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 Thecc1EG005126t2
Common NameTCM_005126
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: 644aa    MW: 71255.3 Da    PI: 7.9693
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG005126t2genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.52.6e-23130230198
                       EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                       f+k+lt sd++++g +++ +k+a+++     +++ + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD +vF   + +
  Thecc1EG005126t2 130 FCKILTASDTSTHGGFSVLRKHATDClppldMSQATPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDAFVFL--RGD 220
                       99****************************9555566679************************************************..348 PP

                       EE..EEEEE- CS
                B3  89 efelvvkvfr 98 
                       ++el+v+v+r
  Thecc1EG005126t2 221 NGELRVGVRR 230
                       9999****98 PP
2Auxin_resp105.65.9e-35256335183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aaha++t++ F v+Y+Pr+  s+F++ v+k+++a+k+ +svGmRfkm+fe+eds+err++Gt+vgv d++p +W++SkWrsLk
  Thecc1EG005126t2 256 AAHAVTTHTLFVVYYKPRT--SQFIIGVNKYLEAIKNGFSVGMRFKMRFEGEDSPERRFTGTIVGVGDISP-HWSESKWRSLK 335
                       79****************6..9***********************************************99.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.45E-41121259IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.3E-40122245IPR015300DNA-binding pseudobarrel domain
CDDcd100171.26E-20129230No hitNo description
PROSITE profilePS5086312.097130232IPR003340B3 DNA binding domain
SMARTSM010195.2E-22130232IPR003340B3 DNA binding domain
PfamPF023621.8E-21130230IPR003340B3 DNA binding domain
PfamPF065073.7E-32256335IPR010525Auxin response factor
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:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 644 aa     Download sequence    Send to blast
MAHVEGNPRG SSIAHAESGL GGDDLYPELW KLCAGPVVEI PRVQERVFYF AQGHMEQLEA  60
STNQELNHQA PLFNLHSKIL CRVLHVQLMA EQETDEVYAQ ITLQPEADQS EPTSPDPCPT  120
EAPKRTVNSF CKILTASDTS THGGFSVLRK HATDCLPPLD MSQATPTQEL VAKDLHGYEW  180
RFKHIFRGQP RRHLLTTGWS TFVTSKRLVA GDAFVFLRGD NGELRVGVRR LARQQSTMPS  240
SVISSQSMHL GVLATAAHAV TTHTLFVVYY KPRTSQFIIG VNKYLEAIKN GFSVGMRFKM  300
RFEGEDSPER RFTGTIVGVG DISPHWSESK WRSLKIQWDE PATIQRPERV SPWEIEPFVP  360
SASINLVQPA VKSKRPRPVD IPASEITTNS AGSAFWCRGS TQSHELTQVG STVEVQSSET  420
QVMWPIRQKE IDKCLVNSSG GYNSRTRPEN VWPPPHVNVS LNLFRDSMDD NNKTGTPRTV  480
LTGYASSVQS RPSNGLMLDQ VEKAKKSETS TSCRLFGFNL TDSSSAAGPL DKEQTSTTVD  540
YNGVKGSTLA ASDVDQNPET SKPSKEQKLV ASETSTKEMQ GKLGAATSMR TRTKVEFCKM  600
VRKIFIYSSE EVKKMSARCK FPASSLEGEG TVVSLDSEHR SET*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1741935813355Auxin response factor 1
4ldw_A1e-1741935813355Auxin response factor 1
4ldw_B1e-1741935813355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1373377KRPRP
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_017969437.10.0PREDICTED: auxin response factor 18
SwissprotQ9C5W90.0ARFR_ARATH; Auxin response factor 18
TrEMBLA0A061DSL80.0A0A061DSL8_THECC; Auxin response factor
STRINGEOX956790.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61830.10.0auxin response factor 18
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]