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 AHYPO_007122-RA
Organism
Amaranthus hypochondriacus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Amaranthaceae; Amaranthus
Family LSD
Protein Properties Length: 177aa    MW: 18550.4 Da    PI: 8.2798
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AHYPO_007122-RAgenomeBYUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD154.32.2e-17731125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     C+gCrt+L+YPrGAp+VRCalC+tV
  AHYPO_007122-RA  7 CSGCRTILMYPRGAPNVRCALCNTV 31
                     ************************9 PP
2zf-LSD132.11.9e-104670125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     Cg C+tlL+Y rGA+sVRC +C+tV
  AHYPO_007122-RA 46 CGCCHTLLMYSRGATSVRCLCCQTV 70
                     9***********************9 PP
3zf-LSD144.52.5e-1487110124
          zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdt 24 
                      Cg+C+ +L+YP+GApsV+Ca+C+ 
  AHYPO_007122-RA  87 CGNCQMTLMYPFGAPSVKCAVCHY 110
                      **********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010534.9E-17432IPR005735Zinc finger, LSD1-type
PfamPF069435.6E-15731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.4E-124372IPR005735Zinc finger, LSD1-type
PfamPF069431.8E-94670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.6E-985113IPR005735Zinc finger, LSD1-type
PfamPF069433.5E-1387111IPR005735Zinc 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: 177 aa     Download sequence    Send to blast
MQSQLVCSGC RTILMYPRGA PNVRCALCNT VTPAQSTGLE MDQIICGCCH TLLMYSRGAT  60
SVRCLCCQTV NLTNATPVSS QYSTVRCGNC QMTLMYPFGA PSVKCAVCHY ITNVGTTNGS  120
VSSSLHRQNG VSTSSSPTAC VPVSQTQTVV VENPMSFDGS GKLVSNVVVG VTTDKK*
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021737721.11e-99protein LSD1-like
SwissprotP940771e-61LSD1_ARATH; Protein LSD1
TrEMBLA0A0K9RQL79e-96A0A0K9RQL7_SPIOL; Uncharacterized protein
STRINGXP_010687113.11e-97(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.76e-64LSD 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]