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 Sopen02g018840.1
Organism
Solanum pennellii
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: 174aa    MW: 18118 Da    PI: 8.394
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen02g018840.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD138.32.1e-12730124
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdt 24
                      C+gCrt+L YPrGA++V+Ca+C++
  Sopen02g018840.1  7 CSGCRTMLLYPRGASNVCCAVCNA 30
                      **********************97 PP
2zf-LSD145.21.5e-144670125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      CggCrtlL+ PrGA sVRC++C+tV
  Sopen02g018840.1 46 CGGCRTLLMHPRGANSVRCSCCHTV 70
                      ************************9 PP
3zf-LSD139.11.2e-1284107124
           zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdt 24 
                       Cg+Cr +L+YP GApsV+Ca+C+ 
  Sopen02g018840.1  84 CGNCRMMLMYPCGAPSVKCAVCHY 107
                       **********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010534.2E-13432IPR005735Zinc finger, LSD1-type
PfamPF069435.4E-11730IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.8E-174373IPR005735Zinc finger, LSD1-type
PfamPF069437.9E-134670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.5E-1181110IPR005735Zinc finger, LSD1-type
PfamPF069433.0E-1284108IPR005735Zinc 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: 174 aa     Download sequence    Send to blast
MQSQLMCSGC RTMLLYPRGA SNVCCAVCNA LTPVPPPGME MAQLICGGCR TLLMHPRGAN  60
SVRCSCCHTV NLVPGPNQFA HVYCGNCRMM LMYPCGAPSV KCAVCHYITN VNAGDGRAHA  120
PLNPPNGTAT PASGSSSTAK ARSQNQTVVV QNPMSVDESG KLVSNVVVGV TTTS
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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_015065909.11e-123protein LSD1
RefseqXP_015065910.11e-123protein LSD1
RefseqXP_015065911.11e-123protein LSD1
SwissprotQ6ASS22e-65LOL3_ORYSJ; Protein LOL3
TrEMBLA0A0V0I1E01e-121A0A0V0I1E0_SOLCH; Putative ovule protein (Fragment)
TrEMBLA0A3Q7F2271e-121A0A3Q7F227_SOLLC; Uncharacterized protein
STRINGPGSC0003DMT4000546161e-121(Solanum tuberosum)
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
AT4G20380.75e-56LSD 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]