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.011G154800.5
Common NamePOPTR_0011s15810g
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: 164aa    MW: 17314.1 Da    PI: 8.5444
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.011G154800.5genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD136.29.7e-12731125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C gCr lL YP GA++V+CalC tV
  Potri.011G154800.5  7 CRGCRSLLLYPSGATNVCCALCSTV 31
                        9**********************99 PP
2zf-LSD139.21.2e-124670125
             zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                        C gCrtlL+Y rGA+ VRC++C+ V
  Potri.011G154800.5 46 CRGCRTLLMYARGATTVRCSCCHIV 70
                        9**********************98 PP
3zf-LSD144.62.4e-1484108125
             zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                         Cg+C+t+L+YP GApsV+Ca+C+ V
  Potri.011G154800.5  84 CGNCQTTLMYPNGAPSVKCAVCHYV 108
                         **********************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.2E-11434IPR005735Zinc finger, LSD1-type
PfamPF069431.3E-9731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.4E-144371IPR005735Zinc finger, LSD1-type
PfamPF069436.7E-114670IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.0E-1181110IPR005735Zinc finger, LSD1-type
PfamPF069431.8E-1384108IPR005735Zinc 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: 164 aa     Download sequence    Send to blast
MQSQVVCRGC RSLLLYPSGA TNVCCALCST VTSIPAPGMD LAQLICRGCR TLLMYARGAT  60
TVRCSCCHIV NFAPGPNQVA HVNCGNCQTT LMYPNGAPSV KCAVCHYVTN ISTANVRVPL  120
PANRPSGIGG TMPSTSTVSN WTYFSFLVEN ATKNLGYFVS NAY*
Functional Description ? help Back to Top
Source Description
UniProtNegative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269|PubMed:15915636}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.011G154800.5
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. Down-regulated by dark. {ECO:0000269|PubMed:15915636}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1826842e-36AC182684.2 Populus trichocarpa clone Pop1-37C15, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024467407.15e-98uncharacterized protein LOC7455048
SwissprotQ0J7V92e-51LSD1_ORYSJ; Protein LSD1
TrEMBLA0A2K1YKU73e-95A0A2K1YKU7_POPTR; Uncharacterized protein
STRINGPOPTR_0011s15810.11e-102(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.72e-52LSD 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]