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 Lus10017680
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family ARF
Protein Properties Length: 396aa    MW: 44515 Da    PI: 9.6545
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10017680genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3437.9e-1469181198
                  EEEE-..-HHHHTT-EE--HHH.HTT...............---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...............ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvv 81 
                  f+k+lt sd++++g +++p++ aee                  ++  ++  t++ +sg s    +++   ++++r++lt+GW+ Fv+ ++L +gD+v+
  Lus10017680  69 FCKTLTASDTSTHGGFSVPRRAAEEPrkrfshllisqcnhqHRNSLLEIYTTMRGPSGISIANIHKFfvIGQPKRHLLTTGWSVFVSNKRLFAGDSVL 166
                  99*********************9999999999999997664444578889999****6666666555599*************************** PP

                  EEE-SSSEE..EEEEE- CS
           B3  82 Fkldgrsefelvvkvfr 98 
                  F   ++++++l+++++ 
  Lus10017680 167 FI--RDEKQQLLLGIRH 181
                  **..5578888999886 PP
2Auxin_resp124.66.8e-41207289183
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                  aahaa+++s+F+v+YnPras+seFv++++k++ka++++vs GmRf+m+fete+s  rr++Gtv+gv+dldpvrW+ S+Wr+L+
  Lus10017680 207 AAHAAANNSPFTVFYNPRASPSEFVIPFSKYNKAMYTQVSSGMRFRMMFETEESGVRRYMGTVTGVTDLDPVRWKSSQWRNLQ 289
                  79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.72E-2459210IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-2361196IPR015300DNA-binding pseudobarrel domain
CDDcd100171.68E-968172No hitNo description
PfamPF023622.5E-1169182IPR003340B3 DNA binding domain
SMARTSM010198.1E-569183IPR003340B3 DNA binding domain
PfamPF065074.8E-36207289IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 396 aa     Download sequence    Send to blast
MPPMGSLVVY FPQGHSEQVA ASMQKQTDCI PSYPNLPSKL ICMLHNCDRE ALIASDMGMK  60
QNRQPAEFFC KTLTASDTST HGGFSVPRRA AEEPRKRFSH LLISQCNHQH RNSLLEIYTT  120
MRGPSGISIA NIHKFFVIGQ PKRHLLTTGW SVFVSNKRLF AGDSVLFIRD EKQQLLLGIR  180
HANRQQPALS SSVISSDSMH IGILAAAAHA AANNSPFTVF YNPRASPSEF VIPFSKYNKA  240
MYTQVSSGMR FRMMFETEES GVRRYMGTVT GVTDLDPVRW KSSQWRNLQV RWDESTAGER  300
PSRVSIWDIE PVVTPFYICP PPFFRPRFPK QPGMPDDESD IENAFKRAMP WLADDFGMKE  360
GGQSSIFPGL SLVQWMIGIN SNRIVPLHAS FKYSA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-115131066388Auxin response factor 5
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16461383, ECO:0000269|PubMed:17259263}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10017680
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and ethylene. {ECO:0000269|PubMed:16461383}.
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_028782730.10.0auxin response factor 19-like
RefseqXP_028797210.10.0LOW QUALITY PROTEIN: auxin response factor 19-like
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A371FUJ60.0A0A371FUJ6_MUCPR; Auxin response factor (Fragment)
STRINGLus100176800.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF49183352
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.11e-178auxin response factor 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Perilli S, et al.
    RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling.
    Plant Cell, 2013. 25(11): p. 4469-78
    [PMID:24285791]
  3. Sun Y, et al.
    Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas.
    Sci Rep, 2017. 7: p. 40844
    [PMID:28102350]
  4. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  5. Olmo R, et al.
    Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program?
    Front Plant Sci, 2017. 8: p. 875
    [PMID:28603536]
  6. Lee K,Seo PJ
    High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis.
    Planta, 2017. 246(4): p. 797-802
    [PMID:28766014]
  7. Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J
    Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana.
    Plant Sci., 2017. 264: p. 168-178
    [PMID:28969797]
  8. Nakamura M, et al.
    Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells.
    Plant Physiol., 2018. 176(1): p. 378-391
    [PMID:29084900]
  9. Hong L, et al.
    Alternative polyadenylation is involved in auxin-based plant growth and development.
    Plant J., 2018. 93(2): p. 246-258
    [PMID:29155478]
  10. Lee K,Park OS,Seo PJ
    Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation.
    Sci Signal, 2018.
    [PMID:29184030]
  11. Kimura T, et al.
    Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis.
    Plant Cell Physiol., 2018. 59(4): p. 823-835
    [PMID:29401292]
  12. Schoenaers S, et al.
    The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth.
    Curr. Biol., 2018. 28(5): p. 722-732.e6
    [PMID:29478854]
  13. Huang KL, et al.
    The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots.
    Plant Physiol., 2018. 178(1): p. 413-427
    [PMID:30026290]