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 Lus10005302
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family MIKC_MADS
Protein Properties Length: 268aa    MW: 30352.3 Da    PI: 6.8796
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10005302genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.92e-313989151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fs++g+lyeys+
  Lus10005302 39 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYSN 89
                 79***********************************************95 PP
2K-box112.44.7e-371062033100
        K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                  ++++ s++e +a+++qqe+akL+++i++Lq+++Rhl+Ge+L+sLs+keL+qLe++L++++++iR+kK+elll++ie++qk+e el++e  +Lr+k++e
  Lus10005302 106 STHTPSVTEINAQYYQQESAKLRQQIQMLQNSNRHLMGESLSSLSIKELKQLENRLDRGVSRIRAKKHELLLAEIEYMQKREIELENESVCLRTKIAE 203
                  455667999**************************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-413190IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.953191IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.31E-3232108IPR002100Transcription factor, MADS-box
CDDcd002657.07E-4432106No hitNo description
PROSITE patternPS0035003387IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-323353IPR002100Transcription factor, MADS-box
PfamPF003192.3E-264087IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-325368IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-326889IPR002100Transcription factor, MADS-box
PfamPF014863.5E-27116201IPR002487Transcription factor, K-box
PROSITE profilePS5129715.932117207IPR002487Transcription 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: 268 aa     Download sequence    Send to blast
MDLSYSIPQE QEVAEDQEEV IVNNNSSSSS MGRGKIEIKR IENTTNRQVT FCKRRNGLLK  60
KAYELSVLCD AEVALIVFST RGRLYEYSNN NIKATIEKYK KACSDSTHTP SVTEINAQYY  120
QQESAKLRQQ IQMLQNSNRH LMGESLSSLS IKELKQLENR LDRGVSRIRA KKHELLLAEI  180
EYMQKREIEL ENESVCLRTK IAEVERVNEE ANMVSGAELN AIHALAASRN FFAPNEMMDH  240
PPPTSAKEHD ASPPPAVGDK HPFLSRQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-213199169Myocyte-specific enhancer factor 2B
1tqe_Q3e-213199169Myocyte-specific enhancer factor 2B
1tqe_R3e-213199169Myocyte-specific enhancer factor 2B
1tqe_S3e-213199169Myocyte-specific enhancer factor 2B
6c9l_A3e-213199169Myocyte-specific enhancer factor 2B
6c9l_B3e-213199169Myocyte-specific enhancer factor 2B
6c9l_C3e-213199169Myocyte-specific enhancer factor 2B
6c9l_D3e-213199169Myocyte-specific enhancer factor 2B
6c9l_E3e-213199169Myocyte-specific enhancer factor 2B
6c9l_F3e-213199169Myocyte-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10005302
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001267506.11e-130agamous-like MADS-box protein AGL11-like
SwissprotF6I4571e-122AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0N7IRX11e-130A0A0N7IRX1_MERAN; Agamous 1-like protein
STRINGLus100053020.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68429102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-106MIKC_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]