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 PGSC0003DMP400051770
Common NameLOC102593239
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family LSD
Protein Properties Length: 143aa    MW: 15755.3 Da    PI: 9.2137
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400051770genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD145.51.3e-145377125
               zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                          CggCr lLsYP GA++V+C++C+tV
  PGSC0003DMP400051770 53 CGGCRQLLSYPQGAKLVKCSCCQTV 77
                          ************************9 PP

2zf-LSD146.36.8e-1591115125
               zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                           CggC +lL+YP+GApsVRC++C ++
  PGSC0003DMP400051770  91 CGGCAVLLMYPYGAPSVRCSSCRHM 115
                           **********************996 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.2E-175080IPR005735Zinc finger, LSD1-type
PfamPF069433.3E-125377IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.5E-1088116IPR005735Zinc finger, LSD1-type
PfamPF069432.1E-1291114IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009617Biological Processresponse to bacterium
Sequence ? help Back to Top
Protein Sequence    Length: 143 aa     Download sequence    Send to blast
MEMGRKQEGT KNEEERPQIE KQPMSHLLQM KPIVPQASSH AATVSSEMGQ MVCGGCRQLL  60
SYPQGAKLVK CSCCQTVNLV LEAHEVGQVK CGGCAVLLMY PYGAPSVRCS SCRHMTKIGA  120
HNRRPPQSVQ QPRRRHPSYQ VH*
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
PlantRegMapPGSC0003DMP400051770
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754413e-66HG975441.1 Solanum pennellii chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006347044.11e-100PREDICTED: uncharacterized protein LOC102593239 isoform X4
SwissprotO654267e-36LOL2_ARATH; Protein LOL2
TrEMBLM1CWQ86e-99M1CWQ8_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000764221e-99(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21610.19e-34lsd one like 2
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]