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 Carubv10010527m
Common NameCARUB_v10010527mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family LSD
Protein Properties Length: 158aa    MW: 16196.9 Da    PI: 7.9227
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10010527mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD146.36.7e-153862125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     C+gCr+lL+YP+GA+sV+Ca+C++V
  Carubv10010527m 38 CSGCRNLLMYPAGATSVCCAVCNAV 62
                     ************************9 PP
2zf-LSD146.65.5e-1577101125
          zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                      CggC+tlL+Y rGA+sV+C++C+tV
  Carubv10010527m  77 CGGCHTLLMYIRGATSVQCSCCHTV 101
                      ************************9 PP
3zf-LSD141.71.9e-13115139125
          zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                      Cg+Cr lL+Y +GA+sV+Ca+C++V
  Carubv10010527m 115 CGNCRMLLMYQYGARSVKCAVCNFV 139
                      ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010533.1E-143565IPR005735Zinc finger, LSD1-type
PfamPF069436.0E-123862IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.0E-1474103IPR005735Zinc finger, LSD1-type
PfamPF069431.5E-1277101IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.5E-12112142IPR005735Zinc finger, LSD1-type
PfamPF069431.2E-12115139IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009814Biological Processdefense response, incompatible interaction
GO:0034051Biological Processnegative regulation of plant-type hypersensitive response
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:0045595Biological Processregulation of cell differentiation
GO:2000121Biological Processregulation of removal of superoxide radicals
Sequence ? help Back to Top
Protein Sequence    Length: 158 aa     Download sequence    Send to blast
MPVPLAPYPT PPAPVMAPPY APPPTHGGST SGQSQLVCSG CRNLLMYPAG ATSVCCAVCN  60
AVTAVPPPGT EMAQLVCGGC HTLLMYIRGA TSVQCSCCHT VNLALEANQV AHVNCGNCRM  120
LLMYQYGARS VKCAVCNFVT SVIGGSSSTT PDVKFNN*
Functional Description ? help Back to Top
Source Description
UniProtPositive regulator of reactive oxygen-induced cell death. May be involved in the repression 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. {ECO:0000269|PubMed:12732715}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10010527m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0576751e-138AY057675.1 Arabidopsis thaliana At1g32540/T9G5_1 mRNA, complete cds.
GenBankAY1169511e-138AY116951.1 Arabidopsis thaliana At1g32540/T9G5_1 mRNA, complete cds.
GenBankAY3496181e-138AY349618.1 Arabidopsis thaliana LSD1-like (LOL1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023633227.11e-109protein LOL1 isoform X1
SwissprotQ93ZB11e-82LOL1_ARATH; Protein LOL1
TrEMBLR0IDJ31e-108R0IDJ3_9BRAS; Uncharacterized protein
STRINGXP_006303377.11e-108(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72932643
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32540.34e-63lsd one like 1
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]