PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID maker-scaffold01802-augustus-gene-0.20-mRNA-1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family LSD
Protein Properties Length: 174aa    MW: 18334.2 Da    PI: 8.3185
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
maker-scaffold01802-augustus-gene-0.20-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD139.49.9e-13731125
                                        zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                                                   C+gCr +L YP GA++V+CalC+tV
  maker-scaffold01802-augustus-gene-0.20-mRNA-1  7 CNGCRSVLLYPGGATNVCCALCNTV 31
                                                   ************************9 PP

2zf-LSD1382.7e-124468125
                                        zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                                                   C gCrtlL+Y+r A+sVRC++C tV
  maker-scaffold01802-augustus-gene-0.20-mRNA-1 44 CAGCRTLLMYTRAATSVRCSCCSTV 68
                                                   ***********************99 PP

3zf-LSD146.75e-1582106125
                                        zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                                                    Cg+Crt+L+YP+GApsV+Ca+C+ V
  maker-scaffold01802-augustus-gene-0.20-mRNA-1  82 CGSCRTMLMYPYGAPSVKCAVCHYV 106
                                                    **********************987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010533.2E-11433IPR005735Zinc finger, LSD1-type
PfamPF069437.8E-10731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.3E-144170IPR005735Zinc finger, LSD1-type
PfamPF069432.1E-94468IPR005735Zinc finger, LSD1-type
Gene3DG3DSA:3.30.40.108.0E-458109IPR013083Zinc finger, RING/FYVE/PHD-type
TIGRFAMsTIGR010535.3E-1579109IPR005735Zinc finger, LSD1-type
PfamPF069438.0E-1482106IPR005735Zinc 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
MQSQLVCNGC RSVLLYPGGA TNVCCALCNT VTPVPGTEMA QLVCAGCRTL LMYTRAATSV  60
RCSCCSTVNL APVPTQYAHV NCGSCRTMLM YPYGAPSVKC AVCHYVTNVG MANARLPIPM  120
HRPNGTAYSG TTPSTSTSTP YSQSQTVVVE NPMSFDESGK LVSNVVVGVT TDKK
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_023873228.11e-112protein LSD1
RefseqXP_023873229.11e-112protein LSD1
SwissprotQ2QMB32e-70LOL2_ORYSJ; Protein LOL2
TrEMBLA0A314Y6K15e-99A0A314Y6K1_PRUYE; Protein LSD1
STRINGXP_008225697.12e-99(Prunus mume)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40273361
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.78e-68LSD 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. 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]