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 Rsa1.0_01282.1_g00009.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family LSD
Protein Properties Length: 189aa    MW: 20124.1 Da    PI: 8.5038
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01282.1_g00009.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD148.51.4e-15731125
                  zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                             C+gCr++L YPrGA++VRCalC+t+
  Rsa1.0_01282.1_g00009.1  7 CHGCRNTLVYPRGATNVRCALCNTI 31
                             ***********************97 PP
2zf-LSD147.52.9e-155478125
                  zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                             CggCrt+L+Y+rGA sVRC++C+tV
  Rsa1.0_01282.1_g00009.1 54 CGGCRTMLMYTRGANSVRCSCCQTV 78
                             ************************9 PP
3zf-LSD152.11e-1695119125
                  zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                              Cg+Crt+L+YP+GApsVRCa+C++V
  Rsa1.0_01282.1_g00009.1  95 CGNCRTTLMYPYGAPSVRCAVCQFV 119
                              ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.3E-17434IPR005735Zinc finger, LSD1-type
PfamPF069437.9E-13731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.9E-185181IPR005735Zinc finger, LSD1-type
PfamPF069431.4E-125478IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.2E-1292122IPR005735Zinc finger, LSD1-type
PfamPF069431.2E-1495119IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 189 aa     Download sequence    Send to blast
MQDQLVCHGC RNTLVYPRGA TNVRCALCNT INMVPHHPPP PHHHHGMDMA HIVCGGCRTM  60
LMYTRGANSV RCSCCQTVNL VPATPPTNQP AHISCGNCRT TLMYPYGAPS VRCAVCQFVT  120
NVNMGNGRVP FPTNLPNGTA ASPGSIPSTS TQSTPPSQTQ TVVVENPMSV NESGKLVSNV  180
VVGVTTEKK
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
PlantRegMapRsa1.0_01282.1_g00009.1
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
GenBankAF4533230.0AF453323.1 Brassica oleracea zinc finger protein LSD2 (LSD2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013598154.11e-118PREDICTED: protein LSD1-like isoform X5
SwissprotP940774e-85LSD1_ARATH; Protein LSD1
TrEMBLA0A0D3DF641e-115A0A0D3DF64_BRAOL; Uncharacterized protein
STRINGBo7g107120.11e-116(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
AT4G20380.74e-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]