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 Thecc1EG011475t1
Common NameTCM_011475
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 MIKC_MADS
Protein Properties Length: 242aa    MW: 28016.1 Da    PI: 9.1054
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG011475t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.42.8e-31959151
                      S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
            SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                      krienk+nrqvtfskRr+g+lKKA+E+SvLCdaeva+i+fs++gkl+eyss
  Thecc1EG011475t1  9 KRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALIVFSHKGKLFEYSS 59
                      79***********************************************96 PP
2K-box108.66.8e-36821748100
             K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                       +++   + +++ e+++Lk+++e Lq+++Rh++GedL+ LslkeLq+LeqqL+++lk+iRskKn+l++e+i+elq+kek++qe+n++L k+++e
  Thecc1EG011475t1  82 ATQPGSQGNWTMEYNRLKAKVELLQKNHRHYMGEDLDFLSLKELQNLEQQLDTALKHIRSKKNQLMYESISELQRKEKAIQEQNTMLAKQIKE 174
                       545556789*********************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.38161IPR002100Transcription factor, MADS-box
SMARTSM004324.7E-41160IPR002100Transcription factor, MADS-box
CDDcd002651.59E-43279No hitNo description
SuperFamilySSF554551.44E-34288IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-313859IPR002100Transcription factor, MADS-box
PfamPF014866.3E-3087172IPR002487Transcription factor, K-box
PROSITE profilePS5129717.08888178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009933Biological Processmeristem structural organization
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 242 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRAGLLK KAHEISVLCD AEVALIVFSH KGKLFEYSSD  60
SCMEKILERY ERYSYAERQL VATQPGSQGN WTMEYNRLKA KVELLQKNHR HYMGEDLDFL  120
SLKELQNLEQ QLDTALKHIR SKKNQLMYES ISELQRKEKA IQEQNTMLAK QIKEKEKTVA  180
QQSQWGQQGH GLNTSPFLLP QPHPCLNISG TYQEEAPEMR RNELELTLEP IYSCNLGCFA  240
A*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A3e-22174173MEF2 CHIMERA
6byy_B3e-22174173MEF2 CHIMERA
6byy_C3e-22174173MEF2 CHIMERA
6byy_D3e-22174173MEF2 CHIMERA
6bz1_A3e-22174173MEF2 CHIMERA
6bz1_B3e-22174173MEF2 CHIMERA
6bz1_C3e-22174173MEF2 CHIMERA
6bz1_D3e-22174173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00096ChIP-seqTransfer from AT1G69120Download
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
GenBankJN3157080.0JN315708.1 Gossypium hirsutum MADS23 (MADS23) mRNA, complete cds.
GenBankKC1556360.0KC155636.1 Gossypium hirsutum MADS box protein MADS41 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007045796.21e-180PREDICTED: truncated transcription factor CAULIFLOWER A isoform X1
SwissprotQ6E6S71e-148AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A061EAI91e-179A0A061EAI9_THECC; K-box region and MADS-box transcription factor family protein
STRINGEOY016281e-180(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-131MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  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. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]