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 Cc10_g09390
Common NameGSCOC_T00031550001
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: 230aa    MW: 26405.3 Da    PI: 9.8434
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc10_g09390genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.33.1e-31958150
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g++yey+
  Cc10_g09390  9 KRIENNTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRVYEYA 58
                 79***********************************************8 PP
2K-box106.92.4e-35801746100
        K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                  + s++e +a+ +qqe++kL+++i+++q+++Rhl+Ge+L+sL++keL+qLe++Le+++++iRskK+e++l+++++lqk+e +l++en +Lr+k++e
  Cc10_g09390  80 SCSTQEINAQFYQQESKKLRQQIQMIQNSNRHLMGEGLSSLNVKELKQLENRLERGISRIRSKKHEMILAETDTLQKREIQLEQENACLRAKIAE 174
                  33478999************************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.4E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.978161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.06E-32275IPR002100Transcription factor, MADS-box
CDDcd002651.02E-41274No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-32323IPR002100Transcription factor, MADS-box
PfamPF003199.2E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-323859IPR002100Transcription factor, MADS-box
PfamPF014865.2E-2884172IPR002487Transcription factor, K-box
PROSITE profilePS5129716.27888178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:0090376Biological Processseed trichome differentiation
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: 230 aa     Download sequence    Send to blast
MGRGKIEIKR IENNTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRVYEYANN  60
NSIKSTIDRY RKATTDASNS CSTQEINAQF YQQESKKLRQ QIQMIQNSNR HLMGEGLSSL  120
NVKELKQLEN RLERGISRIR SKKHEMILAE TDTLQKREIQ LEQENACLRA KIAENERLQQ  180
LSIVPPGQEY NEMQAYLARN LLQLNMMEGL PVFQVPDKKS LQLGLDLVG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-20161161Myocyte-specific enhancer factor 2B
1tqe_Q2e-20161161Myocyte-specific enhancer factor 2B
1tqe_R2e-20161161Myocyte-specific enhancer factor 2B
1tqe_S2e-20161161Myocyte-specific enhancer factor 2B
6c9l_A2e-20161161Myocyte-specific enhancer factor 2B
6c9l_B2e-20161161Myocyte-specific enhancer factor 2B
6c9l_C2e-20161161Myocyte-specific enhancer factor 2B
6c9l_D2e-20161161Myocyte-specific enhancer factor 2B
6c9l_E2e-20161161Myocyte-specific enhancer factor 2B
6c9l_F2e-20161161Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027093913.11e-167agamous-like MADS-box protein AGL11 isoform X1
SwissprotF6I4571e-115AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A068UQQ71e-165A0A068UQQ7_COFCA; Uncharacterized protein
STRINGXP_009770275.11e-130(Nicotiana sylvestris)
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
AT4G09960.11e-102MIKC_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. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  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]
  5. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  6. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]