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 Lus10009481
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: 298aa    MW: 33931.4 Da    PI: 8.5973
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10009481genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.74.9e-3167117151
                  S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                  krie+k+nrqvtf+kRrng+lKKA+ELSvLCdae+a+i+fss+g+lyeys+
  Lus10009481  67 KRIESKTNRQVTFCKRRNGLLKKAYELSVLCDAEIALIVFSSRGRLYEYSN 117
                  79***********************************************95 PP
2K-box97.81.6e-321422379100
        K-box   9 leeakaeslqqelakLkkeienLq....reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                   +e +++++qqe+akLk++i++Lq       +hl+Ge+L++Ls+keL++Le+++e++++kiR+kK+elll++i +lqk+e el++en +Lr+k++e
  Lus10009481 142 MAEVNTKYYQQESAKLKQQIQMLQnsnsMLAKHLMGESLSTLSMKELKNLETRVERGITKIRAKKHELLLAEIGYLQKREVELENENVSLRTKIAE 237
                  578899******************76555579*************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.58559119IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-4159118IPR002100Transcription factor, MADS-box
CDDcd002653.10E-4260135No hitNo description
SuperFamilySSF554551.7E-3160132IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-326181IPR002100Transcription factor, MADS-box
PROSITE patternPS00350061115IPR002100Transcription factor, MADS-box
PfamPF003193.9E-2668115IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-328196IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-3296117IPR002100Transcription factor, MADS-box
PfamPF014866.6E-22146235IPR002487Transcription factor, K-box
PROSITE profilePS5129714.383147241IPR002487Transcription 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: 298 aa     Download sequence    Send to blast
MGLYSYFLAM DFSRSDKKSN KVENFQIPFD SDLMALADLV EEITPTINSS GSSSSSSGMG  60
RGKIEIKRIE SKTNRQVTFC KRRNGLLKKA YELSVLCDAE IALIVFSSRG RLYEYSNNNN  120
IKSTIERYKK AISDDGPYTP SMAEVNTKYY QQESAKLKQQ IQMLQNSNSM LAKHLMGESL  180
STLSMKELKN LETRVERGIT KIRAKKHELL LAEIGYLQKR EVELENENVS LRTKIAEVER  240
ANDEQQQANT QELKAIHEFQ AASRNFFAPV HHHQMMDPPD QPWDSKPFSI SGSHHHE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-2059119161Myocyte-specific enhancer factor 2B
1tqe_Q4e-2059119161Myocyte-specific enhancer factor 2B
1tqe_R4e-2059119161Myocyte-specific enhancer factor 2B
1tqe_S4e-2059119161Myocyte-specific enhancer factor 2B
6c9l_A4e-2059119161Myocyte-specific enhancer factor 2B
6c9l_B4e-2059119161Myocyte-specific enhancer factor 2B
6c9l_C4e-2059119161Myocyte-specific enhancer factor 2B
6c9l_D4e-2059119161Myocyte-specific enhancer factor 2B
6c9l_E4e-2059119161Myocyte-specific enhancer factor 2B
6c9l_F4e-2059119161Myocyte-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
PlantRegMapLus10009481
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1788374e-48AY178837.1 Momordica charantia mads-box transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008459656.11e-108PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016902404.11e-108PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016902405.11e-108PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
SwissprotF6I4571e-100AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A1S4E3521e-106A0A1S4E352_CUCME; agamous-like MADS-box protein AGL11 isoform X1
STRINGLus100094810.0(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
AT4G09960.15e-94MIKC_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]