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 Thecc1EG026947t3
Common NameTCM_026947
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family LSD
Protein Properties Length: 149aa    MW: 15510 Da    PI: 8.3519
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG026947t3genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD140.93.4e-13731125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      C+gCr +L YPrGA +V+CalC+tV
  Thecc1EG026947t3  7 CSGCRSILLYPRGAANVCCALCNTV 31
                      ************************9 PP
2zf-LSD130.75.3e-104662117
           zf-LSD1  1 CggCrtlLsYPrGApsV 17
                      CggCrtlL+Y+rGA+s+
  Thecc1EG026947t3 46 CGGCRTLLMYTRGATSI 62
                      ***************96 PP
3zf-LSD148.21.7e-156791125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      Cg+Crt+L+YP+GApsV+Ca+C+ V
  Thecc1EG026947t3 67 CGHCRTTLMYPYGAPSVKCAVCQYV 91
                      ***********************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010538.0E-13434IPR005735Zinc finger, LSD1-type
PfamPF069434.1E-11731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.3E-104362IPR005735Zinc finger, LSD1-type
PfamPF069438.6E-84662IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010537.3E-136494IPR005735Zinc finger, LSD1-type
PfamPF069434.3E-146791IPR005735Zinc 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: 149 aa     Download sequence    Send to blast
MQSQLVCSGC RSILLYPRGA ANVCCALCNT VTQVPPPGND MAQLICGGCR TLLMYTRGAT  60
SIAHINCGHC RTTLMYPYGA PSVKCAVCQY VTNVGMGNVR VPLPVNRPNG VAATGTTPST  120
STSQTVVVEN PMSVDESGKL VTNVVVGVT
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_022714636.12e-93vacuolar protein sorting-associated protein 2 homolog 2-like
SwissprotP940771e-63LSD1_ARATH; Protein LSD1
TrEMBLA0A061G8T51e-101A0A061G8T5_THECC; LSD1 zinc finger family protein isoform 3 (Fragment)
STRINGEMJ133623e-84(Prunus persica)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.71e-62LSD 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. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  3. 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]
  4. 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]
  5. 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]