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 maker-scaffold03580-augustus-gene-0.25-mRNA-1
Organism
Castanea mollissima
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family ARF
Protein Properties Length: 675aa    MW: 76047.6 Da    PI: 5.9425
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
maker-scaffold03580-augustus-gene-0.25-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B367.22.3e-21123213188
                                                    EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTE CS
                                             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgr 58 
                                                    f+k+lt sd++++g +++ +++a+e+      + +++ +++l+ +d++g++W++++i+r++++r
  maker-scaffold03580-augustus-gene-0.25-mRNA-1 123 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-QQPPTQELITKDLHGNEWRFRHIFRGQPRR 185
                                                    99*****************************63.4444568999******************** PP

                                                    EEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                                             B3  59 yvltkGWkeFvkangLkegDfvvFkldgrs 88 
                                                    ++l++GW+ Fv++++L +gD ++F ++  s
  maker-scaffold03580-augustus-gene-0.25-mRNA-1 186 HLLQSGWSLFVSSKKLVAGDAFIFLRT--S 213
                                                    ************************943..4 PP
2Auxin_resp89.75.4e-302112761883
                                     Auxin_resp  18 rastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrs 81 
                                                    r+s++eF+v+++k+++++k+ +s+GmRfkm+fe+e ++e+r+sGtv+g++d+dp+rWp+SkWr+
  maker-scaffold03580-augustus-gene-0.25-mRNA-1 211 RTSPAEFIVPFDKYMESVKNDYSIGMRFKMRFEGEAAPEQRFSGTVIGTEDADPIRWPGSKWRC 274
                                                    789************************************************************* PP

                                     Auxin_resp  82 Lk 83 
                                                    Lk
  maker-scaffold03580-augustus-gene-0.25-mRNA-1 275 LK 276
                                                    96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.0E-36114219IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-34116218IPR015300DNA-binding pseudobarrel domain
CDDcd100171.73E-18121219No hitNo description
SMARTSM010195.1E-18123224IPR003340B3 DNA binding domain
PfamPF023621.2E-19123213IPR003340B3 DNA binding domain
PROSITE profilePS5086310.814123225IPR003340B3 DNA binding domain
PfamPF065071.2E-26211276IPR010525Auxin response factor
SuperFamilySSF542775.79E-12581661No hitNo description
PROSITE profilePS5174521.854583675IPR000270PB1 domain
PfamPF023092.1E-6630674IPR033389AUX/IAA 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: 675 aa     Download sequence    Send to blast
MASSSSSFPV TDSEDAIYKE LWHACAGPLV TVPRQGELVF YFPQGHIEQV ETTTNQVSEQ  60
QLPAFDLPSK ILCRVLNIQL KAEVDTDEVY AQVTLVPHHQ QDENLVDKEV VAPSPPRPRV  120
HSFCKTLTAS DTSTHGGFSV LRRHADECLP PLDMSQQPPT QELITKDLHG NEWRFRHIFR  180
GQPRRHLLQS GWSLFVSSKK LVAGDAFIFL RTSPAEFIVP FDKYMESVKN DYSIGMRFKM  240
RFEGEAAPEQ RFSGTVIGTE DADPIRWPGS KWRCLKVQWD EKPSADRPER VSPWKIELAS  300
TPTLDTHPVC RPKRSRVNMA PSSTDSFVST REDLSKNNTD PSPDIGLLRT VQGQAISTIG  360
GVFAEHNDSD TAQNPALWIR SQGSHNLHES YGFNWSFIDQ NPENADQLKK HVLDQDQRSN  420
FPGCSQSTMH TFNNMLKCSM KLPAAATVEQ HPGNELLPLL STTNMEDSPC PSTLKSQPLL  480
VQNEILKSKG DDNCKLFGIS LISNHKATEP AMLHADFMPR PQRQIACSSY QLQDLVSNLQ  540
SQQAECAKPA EITIRDDEWG KPFQAVEELS RNFHGRLQGS STRTCIKVHK QGDAVGRSVE  600
LTKLDGYNEL IAELDHIFEF NGELVAPNKK WLVVFTDNDG DLMLVGDDPW QEFCSMARDI  660
SVYTREELQK MHPRS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-11612971353Auxin response factor 1
4ldw_A1e-11612971353Auxin response factor 1
4ldw_B1e-11612971353Auxin response factor 1
4ldx_A1e-11612971353Auxin response factor 1
4ldx_B1e-11612971353Auxin response factor 1
4ldy_A1e-11612971353Auxin response factor 1
4ldy_B1e-11612971353Auxin 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_023876303.10.0auxin response factor 2A-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A2N9I5D70.0A0A2N9I5D7_FAGSY; Auxin response factor
STRINGVIT_01s0244g00150.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]