PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Glyma.08G129400.1.p
Common NameGLYMA_08G129400, LOC100527656
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family LSD
Protein Properties Length: 178aa    MW: 18723.6 Da    PI: 8.551
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.08G129400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD1437.6e-14731125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         C+gCr lL YPrGA++V+CalC+t+
  Glyma.08G129400.1.p  7 CNGCRSLLLYPRGATNVCCALCNTI 31
                         ***********************97 PP

2zf-LSD149.66.2e-164670125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         CggCrtlL+Y+rGA+sVRC++C+tV
  Glyma.08G129400.1.p 46 CGGCRTLLMYTRGATSVRCSCCHTV 70
                         ************************9 PP

3zf-LSD151.61.5e-1685109125
              zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                          Cg+Crt+L+YP+GApsV+CalC+++
  Glyma.08G129400.1.p  85 CGNCRTTLMYPYGAPSVKCALCHFI 109
                          ***********************86 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.90.10.104.3E-44114No hitNo description
TIGRFAMsTIGR010534.7E-13434IPR005735Zinc finger, LSD1-type
PfamPF069438.6E-12731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.2E-174373IPR005735Zinc finger, LSD1-type
PfamPF069432.7E-134670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.2E-1282111IPR005735Zinc finger, LSD1-type
PfamPF069436.8E-1585109IPR005735Zinc 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: 178 aa     Download sequence    Send to blast
MQSQVVCNGC RSLLLYPRGA TNVCCALCNT ITSVPPPGME MSQLYCGGCR TLLMYTRGAT  60
SVRCSCCHTV NLVPPASNQV AHVHCGNCRT TLMYPYGAPS VKCALCHFIT NVSTNNGRLP  120
IPVHRPNGTN NAGTLPSTST SMPQSQSQTV VVENPMSVDS SGKLVSNVVV GVTTDKK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.556780.0cotyledon| leaf
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
PlantRegMapGlyma.08G129400.1.p
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
GenBankBT0925160.0BT092516.1 Soybean clone JCVI-FLGm-11K5 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006584536.11e-125uncharacterized protein LOC100527656 isoform X1
RefseqXP_028243688.11e-125protein LSD1-like isoform X1
SwissprotP940775e-74LSD1_ARATH; Protein LSD1
TrEMBLA0A0R4J3W91e-123A0A0R4J3W9_SOYBN; Uncharacterized protein
STRINGGLYMA08G13630.11e-124(Glycine max)
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
AT4G20380.76e-73LSD 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]