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 Lus10008264
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: 282aa    MW: 31898 Da    PI: 7.1516
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10008264genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.82.2e-314191151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fs++g+lyeys+
  Lus10008264 41 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYSN 91
                 79***********************************************95 PP
2K-box111.11.2e-361082053100
        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
  Lus10008264 108 STHTPSVTEINAQYYQQESAKLSQQIQMLQNSNRHLMGESLSSLSIKELKQLENRLDRGVSRIRAKKHELLLAEIEYMQKREIELENESVCLRTKIAE 205
                  455667999**************************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-413392IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.953393IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-3234110IPR002100Transcription factor, MADS-box
CDDcd002651.32E-4334108No hitNo description
PROSITE patternPS0035003589IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-323555IPR002100Transcription factor, MADS-box
PfamPF003192.5E-264289IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-325570IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-327091IPR002100Transcription factor, MADS-box
PfamPF014865.8E-27118203IPR002487Transcription factor, K-box
PROSITE profilePS5129715.725119209IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 282 aa     Download sequence    Send to blast
MDLSYSIPQK QEQEVTEDQE ELIVNHHSSS SGMGRGKIEI KRIENTTNRQ VTFCKRRNGL  60
LKKAYELSVL CDAEVALIVF STRGRLYEYS NNNIKATIEK YKKACSDSTH TPSVTEINAQ  120
YYQQESAKLS QQIQMLQNSN RHLMGESLSS LSIKELKQLE NRLDRGVSRI RAKKHELLLA  180
EIEYMQKREI ELENESVCLR TKIAEVERVN EEANMVSGAE LNAIHALAAS RNFFAPNEMM  240
DHPPPTSVTN IPFSPGSSSH QQESPTPPAE KKSHVHHLHL A*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-2133101169Myocyte-specific enhancer factor 2B
1tqe_Q3e-2133101169Myocyte-specific enhancer factor 2B
1tqe_R3e-2133101169Myocyte-specific enhancer factor 2B
1tqe_S3e-2133101169Myocyte-specific enhancer factor 2B
6c9l_A3e-2133101169Myocyte-specific enhancer factor 2B
6c9l_B3e-2133101169Myocyte-specific enhancer factor 2B
6c9l_C3e-2133101169Myocyte-specific enhancer factor 2B
6c9l_D3e-2133101169Myocyte-specific enhancer factor 2B
6c9l_E3e-2133101169Myocyte-specific enhancer factor 2B
6c9l_F3e-2133101169Myocyte-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
PlantRegMapLus10008264
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-129agamous-like MADS-box protein AGL11-like
SwissprotF6I4571e-121AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0N7IRX11e-129A0A0N7IRX1_MERAN; Agamous 1-like protein
STRINGLus100082640.0(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-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. 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]