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 Sopen12g021160.1
Organism
Solanum pennellii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family ARF
Protein Properties Length: 829aa    MW: 92517.3 Da    PI: 6.9159
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen12g021160.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.61e-22128229199
                       EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                       f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + 
  Sopen12g021160.1 128 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RG 217
                       99*****************************7333.34459************************************************..44 PP

                       SEE..EEEEE-S CS
                B3  88 sefelvvkvfrk 99 
                       +++el+v+v+r+
  Sopen12g021160.1 218 ENGELRVGVRRA 229
                       9999*****996 PP
2Auxin_resp117.61e-38254336183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       a+ha++tk+ F+v+Y+Pr+s++eF+v++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg++++d  rWp+SkWr+Lk
  Sopen12g021160.1 254 AWHAIQTKTLFTVYYKPRTSPAEFIVPYDQYMESLKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIENADLKRWPESKWRCLK 336
                       89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.4E-40124243IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.19E-40124257IPR015300DNA-binding pseudobarrel domain
CDDcd100171.37E-20126228No hitNo description
PfamPF023621.4E-20128229IPR003340B3 DNA binding domain
SMARTSM010194.1E-22128230IPR003340B3 DNA binding domain
PROSITE profilePS5086311.42128230IPR003340B3 DNA binding domain
PfamPF065075.7E-36254336IPR010525Auxin response factor
PfamPF023092.6E-10696787IPR033389AUX/IAA domain
SuperFamilySSF542771.62E-12700780No hitNo description
PROSITE profilePS5174524.419703796IPR000270PB1 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: 829 aa     Download sequence    Send to blast
MATSENCRNA AGAGKVDAEK ALYTELWRAC AGPLVTVPCE GELVFYFPQG HIEQVEASTN  60
QASDQQMPVY NLPSKILCRV INVLLKAEPD TDEVYAQVTL LPEPNQDENV VSKEPMPSPP  120
PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS RQPPTQELVA KDLHANEWRF  180
RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG ELRVGVRRAM RQQGNAPSSV  240
ISSHSMHLGV LATAWHAIQT KTLFTVYYKP RTSPAEFIVP YDQYMESLKN NYSIGMRFKM  300
RFEGEEAPEQ RFTGTIVGIE NADLKRWPES KWRCLKVRWD ETSAIPRPDR VSPWKVEPAL  360
SPPALNPLPI PRQKRPRSNV LPSSPDSSVL TREGSSKVAV DTSQASGFSR VLQGQEISTL  420
RGNFVENNES DSSEKPPIWQ PLLDDEKADV HSASRKCISD KRLPLGRPES SFTDLLSGFG  480
GQSSSSHGFH SPTGGQTAPA SWVKRQALDK ETDFSLLGKQ WSLVSSGLSL NLMESGLKGA  540
DTLYQMRGTS RLNGFNEYPT LPGHRPDNQQ GNWLMPPSVL PYIQMSAHSG EIMPKPMVSP  600
QPEAMKPKEG NCKLFGIPLV SKCATIDPVM LRKNSPIHST SNMHFGIHPH QFPIIESDQR  660
SEQSKGSKLP DDGFIVHDQE EQFQTSHPGT RDREGKGLVH STRSCTKVHK QGTALGRSVD  720
LAKFNNYEEL IAELDHIFDF NGELKARNKN WLVVYTDDEG DMMLVGDDPW QEFCGMVRKI  780
FIYTKDEVKR MNPGTLNSKG EDDSSVAEGS DAKEVKNLQL HIDSSPEDS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-17313581354Auxin response factor 1
4ldw_A1e-17313581354Auxin response factor 1
4ldw_B1e-17313581354Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that binds 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. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269|PubMed:26716451}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM1439400.0HM143940.1 Solanum lycopersicum auxin response factor 11-like (ARF11) mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015060604.10.0auxin response factor 2B isoform X1
SwissprotK4DF010.0ARF2B_SOLLC; Auxin response factor 2B
TrEMBLM1B5E80.0M1B5E8_SOLTU; Auxin response factor
STRINGSolyc12g042070.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA26182444
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]