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 Tp57577_TGAC_v2_mRNA6487
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; Trifolieae; Trifolium
Family LSD
Protein Properties Length: 177aa    MW: 18586.5 Da    PI: 8.5461
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA6487genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD141.81.8e-13731125
                   zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                              C+gCr +L YPrGA++V+CalC+t+
  Tp57577_TGAC_v2_mRNA6487  7 CNGCRSMLLYPRGATNVCCALCNTI 31
                              ***********************97 PP

2zf-LSD149.76.1e-164670125
                   zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                              CggCrtlL+Y+rGA+sVRC++C+tV
  Tp57577_TGAC_v2_mRNA6487 46 CGGCRTLLMYTRGATSVRCSCCHTV 70
                              ************************9 PP

3zf-LSD147.52.9e-1584107124
                   zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdt 24 
                               Cg+Crt+L+YP+GApsV+Ca+C+ 
  Tp57577_TGAC_v2_mRNA6487  84 CGNCRTTLMYPYGAPSVKCAVCHY 107
                               **********************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.6E-13433IPR005735Zinc finger, LSD1-type
PfamPF069431.8E-11731IPR005735Zinc finger, LSD1-type
Gene3DG3DSA:3.90.10.107.9E-47111No hitNo description
TIGRFAMsTIGR010536.2E-174372IPR005735Zinc finger, LSD1-type
PfamPF069432.6E-134670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.1E-1281110IPR005735Zinc finger, LSD1-type
PfamPF069432.3E-1484108IPR005735Zinc 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
MQSQIVCNGC RSMLLYPRGA TNVCCALCNT ITPVPPPGMD MAQLYCGGCR TLLMYTRGAT  60
SVRCSCCHTV NLAPASNQVA HVPCGNCRTT LMYPYGAPSV KCAVCHYITN INMSNGRLPI  120
PGQRPNGTTN SGTMPSTSTS MPQSQSQTVV VENPMSVDSS 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA6487
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
GenBankBT1410680.0BT141068.1 Medicago truncatula clone JCVI-FLMt-7B6 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024629307.11e-117protein LSD1
SwissprotP940771e-75LSD1_ARATH; Protein LSD1
TrEMBLA0A2K3MUM51e-123A0A2K3MUM5_TRIPR; Protein LSD1-like (Fragment)
STRINGAET044891e-117(Medicago truncatula)
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
AT4G20380.72e-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]