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 Pta011597
Organism
Pinus taeda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pinus; Pinus
Family ARF
Protein Properties Length: 189aa    MW: 21482.6 Da    PI: 10.0641
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Pinus_taeda-34119PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B365.29.9e-212911399
               TT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
         B3 13 sgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99
               +g +++ +++a+e+     +++++ s++l+ +d++g +W++++i+r++++r++lt+GW+ Fv++++L +gD ++F   + +++el+v+v+r+
  Pta011597  2 HGGFSVLRRHADEClppldMSQQPPSQDLVAKDLHGVEWRFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIFL--RGENGELRVGVRRA 91
               577899999**999****9555566789************************************************..449999*****996 PP
2Auxin_resp105.27.7e-35116189174
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrW 74 
                 a+ha++tk++F+v+Y+Pr+s+seF+++++++++++k+++svGmRfkm+fe+e+++e+r++Gt+vg+sd+dpv+W
   Pta011597 116 ASHAVTTKTMFSVYYKPRTSPSEFIIPYDQYMESMKINFSVGMRFKMKFEGEEVPEQRFTGTIVGISDADPVNW 189
                 789**********************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.66192IPR003340B3 DNA binding domain
SuperFamilySSF1019361.08E-341119IPR015300DNA-binding pseudobarrel domain
CDDcd100177.13E-16190No hitNo description
SMARTSM010191.5E-11192IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.1E-352105IPR015300DNA-binding pseudobarrel domain
PfamPF023622.4E-18291IPR003340B3 DNA binding domain
PfamPF065075.0E-32116189IPR010525Auxin 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: 189 aa     Download sequence    Send to blast
THGGFSVLRR HADECLPPLD MSQQPPSQDL VAKDLHGVEW RFRHIFRGQP RRHLLTTGWS  60
VFVSSKRLVA GDAFIFLRGE NGELRVGVRR AMRQQNNVPS SVISSHSMHL GVIATASHAV  120
TTKTMFSVYY KPRTSPSEFI IPYDQYMESM KINFSVGMRF KMKFEGEEVP EQRFTGTIVG  180
ISDADPVNW
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1061189135323Auxin response factor 1
4ldw_A1e-1061189135323Auxin response factor 1
4ldw_B1e-1061189135323Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pta.79070.0xylem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
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).
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions and gravitropic stimulation of coleptile. {ECO:0000269|PubMed:12369618, ECO:0000269|PubMed:17408882}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013645688.11e-121auxin response factor 2
RefseqXP_020090490.11e-119auxin response factor 4-like
SwissprotA2ZET61e-118ARFW_ORYSI; Auxin response factor 23
SwissprotQ2R3F51e-118ARFW_ORYSJ; Auxin response factor 23
TrEMBLA0A0C9RYI41e-119A0A0C9RYI4_9SPER; Auxin response factor
TrEMBLA0A0P0Y2Y41e-121A0A0P0Y2Y4_ORYSJ; Auxin response factor
STRINGGorai.001G054600.11e-118(Gossypium raimondii)
STRINGOS11T0523800-011e-121(Oryza sativa)
Publications ? help Back to Top
  1. Contreras I,Ortiz-Zapater E,Castilho LM,Aniento F
    Characterization of Cop I coat proteins in plant cells.
    Biochem. Biophys. Res. Commun., 2000. 273(1): p. 176-82
    [PMID:10873582]
  2. Kobayashi-Uehara A,Shimosaka E,Handa H
    Cloning and expression analyses of cDNA encoding an ADP-ribosylation factor from wheat: tissue-specific expression of wheat ARF.
    Plant Sci., 2001. 160(3): p. 535-542
    [PMID:11166441]
  3. Ren H, et al.
    Combinative effects of a bacterial type-III effector and a biocontrol bacterium on rice growth and disease resistance.
    J. Biosci., 2006. 31(5): p. 617-27
    [PMID:17301500]
  4. Song Y,You J,Xiong L
    Characterization of OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis.
    Plant Mol. Biol., 2009. 70(3): p. 297-309
    [PMID:19266169]
  5. Kitajima A, et al.
    The rice alpha-amylase glycoprotein is targeted from the Golgi apparatus through the secretory pathway to the plastids.
    Plant Cell, 2009. 21(9): p. 2844-58
    [PMID:19767453]
  6. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]
  7. Sugano SS, et al.
    CRISPR/Cas9-mediated targeted mutagenesis in the liverwort Marchantia polymorpha L.
    Plant Cell Physiol., 2014. 55(3): p. 475-81
    [PMID:24443494]
  8. Kaneko K, et al.
    N-Glycomic and Microscopic Subcellular Localization Analyses of NPP1, 2 and 6 Strongly Indicate that trans-Golgi Compartments Participate in the Golgi to Plastid Traffic of Nucleotide Pyrophosphatase/Phosphodiesterases in Rice.
    Plant Cell Physiol., 2016. 57(8): p. 1610-28
    [PMID:27335351]