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 Potri.011G154800.1
Common NamePOPTR_0011s15810g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family LSD
Protein Properties Length: 180aa    MW: 18898 Da    PI: 8.4381
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.011G154800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD1361.1e-11731125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C gCr lL YP GA++V+CalC tV
  Potri.011G154800.1  7 CRGCRSLLLYPSGATNVCCALCSTV 31
                        9**********************99 PP
2zf-LSD1391.4e-124670125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C gCrtlL+Y rGA+ VRC++C+ V
  Potri.011G154800.1 46 CRGCRTLLMYARGATTVRCSCCHIV 70
                        9**********************98 PP
3zf-LSD144.42.8e-1485109125
             zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                         Cg+C+t+L+YP GApsV+Ca+C+ V
  Potri.011G154800.1  85 CGNCQTTLMYPNGAPSVKCAVCHYV 109
                         **********************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.4E-11434IPR005735Zinc finger, LSD1-type
PfamPF069431.4E-9731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010537.5E-144371IPR005735Zinc finger, LSD1-type
PfamPF069437.6E-114670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.2E-1182111IPR005735Zinc finger, LSD1-type
PfamPF069432.0E-1385109IPR005735Zinc 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: 180 aa     Download sequence    Send to blast
MQSQVVCRGC RSLLLYPSGA TNVCCALCST VTSIPAPGMD LAQLICRGCR TLLMYARGAT  60
TVRCSCCHIV NFAPVGPNQV AHVNCGNCQT TLMYPNGAPS VKCAVCHYVT NISTANVRVP  120
LPANRPSGIG GTMPSTSTVS NWTYFSFLTQ TVVVENPMSV DESGKLVSNV VVGVTTEKK*
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
PlantRegMapPotri.011G154800.1
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
GenBankAC1826849e-36AC182684.2 Populus trichocarpa clone Pop1-37C15, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024467407.11e-115uncharacterized protein LOC7455048
SwissprotP940773e-66LSD1_ARATH; Protein LSD1
TrEMBLA0A2K1YKU71e-112A0A2K1YKU7_POPTR; Uncharacterized protein
STRINGPOPTR_0011s15810.11e-127(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40273361
Representative plantOGRP11461753
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.71e-68LSD 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]