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 Thecc1EG017488t1
Common NameTCM_017488
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family ARF
Protein Properties Length: 839aa    MW: 92896.3 Da    PI: 6.2542
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG017488t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.91.9e-23127228199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   +
  Thecc1EG017488t1 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDAEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--W 215
                       99*****************************8544444..48************************************************..8 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++ +l+++++r+
  Thecc1EG017488t1 216 NEKNQLLLGIRRA 228
                       899999****997 PP
2Auxin_resp118.17.3e-39253336183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+t+s F+++YnPras+seFv++++k++ka+  ++vsvGmRf+m fete+ss rr++Gt++g+sdld+vrWpnS+Wrs+k
  Thecc1EG017488t1 253 AAHAAATNSCFTIFYNPRASPSEFVIPLSKYVKAVFhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDSVRWPNSHWRSVK 336
                       79********************************87599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.88E-49111256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.3E-42120242IPR015300DNA-binding pseudobarrel domain
CDDcd100174.85E-21126227No hitNo description
PfamPF023621.1E-21127228IPR003340B3 DNA binding domain
PROSITE profilePS5086312.379127229IPR003340B3 DNA binding domain
SMARTSM010191.3E-23127229IPR003340B3 DNA binding domain
PfamPF065075.1E-34253336IPR010525Auxin response factor
PfamPF023091.6E-7706796IPR033389AUX/IAA domain
SuperFamilySSF542773.86E-7706786No hitNo description
PROSITE profilePS5174523.991712796IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 839 aa     Download sequence    Send to blast
MKLSASGLGQ HGHEGENKCL NSELWHACAG PLVCLPTVGS RVVYFPQGHS EQVAATTNKE  60
VDAHIPNYPN LPPQLICQLH NVTMHADVET DEVYAQMTLQ PLTPEEQKDT FLPMELGIPS  120
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFSQ QPPAQELIAR DLHDAEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNEKNQ LLLGIRRATR PQTVMPSSVL  240
SSDSMHIGLL AAAAHAAATN SCFTIFYNPR ASPSEFVIPL SKYVKAVFHT RVSVGMRFRM  300
LFETEESSVR RYMGTITGIS DLDSVRWPNS HWRSVKVGWD ESTAGERQPR VSLWEIEPLT  360
TFPMYPSLFP LRLKRPWHPG SSSLHDNRDD VANGLMWLRG GSGDQGLHSL NFQSFGSFPW  420
MQQRLDLSFP GNDHTLQYQA MLAPGLQNLG SGDPLRQQLQ QSLQYVQQPG SHNLLLHLQQ  480
QQQQQQQRAV SQSVPHNMLQ AQSQILSENL PSVLGQEQVG NQLEEQAQQQ HNMNQSDQLQ  540
QRQPVNVPSS FLKTDFIESA KFSGSVPAAQ NMLGSLCGES SANLLNFSRT GQSILAEQLP  600
QQSWAPKSTH SQVNAFASST SLPPVFHGKD AIIEPEIGSS DAQNSALFGG NNDSYGLLLP  660
TTMPGFATSS SEADVPSIPL GDPSFQNPLF GCMQDSSELQ STGQVDPPTP TRTFVKVYKS  720
GSVGRSLDIS RFSSYHELRE ELAQMFGIEG KLEDPLRSGW QLVFVDREND ILLLGDDPWD  780
AFVNNVWYIK ILSPEDVQKM GEQRVEPFSP TPGQRMNSSG TGARDRVSGL SSVGSLEY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1622035751388Auxin 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). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
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_017975077.10.0PREDICTED: auxin response factor 8
SwissprotQ9FGV10.0ARFH_ARATH; Auxin response factor 8
TrEMBLA0A061EL800.0A0A061EL80_THECC; Auxin response factor
STRINGEOY030640.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.10.0auxin response factor 8
Publications ? help Back to Top
  1. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  2. Liu N, et al.
    Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.
    J. Exp. Bot., 2014. 65(9): p. 2507-20
    [PMID:24723401]
  3. Minato N, et al.
    The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways.
    Sci Rep, 2014. 4: p. 7399
    [PMID:25492247]
  4. Ortega-Amaro MA, et al.
    Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance.
    Front Plant Sci, 2014. 5: p. 782
    [PMID:25653657]
  5. Wang Y, et al.
    MicroRNA167-Directed Regulation of the Auxin Response Factors GmARF8a and GmARF8b Is Required for Soybean Nodulation and Lateral Root Development.
    Plant Physiol., 2015. 168(3): p. 984-99
    [PMID:25941314]
  6. Barik S, et al.
    Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species.
    Sci Rep, 2015. 5: p. 14611
    [PMID:26459056]
  7. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  8. Mlotshwa S,Pruss GJ,MacArthur JL,Reed JW,Vance V
    Developmental Defects Mediated by the P1/HC-Pro Potyviral Silencing Suppressor Are Not Due to Misregulation of AUXIN RESPONSE FACTOR 8.
    Plant Physiol., 2016. 172(3): p. 1853-1861
    [PMID:27688620]
  9. 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]
  10. Zhang GZ, et al.
    Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis.
    Plant Cell Rep., 2017. 36(12): p. 1995-2006
    [PMID:29027578]
  11. Zheng K, et al.
    Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1813
    [PMID:29114256]
  12. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]
  13. Ghelli R, et al.
    A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 620-637
    [PMID:29514943]