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 Thecc1EG029792t2
Common NameTCM_029792
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: 607aa    MW: 66897.4 Da    PI: 9.8552
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG029792t2genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B332.41.6e-10721155499
                       EETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                B3  54 kksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                       ++++r++lt+GW+ Fv+ ++L +gD v+F   + +++el+++++r+
  Thecc1EG029792t2  72 GQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--RGEDGELRLGIRRA 115
                       67899*************************..449999*****996 PP
2Auxin_resp119.13.5e-39140222182
        Auxin_resp   1 aahaastksvFevvYnP.rastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                       ++ha+s+ksvF+++YnP ras+seF+++v+k+ k+l+++++vGmRfkm+feted++err++G+v+g+sd+dpvrWp+SkWr+L
  Thecc1EG029792t2 140 VVHAISMKSVFSIYYNPsRASSSEFIIPVHKFWKSLDHSFAVGMRFKMRFETEDAAERRYTGLVTGISDMDPVRWPGSKWRCL 222
                       689**************7799*************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.37E-919115IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS508639.54562116IPR003340B3 DNA binding domain
PfamPF023628.4E-871115IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.5E-1271118IPR015300DNA-binding pseudobarrel domain
PfamPF065079.6E-34140222IPR010525Auxin 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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0010582Biological Processfloral meristem determinacy
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 607 aa     Download sequence    Send to blast
MSKQISSQRR PTCSARPLRL LIPVHMEASL FRVELLRTAS RPWIIISRGP HKSLLQKTFM  60
AWNGGFDTFI GGQPRRHLLT TGWSAFVNKK KLVSGDAVLF LRGEDGELRL GIRRAAQIKN  120
GTSFPSLCSQ QLNRSNFADV VHAISMKSVF SIYYNPSRAS SSEFIIPVHK FWKSLDHSFA  180
VGMRFKMRFE TEDAAERRYT GLVTGISDMD PVRWPGSKWR CLLVRWDDID ANRHSRVSPW  240
EIELSGTISS SNNLLTPGVK RNRIGLPSGK PEFMVPDGIG ASDFGEPLRF QKVLQGQEIL  300
GFNTLYDGAD GQNLHRSEIR RCFPGSNGSG IVAIGNVGRD PLGNSEISYR GVGFGESFRF  360
HKVLQGQEIY VSPPYIRGPT TNDTQENDGL GVRDAGQFSG TRSGWSSLMQ SYNTHSHIRP  420
SAPSAQVSSP SSVLMFQQAS NPIPNINPIY SVNNQEKEQG VDNRSSFRAP EMYGGKLLQS  480
STGECSSRGR HHGTFDSFGH SNDSVQLGDS QPLAAQPTFR TSQDIASSCK SSCRLFGFSL  540
TEGSQDANKE DNMVKATSSL GPRAFLPCIG EQFHPKPPAV TNTVGSNCTK VSNLYAVRDM  600
LFDIAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A2e-4766251176361Auxin response factor 1
4ldy_B2e-4766251176361Auxin response factor 1
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00021PBMTransfer from AT2G33860Download
Motif logo
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_017978888.10.0PREDICTED: auxin response factor 3 isoform X1
SwissprotQ8S9851e-113ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A061GF000.0A0A061GF00_THECC; Auxin response factor
STRINGEOY281430.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-109ARF family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]
  4. 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]