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 Sopim02g069720.0.1
Organism
Solanum pimpinellifolium
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family LSD
Protein Properties Length: 163aa    MW: 16795.4 Da    PI: 8.3793
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopim02g069720.0.1genomeCSHLView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD126.11.4e-08118724
             zf-LSD1  7 lLsYPrGApsVRCalCdt 24
                        +L YPrGA++V+Ca+C++
  Sopim02g069720.0.1  1 MLLYPRGASNVCCAVCNA 18
                        699*************97 PP
2zf-LSD145.41.3e-143458125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        CggCrtlL+ PrGA sVRC++C+tV
  Sopim02g069720.0.1 34 CGGCRTLLMHPRGANSVRCSCCHTV 58
                        ************************9 PP
3zf-LSD139.31.1e-127295124
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdt 24
                        Cg+Cr +L+YP GApsV+Ca+C+ 
  Sopim02g069720.0.1 72 CGNCRMMLMYPCGAPSVKCAVCHY 95
                        **********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010538.4E-7120IPR005735Zinc finger, LSD1-type
PfamPF069436.1E-7118IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.2E-173161IPR005735Zinc finger, LSD1-type
PfamPF069437.1E-133458IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.2E-116998IPR005735Zinc finger, LSD1-type
PfamPF069432.7E-127296IPR005735Zinc 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: 163 aa     Download sequence    Send to blast
MLLYPRGASN VCCAVCNALT PVPPPGMEMA QLICGGCRTL LMHPRGANSV RCSCCHTVNL  60
VPGPNQFAHV YCGNCRMMLM YPCGAPSVKC AVCHYITNVN AGDGRAHAPL NPPNGTATTA  120
SGSSSTAKAR SQNQTVVVQN PMSVDESGKL VSNVVVGVTT TS*
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0132980.0BT013298.1 Lycopersicon esculentum clone 134929F, mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010316974.11e-114protein LSD1
RefseqXP_010316975.11e-114protein LSD1
RefseqXP_025885110.11e-114protein LSD1
SwissprotQ6ASS28e-59LOL3_ORYSJ; Protein LOL3
TrEMBLA0A3Q7F2271e-112A0A3Q7F227_SOLLC; Uncharacterized protein
STRINGSolyc02g069720.2.11e-113(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA16792467
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.71e-48LSD family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]