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 GSBRNA2T00047677001
Common NameGSBRNA2T00047677001
Organism
Brassica napus
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 LSD
Protein Properties Length: 168aa    MW: 17893.8 Da    PI: 8.6275
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00047677001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD125.22.7e-081125115
              zf-LSD1  1 CggCrtlLsYPrGAp 15
                         C+gCr++L YPrGA+
  GSBRNA2T00047677001 11 CHGCRNTLLYPRGAT 25
                         **************9 PP
2zf-LSD127.74.4e-094358924
              zf-LSD1  9 sYPrGApsVRCalCdt 24
                         +Y+rGA+sVRC++C+t
  GSBRNA2T00047677001 43 MYTRGASSVRCSCCQT 58
                         9**************8 PP
3zf-LSD149.56.9e-1676100125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+Crt+L+YP+GA+sV+Ca+C++V
  GSBRNA2T00047677001  76 CGNCRTTLMYPYGASSVKCAVCQFV 100
                          ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010539.5E-8826IPR005735Zinc finger, LSD1-type
PfamPF069432.3E-51126IPR005735Zinc finger, LSD1-type
PfamPF069431.7E-64358IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.5E-104362IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.0E-1473103IPR005735Zinc finger, LSD1-type
PfamPF069433.2E-1476100IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 168 aa     Download sequence    Send to blast
MMAEMQDQLV CHGCRNTLLY PRGATNGWTW LTLYVVVVEL CFMYTRGASS VRCSCCQTLN  60
LVPAPTPSNQ FVHINCGNCR TTLMYPYGAS SVKCAVCQFV TNVNLMGNGR VPNMPNGAAS  120
PGTMLSTSTQ SIPPSKTQTV VVENPMSVNG SGKLVSNVVV GVTTCKK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.41170.0microspore| root| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cotyledons, roots, rosette leaves, stems, inflorescences and flowers. {ECO:0000269|PubMed:20456049}.
Functional Description ? help Back to Top
Source Description
UniProtNegative regulator of reactive oxygen-induced cell death, cold stress-induced cell death, pathogen-induced hypersensitive response (HR), basal disease resistance. May be involved in the induction of the copper/zinc superoxide dismutase CSD1 and CSD2 that detoxify accumulating superoxide before the reactive oxygen species (ROS) can trigger a cell death cascade. LSD1 and LOL1 have antagonistic effects on CSD1 and CSD2 accumulation to regulate oxidative stress-induced cell death. Antagonizes the function of BZIP10, a positive regulator of cell death, by interacting in the cytoplasm and preventing its nuclear localization. Controls lysigenous aerenchyma in hypocotyls under root hypoxia. Required for leaf acclimation in response to excess excitation energy. {ECO:0000269|PubMed:10550898, ECO:0000269|PubMed:11595797, ECO:0000269|PubMed:11844114, ECO:0000269|PubMed:12732715, ECO:0000269|PubMed:15347794, ECO:0000269|PubMed:16957775, ECO:0000269|PubMed:18055613, ECO:0000269|PubMed:18790826, ECO:0000269|PubMed:20456049, ECO:0000269|PubMed:21097903}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00047677001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By methyl viologen. {ECO:0000269|PubMed:20456049}.
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_013626336.15e-97PREDICTED: protein LSD1-like isoform X1
SwissprotP940772e-59LSD1_ARATH; Protein LSD1
TrEMBLA0A078GY681e-118A0A078GY68_BRANA; BnaC03g63840D protein
STRINGBo3g162210.11e-111(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53452650
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.79e-62LSD family protein
Publications ? help Back to Top
  1. Spedaletti V, et al.
    Characterization of a lysine-specific histone demethylase from Arabidopsis thaliana.
    Biochemistry, 2008. 47(17): p. 4936-47
    [PMID:18393445]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Szechyńska-Hebda M,Czarnocka W,Hebda M,Bernacki MJ,Karpiński S
    PAD4, LSD1 and EDS1 regulate drought tolerance, plant biomass production, and cell wall properties.
    Plant Cell Rep., 2016. 35(3): p. 527-39
    [PMID:26754794]
  4. Czarnocka W, et al.
    The dual role of LESION SIMULATING DISEASE 1 as a condition-dependent scaffold protein and transcription regulator.
    Plant Cell Environ., 2017. 40(11): p. 2644-2662
    [PMID:28555890]
  5. Bernacki MJ, et al.
    LSD1-, EDS1- and PAD4-dependent conditional correlation among salicylic acid, hydrogen peroxide, water use efficiency and seed yield in Arabidopsis thaliana.
    Physiol Plant, 2019. 165(2): p. 369-382
    [PMID:30461017]