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 Thecc1EG016500t4
Common NameTCM_016500
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: 557aa    MW: 62335.4 Da    PI: 6.5798
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG016500t4genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.21.8e-24130230198
                       EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                       f+kvlt sd++++g +++ +k+a+e+     +++ + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD++vF   + +
  Thecc1EG016500t4 130 FCKVLTASDTSTHGGFSVLRKHATEClppldMNQATPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDSFVFL--RGE 220
                       99****************************9555556679************************************************..449 PP

                       EE..EEEEE- CS
                B3  89 efelvvkvfr 98 
                       ++el+v+v+r
  Thecc1EG016500t4 221 NGELCVGVRR 230
                       999*****98 PP
2Auxin_resp105.65.9e-35256335183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       a+ha+st++ F v+Y+Pr+  s+F++ ++++++al++k++vGmRfkm+fe+eds+err+sGt+vgv+d++p +W++S+WrsLk
  Thecc1EG016500t4 256 ASHAVSTQTLFVVYYKPRT--SQFIIGLNRYLEALNNKFAVGMRFKMRFEGEDSPERRFSGTIVGVEDFSP-HWKDSQWRSLK 335
                       789***************6..9*************************************************.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.7E-42121245IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-40123259IPR015300DNA-binding pseudobarrel domain
CDDcd100171.35E-21128230No hitNo description
PROSITE profilePS5086312.28130232IPR003340B3 DNA binding domain
PfamPF023621.4E-22130230IPR003340B3 DNA binding domain
SMARTSM010197.1E-24130232IPR003340B3 DNA binding domain
PfamPF065073.6E-32256335IPR010525Auxin response factor
PfamPF023092.4E-7455514IPR033389AUX/IAA domain
SuperFamilySSF542778.83E-10472541No hitNo description
PROSITE profilePS5174521.59478556IPR000270PB1 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 557 aa     Download sequence    Send to blast
MMANRGGSFS QTNNVSSEGD GVDDLYMELW KLCAGPLVEV PRANERVYYF PQGHMEQLEA  60
STNQELNQRI PLFNLPPKIL CRVVHIQLLA EQETDEVYAQ ITLLPEANQP EPTSPDQSPP  120
ESQRPTVHSF CKVLTASDTS THGGFSVLRK HATECLPPLD MNQATPTQEL VAKDLHGYEW  180
RFKHIFRGQP RRHLLTTGWS TFVTSKRLVA GDSFVFLRGE NGELCVGVRR VARQQSSMPS  240
SVISSQSMHL GVLATASHAV STQTLFVVYY KPRTSQFIIG LNRYLEALNN KFAVGMRFKM  300
RFEGEDSPER RFSGTIVGVE DFSPHWKDSQ WRSLKVQWDE PASIPRPDRV SPWEIEPFAA  360
PIPPTLGQPL AAKNKRPRPP TEIPALEVKK FETASSCRLF GIELINHSAS STPLERTPTQ  420
LSTMTGGSTE GHGQSSLSPA DSDQKSEISK DSKGKKQEQL QVSAKEIQSR QSCSSSTRSR  480
TKVQMQGVAV GRAVDLTMLE GYDQLIDELE EMFDIKGGLR PRNKWEIVYT DDEGDMMLVG  540
NFVTWSEEYL SVQARM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-17993581355Auxin response factor 1
4ldw_A1e-17993581355Auxin response factor 1
4ldw_B1e-17993581355Auxin response factor 1
4ldx_A1e-17993581355Auxin response factor 1
4ldx_B1e-17993581355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1374378KRPRP
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. {ECO:0000269|PubMed:12036261}.
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_021276074.10.0auxin response factor 9 isoform X1
SwissprotQ9ZPY60.0ARFK_ARATH; Auxin response factor 11
TrEMBLA0A061G5F30.0A0A061G5F3_THECC; Auxin response factor
STRINGPOPTR_0001s10900.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46530.10.0auxin response factor 11
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. 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]
  3. 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]