PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sopim11g028020.0.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family MIKC_MADS
Protein Properties Length: 224aa    MW: 26061.7 Da    PI: 9.7566
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopim11g028020.0.1genomeCSHLView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF983.7e-31959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdae+a+i+fs++g+lyeys+
  Sopim11g028020.0.1  9 KRIENNTNRQVTFCKRRNGLLKKAYELSVLCDAEIALIVFSTRGRLYEYSN 59
                        79***********************************************95 PP

2K-box1003.5e-33791736100
               K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                            ++e +a+ +qqe++kL+++i+++q+++Rhl+Ge+L+sL+++eL+qLe++Le+++++iRskK+e +l+++e+l k+e +l++en  Lr+
  Sopim11g028020.0.1  79 AYTTQELNAQFYQQESKKLRQQIQMMQNTNRHLVGEGLSSLNVRELKQLENRLERGITRIRSKKHEAILAETEDLHKREIQLEQENAFLRS 169
                         33478999*********************************************************************************** PP

               K-box  97 klee 100
                         k++e
  Sopim11g028020.0.1 170 KIAE 173
                         *986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.852161IPR002100Transcription factor, MADS-box
SMARTSM004323.6E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.1E-33279IPR002100Transcription factor, MADS-box
CDDcd002652.36E-43278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-32323IPR002100Transcription factor, MADS-box
PfamPF003193.7E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-323859IPR002100Transcription factor, MADS-box
PfamPF014862.9E-2683171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.6987177IPR002487Transcription 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: 224 aa     Download sequence    Send to blast
MGRGKIEIKR IENNTNRQVT FCKRRNGLLK KAYELSVLCD AEIALIVFST RGRLYEYSNN  60
NVKATIERYK KATAETSSAY TTQELNAQFY QQESKKLRQQ IQMMQNTNRH LVGEGLSSLN  120
VRELKQLENR LERGITRIRS KKHEAILAET EDLHKREIQL EQENAFLRSK IAENERLQEL  180
SMMPSGGEEY NAFQQYLARN MLQLNMMETA LPSYDPLSPD HKR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-21169169Myocyte-specific enhancer factor 2B
1tqe_Q3e-21169169Myocyte-specific enhancer factor 2B
1tqe_R3e-21169169Myocyte-specific enhancer factor 2B
1tqe_S3e-21169169Myocyte-specific enhancer factor 2B
6c9l_A3e-21169169Myocyte-specific enhancer factor 2B
6c9l_B3e-21169169Myocyte-specific enhancer factor 2B
6c9l_C3e-21169169Myocyte-specific enhancer factor 2B
6c9l_D3e-21169169Myocyte-specific enhancer factor 2B
6c9l_E3e-21169169Myocyte-specific enhancer factor 2B
6c9l_F3e-21169169Myocyte-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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0987360.0AY098736.2 Lycopersicon esculentum TAGL11 transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234194.11e-163agamous-like MADS-box protein AGL11
SwissprotF6I4571e-108AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLQ8H2801e-162Q8H280_SOLLC; TAGL11 transcription factor
STRINGSolyc11g028020.1.11e-163(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
AT4G09960.13e-99MIKC_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]