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 678337229
Organism
Utricularia gibba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lentibulariaceae; Utricularia
Family ARF
Protein Properties Length: 753aa    MW: 84015.6 Da    PI: 6.2771
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
678337229genomeUGSPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.88.5e-181301963099
                ..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
         B3  30 keesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                +  +++l+ +d+ g++W++k+i+r++++r++l++GW+ Fv++++L +gD ++F   + +++el+v+v+r+
  678337229 130 P-PTQELVAKDLLGNEWRFKHIFRGQPRRHLLQSGWSVFVSSKRLIAGDAFIFL--RGENGELRVGVRRA 196
                3.3458************************************************..449999*****996 PP
2Auxin_resp1224.4e-40221303183
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                 a+ha++tks+F+v+Y+Pr+s+seF+v+++++++++k+++++GmRfkm+fe+++s+e+r++G +vg++d+dp rWp+SkWr+Lk
   678337229 221 AWHAIQTKSMFTVFYKPRTSPSEFIVPYDQYMESIKKNYTIGMRFKMRFEGDESPEQRFTGSIVGIEDADPKRWPESKWRCLK 303
                 89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010192.2E-8115197IPR003340B3 DNA binding domain
SuperFamilySSF1019365.62E-23119224IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-25123210IPR015300DNA-binding pseudobarrel domain
PfamPF023622.7E-15129196IPR003340B3 DNA binding domain
CDDcd100171.00E-13130195No hitNo description
PROSITE profilePS5086310.842134197IPR003340B3 DNA binding domain
PfamPF065073.4E-37221303IPR010525Auxin response factor
PfamPF023092.5E-11620705IPR033389AUX/IAA domain
PROSITE profilePS5174522.982628715IPR000270PB1 domain
SuperFamilySSF542771.77E-12630705No hitNo description
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: 753 aa     Download sequence    Send to blast
MVGVMGVEET SIKGFGDNNG GSSVPEMVNS TVGKVDAETA LYTELWRACA GPLVTVPREN  60
ELVFYFPQGH IEQVEASTNQ SADQTMPVYN LPSKILCRVV NVNLKAEPET DEVFAQITLM  120
PEPNDMSKQP PTQELVAKDL LGNEWRFKHI FRGQPRRHLL QSGWSVFVSS KRLIAGDAFI  180
FLRGENGELR VGVRRAMRQQ SNSPSSVISS HSMHLGVLAT AWHAIQTKSM FTVFYKPRTS  240
PSEFIVPYDQ YMESIKKNYT IGMRFKMRFE GDESPEQRFT GSIVGIEDAD PKRWPESKWR  300
CLKVRWDETS TILRPERVSP WKLEPALVAP PALNLHPVPR PKRPRTCIVP PSPDSSVLTR  360
EGPCKLTADP SSAIGFPRIF HAQETSNLRG AFAESNESES SDKPQLWNPS VDDDIPASRV  420
YSSDKWPAMG QLESSFSGFG SQILASQHEG RCGVTGNNWS TMPPRLSLDL MDSSHYARQD  480
VRYVATGDFS FVPDTRCDQE QSNWLTHSAT TDHQKVATQA KELIPKPVFG QPQNARPKEG  540
ICKIFGISIM NDSASVETSS LHKTDSVEPS SRMQHGAPHQ SPIFESDQSK GAKTVGNEVM  600
AHEMEKHSQS PRPVGGIREG RIPSGSTRSC TKVLKQGAAL GRSVDLAKFH NYDELMAELD  660
DLFEFNGELK DRRKNWLVVY TDNEGDMMLV GDDPWEEFVS MVRKYSKILI LEKDELQHMN  720
TGNFSSKGEE NHSSEDGVDA KEAKNLPPST PAV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1384032518354Auxin response factor 1
4ldw_A1e-1384032518354Auxin response factor 1
4ldw_B1e-1384032518354Auxin response factor 1
4ldx_A1e-1384032518354Auxin response factor 1
4ldx_B1e-1384032518354Auxin 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap678337229
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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011073189.10.0auxin response factor 2-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A2G9G3N80.0A0A2G9G3N8_9LAMI; Auxin response factor
STRINGMigut.I00613.1.p0.0(Erythranthe guttata)
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]
  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]