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 Potri.001G442400.1
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family LSD
Protein Properties Length: 193aa    MW: 20506.8 Da    PI: 7.8664
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.001G442400.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD130.18.2e-102549125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C gC  +L YP GA++V+CalC tV
  Potri.001G442400.1 25 CRGCASVLLYPSGASNVCCALCSTV 49
                        9**********************99 PP
2zf-LSD138.51.9e-126488125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C gCr lL+YP GA+ VRC++C+ V
  Potri.001G442400.1 64 CRGCRSLLMYPHGATTVRCSCCHVV 88
                        9**********************98 PP
3zf-LSD138.91.4e-12102126125
             zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                         Cg+Crt L+YP G+psV+C++C+ V
  Potri.001G442400.1 102 CGNCRTALMYPNGSPSVKCPVCHYV 126
                         **********************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010534.2E-92252IPR005735Zinc finger, LSD1-type
PfamPF069431.1E-72549IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.3E-136190IPR005735Zinc finger, LSD1-type
PfamPF069432.0E-106488IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.1E-1199129IPR005735Zinc finger, LSD1-type
PfamPF069431.1E-11102126IPR005735Zinc 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: 193 aa     Download sequence    Send to blast
MGFLMFCCRE EEEDRQREMQ SQVVCRGCAS VLLYPSGASN VCCALCSTVT SIPSPGMDMA  60
QLICRGCRSL LMYPHGATTV RCSCCHVVNI APGYNQAAHV NCGNCRTALM YPNGSPSVKC  120
PVCHYVTNVS MANMRIPLPA NRPNGIGGTA PSTSMPLPHS QTQTVVVENP MSVDESGKLV  180
SNVVVGVTTE KK*
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.001G442400.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1826841e-87AC182684.2 Populus trichocarpa clone Pop1-37C15, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002300492.21e-139protein LOL2 isoform X1
SwissprotQ2QMB38e-67LOL2_ORYSJ; Protein LOL2
TrEMBLA0A2K2CD311e-137A0A2K2CD31_POPTR; Uncharacterized protein
STRINGPOPTR_0001s43300.11e-122(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40273361
Representative plantOGRP11461753
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.78e-65LSD 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]