PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cagra.0917s0080.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family M-type_MADS
Protein Properties Length: 72aa    MW: 8070.42 Da    PI: 10.2884
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0917s0080.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF77.69.3e-25959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krie+ks rqvtf+kRrng++ KA  LS+LC+  va++i+sstgkly +ss
  Cagra.0917s0080.1.p  9 KRIEDKSSRQVTFCKRRNGLMEKARQLSILCESSVALVIVSSTGKLYSFSS 59
                         79***********************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.2E-33160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.17161IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.19E-26161IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-25323IPR002100Transcription factor, MADS-box
PfamPF003199.3E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-253859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 72 aa     Download sequence    Send to blast
MGRRKVEIKR IEDKSSRQVT FCKRRNGLME KARQLSILCE SSVALVIVSS TGKLYSFSSG  60
DRVIEEQCAL F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-19161161MEF2C
5f28_B6e-19161161MEF2C
5f28_C6e-19161161MEF2C
5f28_D6e-19161161MEF2C
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
PlantRegMapCagra.0917s0080.1.p
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY2314554e-54AY231455.1 Arabidopsis thaliana MADS affecting flowering 5 variant I (MAF5) mRNA, complete cds.
GenBankAY2314564e-54AY231456.1 Arabidopsis thaliana MADS affecting flowering 5 variant II (MAF5) mRNA, complete cds.
GenBankBT0252684e-54BT025268.1 Arabidopsis thaliana At5g65080 mRNA, complete cds.
GenBankCP0026884e-54CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
GenBankEU9806144e-54EU980614.1 Arabidopsis thaliana ecotype Cvi-0 MAF2 (MAF2) gene, complete cds; MAF3 gene, complete sequence; and MAF4 (MAF4) and MAF5 (MAF5) genes, complete cds.
GenBankEU9806154e-54EU980615.1 Arabidopsis thaliana ecotype Ita-0 MAF2 (MAF2) gene, complete cds; MAF3 gene, complete sequence; MAF4 (MAF4) gene, complete cds; and MAF5 (MAF5) gene, partial cds.
GenBankEU9806164e-54EU980616.1 Arabidopsis thaliana ecotype Bu-2 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806184e-54EU980618.1 Arabidopsis thaliana ecotype Li-3 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806194e-54EU980619.1 Arabidopsis thaliana ecotype Li-8 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806204e-54EU980620.1 Arabidopsis thaliana ecotype PHW-1 MAF2 (MAF2) gene, complete cds; MAF3 gene, complete sequence; and MAF4 (MAF4) and MAF5 (MAF5) genes, complete cds.
GenBankEU9806214e-54EU980621.1 Arabidopsis thaliana ecotype Nd-0 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806224e-54EU980622.1 Arabidopsis thaliana ecotype PHW-33 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806234e-54EU980623.1 Arabidopsis thaliana ecotype Co-1 MAF2 (MAF2) gene, partial cds; and MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806244e-54EU980624.1 Arabidopsis thaliana ecotype Bu-0 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806254e-54EU980625.1 Arabidopsis thaliana ecotype No-0 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806264e-54EU980626.1 Arabidopsis thaliana MAF2 (MAF2), MAF3 (MAF3), and MAF4 (MAF4) genes, complete cds; and MAF5 (MAF5) gene, partial cds.
GenBankEU9806274e-54EU980627.1 Arabidopsis thaliana ecotype Kas-1 MAF2 (MAF2) gene, partial cds; and MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806284e-54EU980628.1 Arabidopsis thaliana ecotype Chi-1 MAF2 (MAF2), MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806294e-54EU980629.1 Arabidopsis thaliana ecotype Gr-3 MAF2 gene, complete sequence; and MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
GenBankEU9806304e-54EU980630.1 Arabidopsis thaliana ecotype Bs-1 MAF2 gene, complete sequence; and MAF3 (MAF3), MAF4 (MAF4), and MAF5 (MAF5) genes, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001190617.13e-39K-box region and MADS-box transcription factor family protein
SwissprotQ683D71e-31MAF5_ARATH; Protein MADS AFFECTING FLOWERING 5
TrEMBLF4KGH98e-38F4KGH9_ARATH; K-box region and MADS-box transcription factor family protein
STRINGCagra.0917s0080.1.p2e-43(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65070.31e-42MIKC_MADS family protein
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]