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 Thecc1EG044611t3
Common NameTCM_044611
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: 541aa    MW: 58721.4 Da    PI: 4.6855
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG044611t3genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding54.62.5e-173986148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                      +g+WT  Ed +l+++vk++G g+W+++ ++ g+ R++k+c++rw ++l
  Thecc1EG044611t3 39 KGPWTSAEDAILIEYVKKHGEGNWNAVQKHSGLFRCGKSCRLRWANHL 86
                      79******************************************9986 PP
2Myb_DNA-binding543.9e-1792135146
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
   Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                       +g++T+eE++l++++++++G++ W++ a++++ gRt++++k++w++
  Thecc1EG044611t3  92 KGAFTQEEEQLIIELHAKMGNK-WARMAAHLP-GRTDNEIKNYWNT 135
                       799*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.4093486IPR017930Myb domain
SuperFamilySSF466891.8E-3037133IPR009057Homeodomain-like
SMARTSM007171.2E-153888IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.2E-244093IPR009057Homeodomain-like
CDDcd001673.92E-124186No hitNo description
PfamPF139214.1E-1642102No hitNo description
PROSITE profilePS5129426.87287141IPR017930Myb domain
SMARTSM007172.3E-1791139IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.6E-2694140IPR009057Homeodomain-like
CDDcd001671.05E-1294135No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009789Biological Processpositive regulation of abscisic acid-activated signaling pathway
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045926Biological Processnegative regulation of growth
GO:0048235Biological Processpollen sperm cell differentiation
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 541 aa     Download sequence    Send to blast
MSHTKNERED GMLSEDQAES PLADDGNCGG AGGGVVMKKG PWTSAEDAIL IEYVKKHGEG  60
NWNAVQKHSG LFRCGKSCRL RWANHLRPNL KKGAFTQEEE QLIIELHAKM GNKWARMAAH  120
LPGRTDNEIK NYWNTRIKRR QRAGLPLYPP EVCLQALQES HSTSAVNGGD KGPQDIMQNN  180
SYQIPDVIFD SLKANQSVLP YVPELPDIST SSMLMKGLGS SQYCSFMPPT IHRQKRLRES  240
TAFFPGYTGA VKNECPLFDQ FQDDMSDKAA QSFGVSFQIE PDPTAKNSES FGVFPGSHAL  300
TNGNFSASES SLEAVKLELP SLQYPETELG NWGTISCPPP LLESVDAFIQ SPPPTSGVES  360
DSLSPHNSGL LDALLHEAKT LSSAKNHASD KSSNSSTPGD IAESSNFNIC ETEWENCGQP  420
LSPMGHSATS LFSECISASG SSLDEQPPAE TFTEIQKEAP IRLDSTRPDT LLASNWLEQG  480
CVYDKDQTIM SDAIATLLGD DLSSEYKNMA AGTSISSQAW GLGSCAWNNM PAVCQMSELP  540
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-32391407107B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator of alpha-amylase expression that binds to 5'-CAACTGTC-3' motif in target gene promoter (PubMed:11743113). Positive regulator of abscisic acid (ABA) responses leading to growth arrest during seed germination (PubMed:17217461). In vegetative tissues, inhibits growth by reducing cell proliferation. Promotes the expression of aleurone-related genes (e.g. CP1, CP, GASA1, BXL1 and BXL2) in seeds. Together with MYB65 and MYB101, promotes the programmed cell death (PCD) the vacuolation of protein storage vacuoles (PSVs) in the aleurone layers during seed germination (PubMed:20699403). Binds to a GARE site (GA-response element) in the LEAFY promoter, essential for its gibberellic acid (GA)-mediated induction (PubMed:15226253). Together with MYB65, facilitates anther and tapetum development (PubMed:15722475). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15226253, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:17217461, ECO:0000269|PubMed:20699403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00490DAPTransfer from AT5G06100Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Accumulates at the shoot apex upon the transition from short- to long-day photoperiods leading to flowering and after gibberellins (GAs) treatment (PubMed:11743113). Repressed by microRNA159 (miR159a and miR159b) in vegetative tissues (PubMed:15226253, PubMed:20699403, PubMed:17916625). Specific expression in floral organs and in the shoot apices is regulated via miR159-mediated degradation (PubMed:15722475). Repressed in germinating seeds by miR159-mediated cleavage in an abscisic acid (ABA) and ABI3-dependent manner, probably to desensitize hormone signaling during seedling stress responses (PubMed:17217461, PubMed:18305205). Slightly induced by ethylene and cytokinins (PubMed:9839469). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15226253, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:17217461, ECO:0000269|PubMed:17916625, ECO:0000269|PubMed:18305205, ECO:0000269|PubMed:20699403, ECO:0000269|PubMed:9839469}.
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_007010686.20.0PREDICTED: transcription factor GAMYB
RefseqXP_007010687.20.0PREDICTED: transcription factor GAMYB
SwissprotQ8W1W61e-152MYB33_ARATH; Transcription factor MYB33
TrEMBLA0A061FRF40.0A0A061FRF4_THECC; Myb domain protein 65, putative isoform 3
STRINGEOY194960.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06100.31e-147myb domain protein 33
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. Allen RS, et al.
    Genetic analysis reveals functional redundancy and the major target genes of the Arabidopsis miR159 family.
    Proc. Natl. Acad. Sci. U.S.A., 2007. 104(41): p. 16371-6
    [PMID:17916625]
  3. 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]
  4. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  5. Li J,Reichel M,Millar AA
    Determinants beyond both complementarity and cleavage govern microR159 efficacy in Arabidopsis.
    PLoS Genet., 2014. 10(3): p. e1004232
    [PMID:24626050]
  6. Li Y,Alonso-Peral M,Wong G,Wang MB,Millar AA
    Ubiquitous miR159 repression of MYB33/65 in Arabidopsis rosettes is robust and is not perturbed by a wide range of stresses.
    BMC Plant Biol., 2016. 16(1): p. 179
    [PMID:27542984]
  7. Liu B,De Storme N,Geelen D
    Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis.
    Plant Physiol., 2017. 173(1): p. 338-353
    [PMID:27621423]
  8. Zhang F, et al.
    Phosphorylation of CBP20 Links MicroRNA to Root Growth in the Ethylene Response.
    PLoS Genet., 2016. 12(11): p. e1006437
    [PMID:27870849]
  9. Zheng Z, et al.
    Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy.
    Plant Physiol., 2017. 174(3): p. 1764-1778
    [PMID:28515145]
  10. Guo C, et al.
    Repression of miR156 by miR159 Regulates the Timing of the Juvenile-to-Adult Transition in Arabidopsis.
    Plant Cell, 2017. 29(6): p. 1293-1304
    [PMID:28536099]
  11. Xue T,Liu Z,Dai X,Xiang F
    Primary root growth in Arabidopsis thaliana is inhibited by the miR159 mediated repression of MYB33, MYB65 and MYB101.
    Plant Sci., 2017. 262: p. 182-189
    [PMID:28716415]
  12. Medina C, et al.
    Characterization of microRNAs from Arabidopsis galls highlights a role for miR159 in the plant response to the root-knot nematode Meloidogyne incognita.
    New Phytol., 2017. 216(3): p. 882-896
    [PMID:28906559]
  13. Kim MH, et al.
    Poplar MYB transcription factor PtrMYB012 and its Arabidopsis AtGAMYB orthologs are differentially repressed by the Arabidopsis miR159 family.
    Tree Physiol., 2018. 38(6): p. 801-812
    [PMID:29301041]