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_g11710
Common NameGSCOC_T00032410001
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: 243aa    MW: 28207.1 Da    PI: 7.9707
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc11_g11710genomeCGSCView 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
  Cc11_g11710  9 KRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALIVFSHKGKLFEYSS 59
                 79***********************************************96 PP
2K-box105.85.2e-358417410100
        K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                  + + +  ++ e++kLk++ie Lqr++Rh++GedL+ +s k+Lq+Le+qL+++lk+iR++Kn+l++e+i+elq+kek++q++n +L kk++e
  Cc11_g11710  84 DLESEGDWTLEYTKLKAKIELLQRNHRHYMGEDLDAMSSKDLQNLEHQLDTALKQIRTRKNQLMYESISELQRKEKAIQQQNSMLAKKIKE 174
                  45556789********************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004327.1E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.59161IPR002100Transcription factor, MADS-box
CDDcd002652.86E-43276No hitNo description
SuperFamilySSF554554.06E-35288IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-31323IPR002100Transcription factor, MADS-box
PfamPF003197.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129716.50488178IPR002487Transcription factor, K-box
PfamPF014862.6E-2988172IPR002487Transcription 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: 243 aa     Download sequence    Send to blast
MGRGKVQLKR IENKINRQVT FSKRRAGLLK KAHEISVLCD AEVALIVFSH KGKLFEYSSD  60
SSMENILERY ERYSYAERRL VANDLESEGD WTLEYTKLKA KIELLQRNHR HYMGEDLDAM  120
SSKDLQNLEH QLDTALKQIR TRKNQLMYES ISELQRKEKA IQQQNSMLAK KIKEKEKLMA  180
QQAQWEQQNQ GPSSTPYLIP EPLPPCINVS GNYEEETQEA RRNELELTLD SLFPCHLGCF  240
TA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A2e-22174173MEF2 CHIMERA
6byy_B2e-22174173MEF2 CHIMERA
6byy_C2e-22174173MEF2 CHIMERA
6byy_D2e-22174173MEF2 CHIMERA
6bz1_A2e-22174173MEF2 CHIMERA
6bz1_B2e-22174173MEF2 CHIMERA
6bz1_C2e-22174173MEF2 CHIMERA
6bz1_D2e-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
GenBankKJ4832370.0KJ483237.1 Coffea arabica AP1 (AP1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027151189.10.0truncated transcription factor CAULIFLOWER A
SwissprotQ6E6S71e-134AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A068TYN11e-179A0A068TYN1_COFCA; Uncharacterized protein
STRINGcassava4.1_029935m1e-138(Manihot esculenta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4992397
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-105MIKC_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. 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]