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_009133755.1
Organism
Brassica rapa
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: 193aa    MW: 20446.6 Da    PI: 8.6226
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009133755.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD1512.3e-16731125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    C+gCr++L+YPrGA++VRCalC+ V
  XP_009133755.1  7 CHGCRNTLMYPRGATNVRCALCHIV 31
                    ***********************98 PP
2zf-LSD147.92.2e-155983125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    CggCrt+L+Y+rGA+sVRC++C+tV
  XP_009133755.1 59 CGGCRTMLMYTRGASSVRCSCCQTV 83
                    ************************9 PP
3zf-LSD149.28.4e-16100124125
         zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                     Cg+Crt+L+YP+GA+sV+Ca+C++V
  XP_009133755.1 100 CGNCRTTLMYPYGASSVKCAVCQFV 124
                     ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010533.4E-17434IPR005735Zinc finger, LSD1-type
PfamPF069434.4E-13731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010537.6E-195686IPR005735Zinc finger, LSD1-type
PfamPF069439.3E-135983IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.3E-1497127IPR005735Zinc finger, LSD1-type
PfamPF069433.9E-14100124IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000303Biological Processresponse to superoxide
GO:0001666Biological Processresponse to hypoxia
GO:0002240Biological Processresponse to molecule of oomycetes origin
GO:0009626Biological Processplant-type hypersensitive response
GO:0009862Biological Processsystemic acquired resistance, salicylic acid mediated signaling pathway
GO:0010104Biological Processregulation of ethylene-activated signaling pathway
GO:0010310Biological Processregulation of hydrogen peroxide metabolic process
GO:0010602Biological Processregulation of 1-aminocyclopropane-1-carboxylate metabolic process
GO:0010618Biological Processaerenchyma formation
GO:0043069Biological Processnegative regulation of programmed cell death
Sequence ? help Back to Top
Protein Sequence    Length: 193 aa     Download sequence    Send to blast
MQDQLVCHGC RNTLMYPRGA TNVRCALCHI VNMVPLHPHP HPPPPHHAHA GMDMAHIVCG  60
GCRTMLMYTR GASSVRCSCC QTVNLVPGPP PSNQVAHINC GNCRTTLMYP YGASSVKCAV  120
CQFVTNVNMS NGRVPLASNR PNGTASPGTM PSTSTQSTPP SQTQTVVVEN PMSVNESGKL  180
VSNVVVGVTT GQK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.51090.0flower| leaf| root
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
PlantRegMapXP_009133755.1
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
GenBankAF4533220.0AF453322.1 Brassica oleracea zinc finger protein LSD1 (LSD1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009133755.11e-137PREDICTED: protein LSD1 isoform X1
SwissprotP940776e-87LSD1_ARATH; Protein LSD1
TrEMBLM4DAF01e-135M4DAF0_BRARP; Uncharacterized protein
STRINGBra013460.1-P1e-136(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
AT4G20380.72e-84LSD 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. 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]
  3. 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]
  4. 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]