PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID PGSC0003DMP400051772
Common NameLOC102593239
Organism
Solanum tuberosum
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: 389aa    MW: 42262.1 Da    PI: 4.4039
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400051772genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD143.55e-14299323125
               zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                           CggCr lLsYP GA++V+C++C+tV
  PGSC0003DMP400051772 299 CGGCRQLLSYPQGAKLVKCSCCQTV 323
                           ************************9 PP
2zf-LSD144.42.7e-14337361125
               zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                           CggC +lL+YP+GApsVRC++C ++
  PGSC0003DMP400051772 337 CGGCAVLLMYPYGAPSVRCSSCRHM 361
                           **********************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010539.7E-17296326IPR005735Zinc finger, LSD1-type
PfamPF069431.3E-11299323IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.5E-10334362IPR005735Zinc finger, LSD1-type
PfamPF069438.5E-12337360IPR005735Zinc 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: 389 aa     Download sequence    Send to blast
MEEKLSNIEN QQVDDEEEDE GPPPGFDSLA VPSQNTNVVI DEDDDEGPPP GWSSIPQQHN  60
LQTTDVEMGG KEHKSEDDED GPPPGWNTVI PQKKLPSLPP TIEAVTCDID MEKKEEIIKN  120
EDNGPPPRWQ LTPKLLPLQT STPPSGTQGA SLEDIEMEKK EEAVEDEDNG PPPGWQLTPQ  180
LLPLQTSTSP SGIQGVPLAD VEMASNQDCD VEKEGHPLGL ESVPMNGHSS PPTPPPQSSS  240
SVASSEMEMG RKQEGTKNEE ERPQIEKQPM SHLLQMKPIV PQASSHAATV SSEMGQMVCG  300
GCRQLLSYPQ GAKLVKCSCC QTVNLVLEAH EVGQVKCGGC AVLLMYPYGA PSVRCSSCRH  360
MTKIGAHNRR PPQSVQQPRR RHPSYQVH*
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400051772
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2265139e-78AC226513.1 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02SLe0005F12, complete sequence.
GenBankHG9755149e-78HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006347045.10.0PREDICTED: uncharacterized protein LOC102593239 isoform X5
TrEMBLM1CWQ90.0M1CWQ9_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000764220.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21610.13e-31lsd 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]