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 676713186
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family LSD
Protein Properties Length: 219aa    MW: 23906.7 Da    PI: 9.0441
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676713186genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD149.19.1e-163357125
    zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
               C+gCr++L YPrGA++VRCalC+t+
  676713186 33 CHGCRNTLLYPRGATNVRCALCNTI 57
               ***********************97 PP
2zf-LSD147.62.6e-1586110125
    zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                CggCrt+L+Y+rGA+sVRC++C+tV
  676713186  86 CGGCRTMLMYTRGASSVRCSCCQTV 110
                ************************9 PP
3zf-LSD1504.7e-16127151125
    zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                Cg+Crt+L+YP+GA+sV+Ca+C++V
  676713186 127 CGNCRTTLMYPYGASSVKCAICQFV 151
                ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010533.6E-173060IPR005735Zinc finger, LSD1-type
PfamPF069439.3E-133357IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010539.2E-1983113IPR005735Zinc finger, LSD1-type
PfamPF069431.1E-1286110IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.7E-14124154IPR005735Zinc finger, LSD1-type
PfamPF069432.2E-14127151IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 219 aa     Download sequence    Send to blast
MDAEVFGFEL GLGFRCKASS FVFLRRNQDQ LVCHGCRNTL LYPRGATNVR CALCNTINMV  60
PLHPHTPPPP PHHHAHAGMD MAHIVCGGCR TMLMYTRGAS SVRCSCCQTV NLVPGPPPSN  120
QVAHVNCGNC RTTLMYPYGA SSVKCAICQF VTNVNMGNGR VPLAGNRPNG TASPGTMPST  180
STILMELVLT YSVYRFFLYP AVNTTVSDTN RRCRKPNVR
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
PlantRegMap676713186
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-160AF453322.1 Brassica oleracea zinc finger protein LSD1 (LSD1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013635811.11e-89PREDICTED: protein LSD1 isoform X3
SwissprotP940771e-69LSD1_ARATH; Protein LSD1
TrEMBLA0A3P6FIX02e-88A0A3P6FIX0_BRAOL; Uncharacterized protein
STRINGBra013460.1-P4e-88(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
AT4G20380.71e-72LSD 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]