PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm_27.model.AmTr_v1.0_scaffold00092.107
Common NameAMTR_s00092p00140740, LOC18427282
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family LSD
Protein Properties Length: 176aa    MW: 18481.6 Da    PI: 8.4354
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00092.107genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD140.54.4e-13731125
                                   zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                                              C+gCr +L YPrGA++V+Ca+C+t+
  evm_27.model.AmTr_v1.0_scaffold00092.107  7 CSGCRSTLLYPRGATNVCCAVCNTI 31
                                              ***********************97 PP
2zf-LSD147.72.5e-154670125
                                   zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                                              CggCr+lL+Y+rGA+sVRC++C+t+
  evm_27.model.AmTr_v1.0_scaffold00092.107 46 CGGCRKLLMYTRGASSVRCSCCHTI 70
                                              ***********************97 PP
3zf-LSD142.11.4e-1384108125
                                   zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                                               Cg C+++L+YP+G+psV+Ca+C+ V
  evm_27.model.AmTr_v1.0_scaffold00092.107  84 CGRCHVTLMYPYGSPSVKCAVCQYV 108
                                               ***********************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010535.0E-12432IPR005735Zinc finger, LSD1-type
SuperFamilySSF486951.47E-5789IPR011031Multihaem cytochrome
PfamPF069432.1E-11731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010539.1E-174372IPR005735Zinc finger, LSD1-type
PfamPF069437.1E-134670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.5E-881111IPR005735Zinc finger, LSD1-type
PfamPF069433.8E-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: 176 aa     Download sequence    Send to blast
MQSQLVCSGC RSTLLYPRGA TNVCCAVCNT ITPAPPPGME MAQLICGGCR KLLMYTRGAS  60
SVRCSCCHTI NIAREAYPVA HVSCGRCHVT LMYPYGSPSV KCAVCQYVTN VGMSNMQVPM  120
PVNGPNGYMP AHSPSTSTSM PHAPSQTVVV ENPMSMDDSG KLVSNIVVGV TTGKK*
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006836398.11e-124protein LSD1
RefseqXP_011620794.11e-124protein LSD1
RefseqXP_011620795.11e-124protein LSD1
RefseqXP_011620796.11e-124protein LSD1
SwissprotQ2QMB33e-68LOL2_ORYSJ; Protein LOL2
TrEMBLW1NQP41e-122W1NQP4_AMBTC; Uncharacterized protein
STRINGERM992511e-123(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP11461753
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.75e-66LSD 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]
  2. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  3. Wu J, et al.
    OsLOL1, a C2C2-type zinc finger protein, interacts with OsbZIP58 to promote seed germination through the modulation of gibberellin biosynthesis in Oryza sativa.
    Plant J., 2014. 80(6): p. 1118-30
    [PMID:25353370]