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 XP_013628777.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 183aa    MW: 20785.1 Da    PI: 9.8113
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013628777.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF64.88.9e-21956148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    krie+ks rqvtf+kRrng++ KA  LSvLC+  vav+i+ss gk+y 
  XP_013628777.1  9 KRIEDKSSRQVTFCKRRNGLIEKARQLSVLCGSSVAVLIVSSIGKVYS 56
                    79********************************************95 PP
2K-box24.51.1e-09821521686
           K-box  16 slqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkeke 86 
                      l+++ ++  + +e L++ qR+l   ++++++++ L +Le+q +++l+  R++K+el+++ ++  q+k+ +
  XP_013628777.1  82 DLTEKTQNYLSLNELLETVQRKLEAANVDNITVQSLISLEEQSKTALSLTRARKTELMMQLVKSFQEKMGK 152
                     4555566666678999999999********************************************99755 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.249161IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-30160IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.93E-25173IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-21323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.0E-201056IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-212338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-213859IPR002100Transcription factor, MADS-box
PROSITE profilePS512979.04680175IPR002487Transcription 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: 183 aa     Download sequence    Send to blast
MGRRKVEIKR IEDKSSRQVT FCKRRNGLIE KARQLSVLCG SSVAVLIVSS IGKVYSSSSG  60
DSMAKILKHY EVQHADKLKT LDLTEKTQNY LSLNELLETV QRKLEAANVD NITVQSLISL  120
EEQSKTALSL TRARKTELMM QLVKSFQEKM GKEKEFLETE DERAMLLEYS SGSNLRETLP  180
LLK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-15170169MEF2C
5f28_B2e-15170169MEF2C
5f28_C2e-15170169MEF2C
5f28_D2e-15170169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in the negative regulation of flowering time in short days, probably through the photoperiodic and vernalization pathways. Prevents premature flowering, particularly in the cv. Landsberg erecta background. In non-inductive photoperiods (e.g. short days), required for flowering through VIL2-mediated maintenance of the epigenetically repressed state of MAF5 via H3K9me2 and plant homeodomain / polycomb repressive complex 2 (PHD-PRC2)-dependent H3K27me3. {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:18798874, ECO:0000269|PubMed:18852898, ECO:0000269|PubMed:20837520, ECO:0000269|PubMed:21150261, ECO:0000269|PubMed:21175890, ECO:0000269|PubMed:21398257, ECO:0000269|PubMed:22378382}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013628777.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by vernalization. Repressed by VIL2, AGL6, CLF, EMF2 and FIE via epigenetic chromatin H3K27me3 and H3K9me2 regulation during the vegetative development. {ECO:0000269|PubMed:12724541}.
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_013628777.11e-129PREDICTED: protein MADS AFFECTING FLOWERING 5-like isoform X5
SwissprotQ683D73e-81MAF5_ARATH; Protein MADS AFFECTING FLOWERING 5
TrEMBLA0A0D3BEW41e-123A0A0D3BEW4_BRAOL; Uncharacterized protein
STRINGBo3g100540.11e-124(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65050.13e-75AGAMOUS-like 31
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  3. Xu Y,Gan ES,Ito T
    The AT-hook/PPC domain protein TEK negatively regulates floral repressors including MAF4 and MAF5.
    Plant Signal Behav, 2014.
    [PMID:23733063]
  4. Liu B, et al.
    Interplay of the histone methyltransferases SDG8 and SDG26 in the regulation of transcription and plant flowering and development.
    Biochim. Biophys. Acta, 2016. 1859(4): p. 581-90
    [PMID:26854085]
  5. Gong X,Shen L,Peng YZ,Gan Y,Yu H
    DNA Topoisomerase Iα Affects the Floral Transition.
    Plant Physiol., 2017. 173(1): p. 642-654
    [PMID:27837087]
  6. Cui Z, et al.
    SKIP controls flowering time via the alternative splicing of SEF pre-mRNA in Arabidopsis.
    BMC Biol., 2017. 15(1): p. 80
    [PMID:28893254]