Detailed view for PF3D7_1343000

Basic information

TDR Targets ID: 125
Plasmodium falciparum, phosphoethanolamine N-methyltransferase
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.2833 | Length (AA): 266 | MW (Da): 31043 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF13649   Methyltransferase domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006656   phosphatidylcholine biosynthetic process  
GO:0000234   phosphoethanolamine N-methyltransferase activity  
GO:0008168   methyltransferase activity  
GO:0008152   metabolic process  

Metabolic Pathways

Glycerophospholipid metabolism (KEGG)

Structural information

Modbase 3D models:

There are 4 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
7 265 1tpy (A) 3 287 16.00 0 1 1.09 -0.85
10 261 1kpg (A) 6 278 18.00 0 1 1.16 -0.61
47 186 1o54 (A) 92 228 16.00 0.000016 0.9 0.76 -0.88
9 266 3ujc (A) 9 266 99.99 0 1 2.28672 -2.23

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

PDB tag
  • 3UJ6:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJ7:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJ8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJ9:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJA:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJB:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJC:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3UJD:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4FGZ:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4R6W:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4R6X:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Female Gametocyte. Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte, Male Gametocyte. PlasmoDB Lasonder E
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_132295)

Species Accession Gene Product
Arabidopsis thaliana AT3G18000   phosphoethanolamine N-methyltransferase 1
Arabidopsis thaliana AT1G73600   putative phosphoethanolamine N-methyltransferase 3
Arabidopsis thaliana AT1G48600   phosphoethanolamine N-methyltransferase 2
Caenorhabditis elegans CELE_F54D11.1   Protein PMT-2
Dictyostelium discoideum DDB_G0275359   hypothetical protein
Mycobacterium tuberculosis Rv0469   Possible mycolic acid synthase UmaA
Mycobacterium tuberculosis Rv2622   Possible methyltransferase (methylase)
Mycobacterium ulcerans MUL_3266   methyltransferase
Mycobacterium ulcerans MUL_4538   mycolic acid synthase UmaA
Oryza sativa 4339516   Os05g0548900
Plasmodium falciparum PF3D7_1343000   phosphoethanolamine N-methyltransferase
Plasmodium knowlesi PKNH_1258400   phosphoethanolamine N-methyltransferase
Plasmodium vivax PVX_083045   phosphoethanolamine N-methyltransferase

Essentiality

PF3D7_1343000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu2668 Mycobacterium tuberculosis non-essential nmpdr
mtu473 Mycobacterium tuberculosis non-essential nmpdr
CELE_F54D11.1 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
growth (GO:0040007) lethal (sensu genetics) (PATO:0000718) multi-cellular organism (CARO:0000012) bloodstream stage (PLO:0040) in vivo inhibition (TDR:00016) Plasmodium falciparum 24077  
Annotator: saralph@unimelb.edu.au. Comment: 012/Mar/09. References: 15073329 15664981

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

Compound Source Reference
Curated by TDRTargets References

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0169 0.2705 1
0.0161 0.9347 1
0.0173 0.9349 1
0.0142 0.4019 1
0.0148 0.5725 1

Assayability

Assay information

  • ChEMBL
  • Inhibition of Plasmodium falciparum phosphoethanolamine methyltransferase using phospethanolamine as substrate by radiochemical assay in presence of S-adenosylmethionine
  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Plasmodium falciparum ( 1 )

Reagent availability

  • Pfal004286AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pfal004286; Recombinant protein: full-length; Source: P falciparum; Phosphoethanolamine N-methyltransferase ;
  • Reagent:
  • Target Type Source Notes
    PF3D7_1343000 cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Plasmodium falciparum ( 2 )

Bibliographic References

2 literature references were collected for this gene.

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Gene identifier PF3D7_1343000 (Plasmodium falciparum), phosphoethanolamine N-methyltransferase
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