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 GSBRNA2T00126870001
Common NameGSBRNA2T00126870001
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: 181aa    MW: 19209.3 Da    PI: 8.7818
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00126870001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD149.95.3e-16731125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         C+gCr++L YPrGA++VRCalC+tV
  GSBRNA2T00126870001  7 CHGCRNTLLYPRGATNVRCALCNTV 31
                         ************************9 PP
2zf-LSD141.32.6e-135073124
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdt 24
                         CggCrt+L+Y+rG +sVRC++C+t
  GSBRNA2T00126870001 50 CGGCRTMLMYTRGGTSVRCSCCQT 73
                         ***********************8 PP
3zf-LSD149.37.7e-1691115125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+Crt+L+YP+GA+sV+Ca+C++V
  GSBRNA2T00126870001  91 CGNCRTTLMYPYGASSVKCAVCQFV 115
                          ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.2E-17434IPR005735Zinc finger, LSD1-type
PfamPF069438.8E-13731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010538.8E-174777IPR005735Zinc finger, LSD1-type
PfamPF069433.1E-105073IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.6E-1488118IPR005735Zinc finger, LSD1-type
PfamPF069433.5E-1491115IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 181 aa     Download sequence    Send to blast
MQDQLVCHGC RNTLLYPRGA TNVRCALCNT VNMIPHHPSP HGMDMAHIVC GGCRTMLMYT  60
RGGTSVRCSC CQTLNLVPAP TPSNQFAHIN CGNCRTTLMY PYGASSVKCA VCQFVTNVNL  120
MGNGRVPNMQ NGAASPRTIS TSTSTPPSKT QTVVVENPMS VNESGKLVSN VVVGVTTCKK  180
*
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
PlantRegMapGSBRNA2T00126870001
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4533221e-112AF453322.1 Brassica oleracea zinc finger protein LSD1 (LSD1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022573818.11e-129protein LSD1-like isoform X4
SwissprotP940772e-80LSD1_ARATH; Protein LSD1
TrEMBLA0A3P6BE171e-126A0A3P6BE17_BRACM; Uncharacterized protein
STRINGBra013460.1-P6e-95(Brassica rapa)
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
AT4G20380.74e-81LSD 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]