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 Vang0045ss00360.1
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; Vigna
Family LSD
Protein Properties Length: 238aa    MW: 25704.8 Da    PI: 8.578
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vang0045ss00360.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD142.41.2e-133761125
            zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                       C+gCr lL YPrGA++V+CalC+t+
  Vang0045ss00360.1 37 CNGCRSLLLYPRGATNVCCALCNTI 61
                       ***********************97 PP

2zf-LSD149.19.4e-1676100125
            zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                        CggCrtlL+Y+rGA+sVRC++C+tV
  Vang0045ss00360.1  76 CGGCRTLLMYTRGATSVRCSCCHTV 100
                        ************************9 PP

3zf-LSD144.82.1e-14174198125
            zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                        Cg+Crt L+YP+GApsV+Ca+C+ V
  Vang0045ss00360.1 174 CGNCRTALMYPYGAPSVKCAICHYV 198
                        **********************987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.4E-123464IPR005735Zinc finger, LSD1-type
Gene3DG3DSA:3.90.10.106.2E-43498No hitNo description
PfamPF069431.3E-113761IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.8E-1773103IPR005735Zinc finger, LSD1-type
PfamPF069434.0E-1376100IPR005735Zinc finger, LSD1-type
Gene3DG3DSA:3.90.10.106.2E-4153205No hitNo description
TIGRFAMsTIGR010533.7E-12171199IPR005735Zinc finger, LSD1-type
PfamPF069431.8E-13174198IPR005735Zinc 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: 238 aa     Download sequence    Send to blast
MRKYCHSGSG FLFYLQNKSV GILVELSVTP MQSQLVCNGC RSLLLYPRGA TNVCCALCNT  60
ITSVPPPGME MSQLYCGGCR TLLMYTRGAT SVRCSCCHTV NLVPVNGDLM KRFTVGLEGK  120
EYWWFLGKNG YGDFPWNLSI YGTGRFVAAT SFTEIAAVGW GLAKATNQVA HVHCGNCRTA  180
LMYPYGAPSV KCAICHYVTN SMPQSQSQTV VVENPMSVDS SGKLVSNVVV GVTTDKK*
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
PlantRegMapVang0045ss00360.1
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
GenBankBT0967073e-95BT096707.1 Soybean clone JCVI-FLGm-21G1 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025984159.13e-76uncharacterized protein LOC100776394 isoform X2
RefseqXP_028233007.13e-76protein LSD1-like isoform X2
SwissprotP940772e-53LSD1_ARATH; Protein LSD1
TrEMBLA0A151TKM22e-86A0A151TKM2_CAJCA; Uncharacterized protein
STRINGLus100080661e-67(Linum usitatissimum)
STRINGXP_004293683.11e-66(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40273361
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.86e-58LSD 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]