL VAKDLHANEW RFRHIFRGQP RRHLLQSGWS VFVSSKKLVA GDAFIFLRGE  240
NEELRVGVRR AMRQQGNVPS SVISSHSMHL GVLATAWHAI STRTIFTVYY KPRTSPAEFI  300
VPYDQYMESV KNNHSIGMRF KMRFEGEEAP EQRFPGTIVG VEDADTKRWP KSKWRCLKVR  360
WDETSIIPRP ERVSPWKIEP ALAPSALNFL PMPRPKRARS NMVPLSPDSS VLTREGSSKV  420
TLDPLPSSGF SRVLQGQEFS TLGGNFVESN ESDTAEKSIV WPPSLHDEKL DVVSASRRYV  480
SENWMSGGRH EPTYTDLLLG FGANADISHG PCAPCVDQAA AAVKFSRKLS LDQEGKFNFL  540
ASQWSLHSNL SLNLLDTNLN CPVQGGDVAY QAQGNARYDA ITKSSMLHCH RVEHPQGNWL  600
MPPPAPCHFE TPAHSREPMP IPISVQQCEA VKPKDGNYKL FGIPLISNPV TPGPVAPQRG  660
MMNEPGGHIL DTSHPARTLE SDQKSEQSQG SKSAENPLPV NEKKSVQRRE QHSREVQGKT  720
LGSSSRSCTK VHKQGIALGR SVDLTKFNNY EELIAELDQL FEFGGGLMAP QKNWLVVYTD  780
DEGDMMLVGD DPWQEFCGMV RKIFIYTREE VQKMNPGTLD SKGGENQLVG EEGNANELKS  840
QTLSFASTPE KC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1744338018354Auxin response factor 1
4ldw_A1e-1744338018354Auxin response factor 1
4ldw_B1e-1744338018354Auxin 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_018832743.10.0PREDICTED: auxin response factor 2-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A2I4FM880.0A0A2I4FM88_JUGRE; Auxin response factor
STRINGVIT_17s0000g00320.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF32813366
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]