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 Cc11_g11720
Common NameGSCOC_T00032409001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family MIKC_MADS
Protein Properties Length: 240aa    MW: 27407.2 Da    PI: 8.3142
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc11_g11720genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.62.6e-31959151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krienk+nrqvtf+kRrng+lKKA+ELS+LCdaeva+i+fs++gklye++s
  Cc11_g11720  9 KRIENKINRQVTFAKRRNGLLKKAYELSILCDAEVALIVFSNRGKLYEFCS 59
                 79***********************************************96 PP
2K-box93.14.6e-31801737100
        K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                   ++++++ +  +qe+ kLk+++e Lq++qRhllGedL +L  k+L qLe+qL+ sl++iRs+K++++l+q+++lq+kek+l e nkaLr+klee
  Cc11_g11720  80 MNQSSKDPQGDYQEYLKLKAKVEVLQQSQRHLLGEDLAQLGAKQLDQLERQLDASLRQIRSTKTQHMLDQLSDLQQKEKSLMEVNKALRNKLEE 173
                  4577888999*********************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.3E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.501161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-34282IPR002100Transcription factor, MADS-box
CDDcd002652.66E-45278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-33323IPR002100Transcription factor, MADS-box
PfamPF003191.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-333859IPR002100Transcription factor, MADS-box
PfamPF014862.2E-2686171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.23287177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0048440Biological Processcarpel development
GO:0048441Biological Processpetal development
GO:0048442Biological Processsepal development
GO:0048443Biological Processstamen development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 240 aa     Download sequence    Send to blast
MGRGKVELKR IENKINRQVT FAKRRNGLLK KAYELSILCD AEVALIVFSN RGKLYEFCSS  60
SSMSKTLERY HRCSYADAGM NQSSKDPQGD YQEYLKLKAK VEVLQQSQRH LLGEDLAQLG  120
AKQLDQLERQ LDASLRQIRS TKTQHMLDQL SDLQQKEKSL MEVNKALRNK LEETTAAFQL  180
SWDVSEEHNL RHRSQTIHPE GFFQPLECNS SIMNYNMVVA DAEAEPTQNP SGILPGWML*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A3e-259217122101Developmental protein SEPALLATA 3
4ox0_B3e-259217122101Developmental protein SEPALLATA 3
4ox0_C3e-259217122101Developmental protein SEPALLATA 3
4ox0_D3e-259217122101Developmental protein SEPALLATA 3
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable MADS-box transcription factor that functions with J2 and EJ2 in meristem maturation. {ECO:0000269|PubMed:28528644}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00030SELEXTransfer from AT2G03710Download
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
GenBankGU2658230.0GU265823.1 Coffea arabica MADS-box protein AGL2 subfamily (C08) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027096627.11e-179MADS-box protein 04g005320-like isoform X2
RefseqXP_027096631.11e-179MADS-box protein 04g005320-like isoform X2
RefseqXP_027096632.11e-179MADS-box protein 04g005320-like isoform X2
RefseqXP_027096634.11e-179MADS-box protein 04g005320-like isoform X2
SwissprotK4BND81e-123MADS4_SOLLC; MADS-box protein 04g005320
TrEMBLA0A068TWM51e-178A0A068TWM5_COFCA; Uncharacterized protein
STRINGSolyc04g005320.2.11e-121(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4024625
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G03710.12e-97MIKC_MADS family protein
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Soyk S, et al.
    Bypassing Negative Epistasis on Yield in Tomato Imposed by a Domestication Gene.
    Cell, 2017. 169(6): p. 1142-1155.e12
    [PMID:28528644]