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 Spipo5G0038000
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family LSD
Protein Properties Length: 148aa    MW: 15478.1 Da    PI: 8.0757
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo5G0038000genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD135.81.3e-11731125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    C gCr+lL YPrG+ +V+Ca+C t+
  Spipo5G0038000  7 CAGCRNLLLYPRGSANVCCAVCSTI 31
                    **********************997 PP
2zf-LSD143.84.1e-144670125
         zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                    CggCrt+L+Y rGA +VRCa+C+t+
  Spipo5G0038000 46 CGGCRTPLMYARGAANVRCACCNTI 70
                    ***********************97 PP
3zf-LSD142.21.3e-1386110125
         zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                     Cg C+t+L YP+GApsV+Ca+C++V
  Spipo5G0038000  86 CGRCHTTLVYPYGAPSVKCAVCHFV 110
                     ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.2E-11433IPR005735Zinc finger, LSD1-type
PfamPF069431.8E-9731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.4E-174372IPR005735Zinc finger, LSD1-type
PfamPF069431.7E-124670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010535.1E-1083111IPR005735Zinc finger, LSD1-type
PfamPF069438.3E-1386110IPR005735Zinc 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: 148 aa     Download sequence    Send to blast
MQSQLVCAGC RNLLLYPRGS ANVCCAVCST ITPVPTPGME MAQLVCGGCR TPLMYARGAA  60
NVRCACCNTI NLARAETPNQ MAHVNCGRCH TTLVYPYGAP SVKCAVCHFV TDVAAHGQTV  120
VVENPMSVDE TGKLVSNVVV GVTTEKK*
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_008804686.11e-73protein LSD1-like
RefseqXP_008804687.11e-73protein LSD1-like
SwissprotQ2QMB31e-58LOL2_ORYSJ; Protein LOL2
TrEMBLA0A200QBG73e-74A0A200QBG7_9MAGN; Zinc finger protein
STRINGXP_008804686.15e-73(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP134738124
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.71e-57LSD 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]