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 GSBRNA2T00156882001
Common NameGSBRNA2T00156882001
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: 194aa    MW: 20504.6 Da    PI: 8.6192
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00156882001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD149.37.7e-16731125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         C+gCr++L YPrGA++VRCalC+t+
  GSBRNA2T00156882001  7 CHGCRNTLLYPRGATNVRCALCNTI 31
                         ***********************97 PP
2zf-LSD147.92.2e-155781125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         CggCrt+L+Y+rGA+sVRC++C+tV
  GSBRNA2T00156882001 57 CGGCRTMLMYTRGASSVRCSCCQTV 81
                         ************************9 PP
3zf-LSD152.11.1e-1698122125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+Crt+L+YP+GApsVRCa+C++V
  GSBRNA2T00156882001  98 CGNCRTTLMYPYGAPSVRCAVCQFV 122
                          ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.1E-16434IPR005735Zinc finger, LSD1-type
PfamPF069437.7E-13731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010537.6E-195484IPR005735Zinc finger, LSD1-type
PfamPF069439.3E-135781IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.3E-1395125IPR005735Zinc finger, LSD1-type
PfamPF069431.2E-1498122IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 194 aa     Download sequence    Send to blast
MQDQLMCHGC RNTLLYPRGA TNVRCALCNT INMVPLHPPP PPPHHAHAGM DMAHIVCGGC  60
RTMLMYTRGA SSVRCSCCQT VNLVPATPPT NQPAHVNCGN CRTTLMYPYG APSVRCAVCQ  120
FVTNVNMGNG RVPFPTNQPN GTASSPGPMP STSTQSTPPS QTQTVVVENP MSVNESGKLV  180
SNVVVGVTTD KKK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.184370.0root| 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
PlantRegMapGSBRNA2T00156882001
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_013598151.11e-135PREDICTED: protein LSD1-like isoform X2
SwissprotP940776e-87LSD1_ARATH; Protein LSD1
TrEMBLQ8W1941e-136Q8W194_BRAOL; Zinc finger protein LSD2
STRINGBo7g107120.11e-121(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
AT4G20380.71e-85LSD 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]