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 Thecc1EG005885t1
Common NameTCM_005885
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 MYB
Protein Properties Length: 320aa    MW: 36123.4 Da    PI: 5.6285
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG005885t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding49.11.3e-152269148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                      +g W++eEde+l ++    G g+W+ Iar  g+ R++k+c++rw +yl
  Thecc1EG005885t1 22 KGLWSPEEDEKLMKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYL 69
                      678*******************************************97 PP
2Myb_DNA-binding521.6e-1675118146
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
   Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                       rg+++++E+el+++++  lG++ W+ Ia++++ gRt++++k++w++
  Thecc1EG005885t1  75 RGAFSPQEEELIIHLHSILGNR-WSQIAARLP-GRTDNEIKNFWNS 118
                       89********************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.2821769IPR017930Myb domain
SuperFamilySSF466898.98E-2920116IPR009057Homeodomain-like
SMARTSM007171.7E-112171IPR001005SANT/Myb domain
PfamPF002494.3E-142269IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.1E-242376IPR009057Homeodomain-like
CDDcd001671.45E-92569No hitNo description
PROSITE profilePS5129425.69970124IPR017930Myb domain
SMARTSM007175.3E-1674122IPR001005SANT/Myb domain
PfamPF002493.8E-1575118IPR001005SANT/Myb domain
CDDcd001673.75E-1177117No hitNo description
Gene3DG3DSA:1.10.10.605.6E-2677125IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 320 aa     Download sequence    Send to blast
MRKPDQNMGK DRVNNNKIKL RKGLWSPEED EKLMKYMLTN GQGCWSDIAR NAGLQRCGKS  60
CRLRWINYLR PDLKRGAFSP QEEELIIHLH SILGNRWSQI AARLPGRTDN EIKNFWNSTI  120
KKRLKNNTST SSSPNNSDSS ELRDHGVGGI FPVHEHDIMT LCMDSSSSSS TSMQPIVTGN  180
QFDPFPLLNN RYDMTGAPCL FDVPACLTQG DMVQGFYGDY GVLEPANKIG LEGDFSLPPL  240
ESRSIEENNA ANGSIDMKSN NNHYNNTCFN NTDQSFKVGD MFGLENHHWQ GENLRMGEWD  300
LEGLMDNISS FPFLDFQVE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-27201245108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as molecular switch in the NAC012/SND1-mediated transcriptional network regulating secondary wall biosynthesis. Is directly activated by NAC012/SND1 and its close homologs, including NAC043/NST1, NAC066/NST2, NAC101/VND6 and NAC030/VND7. Is required for functional expression of a number of secondary wall-associated transcription factors and secondary wall biosynthetic genes involved in cellulose, xylan and lignin synthesis. Functions redundantly with MYB46 in the transcriptional regulatory cascade leading to secondary wall formation in fibers and vessels (PubMed:19808805). Transcription activator that binds to the DNA consensus sequence 5'-ACC[AT]A[AC][TC]-3', designated as the secondary wall MYB-responsive element (SMRE). Regulates directly numerous transcription factors and a number of genes involved in secondary wall biosynthesis that contain SMRE elements in their promoters (PubMed:22197883). {ECO:0000269|PubMed:19808805, ECO:0000269|PubMed:22197883}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00336DAPTransfer from AT3G08500Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6144049e-62JX614404.1 Gossypium hirsutum clone NBRI_GE57753 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007052536.20.0PREDICTED: transcription factor MYB46
SwissprotQ9C6U12e-95MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A061E3790.0A0A061E379_THECC; Myb domain protein 83
STRINGEOX966930.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70772642
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.17e-93myb domain protein 83
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. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]
  3. Piya S,Kihm C,Rice JH,Baum TJ,Hewezi T
    Cooperative Regulatory Functions of miR858 and MYB83 during Cyst Nematode Parasitism.
    Plant Physiol., 2017. 174(3): p. 1897-1912
    [PMID:28512179]