PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSVIVT01037958001
Common NameVIT_10s0092g00230
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family LSD
Protein Properties Length: 260aa    MW: 28409.1 Da    PI: 9.0098
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01037958001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD138.32.1e-1295119125
            zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                        C+gCr +L YPrGA++V+CalC+ V
  GSVIVT01037958001  95 CNGCRSILVYPRGATNVCCALCNSV 119
                        ***********************98 PP

2zf-LSD148.91.1e-15134158125
            zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                        CggCrtlL+Y+rGA+sVRC++C+tV
  GSVIVT01037958001 134 CGGCRTLLMYTRGATSVRCSCCHTV 158
                        ************************9 PP

3zf-LSD146.65.6e-15173197125
            zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                        Cg+Crt+L+YP+GApsV+Ca+C+ V
  GSVIVT01037958001 173 CGNCRTTLMYPYGAPSVKCAVCHYV 197
                        **********************987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.7E-1092122IPR005735Zinc finger, LSD1-type
SuperFamilySSF486959.21E-595196IPR011031Multihaem cytochrome
PfamPF069431.8E-1095119IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.3E-17131160IPR005735Zinc finger, LSD1-type
PfamPF069434.5E-13134158IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.6E-12170200IPR005735Zinc finger, LSD1-type
PfamPF069435.3E-14173197IPR005735Zinc 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
GO:0016021Cellular Componentintegral component of membrane
Sequence ? help Back to Top
Protein Sequence    Length: 260 aa     Download sequence    Send to blast
MLFKCIYNFY LKILVHFDTK YFYLTILIIS FMILYLNFNA QYPFLNLQFS KSDSTKSTTF  60
SHRIFAFNSS PFPFNCSSSE RKFSYQSAMQ SHLMCNGCRS ILVYPRGATN VCCALCNSVT  120
SVPPPGLEMA QLICGGCRTL LMYTRGATSV RCSCCHTVNL APAPSNQVAH VNCGNCRTTL  180
MYPYGAPSVK CAVCHYVTSV GMVNVRVPIP VHRPNAAAIS ASTPSTSSSQ TVVVKNPMSV  240
DESGKLVSNV VVGVTTEKK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Vvi.290160.0leaf
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}.
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
GenBankFQ3979680.0FQ397968.1 Vitis vinifera clone SS0AEB5YC04.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010655864.11e-120PREDICTED: protein LSD1
SwissprotP940773e-72LSD1_ARATH; Protein LSD1
TrEMBLD7U8E80.0D7U8E8_VITVI; Uncharacterized protein
STRINGVIT_10s0092g00230.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP11461753
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.72e-69LSD 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]