Detailed view for PF3D7_1401800

Basic information

TDR Targets ID: 2353
Plasmodium falciparum, choline kinase
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.1584 | Length (AA): 440 | MW (Da): 52207 | Paralog Number: 0

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

Druggability Group : DG3

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

PF01633   Choline/ethanolamine kinase

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0004103   choline kinase activity  
GO:0006629   lipid metabolic process  

Structural information

Modbase 3D models:

There are 3 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
49 434 1nw1 (A) 33 425 24.00 0 1 1.17 -1.23
68 433 1nw1 (A) 32 426 24.00 0 1 1.25 -1.38
79 432 3fi8 (A) 79 432 99.99 0 1 1.98825 -1.29

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
  • 3C5I:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3FI8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, sporozoite, early schizont, early trophozoite, late schizont, late trophozoite, Oocyst, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, gametocyte, merozoite, early ring, late ring, Ring, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Male Gametocyte. Lasonder E
Show/Hide expression data references
  • 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.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_127835)

Species Accession Gene Product
Arabidopsis thaliana AT1G71697   choline kinase 1
Arabidopsis thaliana AT4G09760   choline synthase
Arabidopsis thaliana AT1G74320   choline kinase
Brugia malayi Bm1_38730   Choline/ethanolamine kinase family protein
Candida albicans CaO19.6966   likely choline kinase similar to S. cerevisiae CKI1 (YLR133W)
Caenorhabditis elegans CELE_C52B9.1   Protein CKA-2, isoform B
Cryptosporidium hominis Chro.30240   choline kinase GmCK2p-like protein
Cryptosporidium parvum cgd3_2030   putative choline kinase
Drosophila melanogaster Dmel_CG2201   CG2201 gene product from transcript CG2201-RF
Echinococcus granulosus EgrG_001007100   choline:ethanolamine kinase
Echinococcus multilocularis EmuJ_001007100   choline:ethanolamine kinase
Homo sapiens ENSG00000110721   choline kinase alpha
Homo sapiens ENSG00000100288   choline kinase beta
Loa Loa (eye worm) LOAG_06124   choline/ethanolamine kinase
Mus musculus ENSMUSG00000024843   choline kinase alpha
Mus musculus ENSMUSG00000022617   choline kinase beta
Neospora caninum NCLIV_009640   choline kinase, putative
Oryza sativa 9268113   Os05g0535400
Oryza sativa 4325332   Os01g0183000
Oryza sativa 4325586   Os01g0717000
Plasmodium berghei PBANKA_1040100   choline kinase
Plasmodium falciparum PF3D7_1401800   choline kinase
Plasmodium knowlesi PKNH_1356300   choline kinase, putative
Plasmodium vivax PVX_086340   choline kinase, putative
Plasmodium yoelii PY00116   choline kinase GmCK2p-like protein, putative
Saccharomyces cerevisiae YLR133W   bifunctional choline kinase/ethanolamine kinase CKI1
Saccharomyces cerevisiae YDR147W   bifunctional choline kinase/ethanolamine kinase EKI1
Schistosoma japonicum Sjp_0090310   ko:K00866 choline kinase [EC2.7.1.32], putative
Toxoplasma gondii TGME49_320630   phosphotransferase enzyme family protein
Theileria parva TP02_0657   choline kinase, putative
Theileria parva TP02_0660   choline kinase, putative
Theileria parva TP02_0659   choline kinase, putative
Theileria parva TP02_0656   choline kinase, putative
Theileria parva TP02_0658   choline kinase, putative

Essentiality

PF3D7_1401800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1040100 Plasmodium berghei Slow plasmo
TGME49_320630 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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

Druggability index (range: 0 to 1): 0.6

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Homo sapiens choline kinase alpha Compounds References
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
0.0469 1 0.5
0.0381 1 1
0.0195 0.8719 1
0.0343 0.3826 1
0.0049 0.5 0.5
0.0262 0.7964 0.5
0.0475 1 1
0.0469 1 1
0.0049 1 0.5
0.0465 1 0.5
0.0252 0.5065 1
0.0041 0.5 0.5
0.0045 1 1
0.0163 1 0.5
0.0342 1 1
0.0049 0.4173 1
0.0281 1 1
0.0335 1 0.5
0.0049 0.2929 1
0.0262 0.7964 0.5
0.0179 1 1
0.0138 1 1
0.00666313 0.5 0.5
0.0262 0.7964 0.5
0.0039 0.5 0.5
0.0115 1 0.5
0.0257 1 1
0.0333 1 0.5
0.0126 0.2699 1
0.0348 0.3452 1
0.0283 1 0.5
0.0123 0.8627 0.5
0.0258 1 0.5
0.0348 1 1
0.0127 1 1
0.018 1 0.5
0.0078 1 0.5
0.0299 1 1
0.0434 1 1
0.0343 0.3826 1
0.0422 1 1
0.0049 0.6928 0.5
0.0346 1 1
0.00666313 0.5 0.5
0.0346 0.4093 1
0.0077 0.7437 0.5
0.0111442 0.5 0.5
0.0125 1 1
0.0049 0.4622 0.5
0.0179 1 1
0.0379 0.4421 1
0.0237 1 1
0.0127 1 1
0.0393 1 0.5
0.0147 1 0.5
0.0376 0.7756 0.5
0.0205 1 0.5
0.0175 1 1
0.0077 1 1
0.0049 0.4622 0.5
0.0145 1 0.5
0.0125 1 1
0.0495 0.3727 1
0.0381 1 1
0.0182 1 0.5
0.0346 1 0.5
0.01 1 0.5
0.0163 1 0.5
0.0178 1 1
0.0163 1 1
0.0117 1 1
0.0515 0.6304 1
0.039 1 1
0.0049 1 0.5
0.014 1 0.5
0.0049 1 0.5
0.0385 0.293 0.5
0.0345 0.7632 1
0.0353 0.5768 0.5
0.0292 0.4121 1
0.0385 0.293 0.5
0.0178 1 0.5
0.0381 0.6545 1
0.03 1 1
0.0049 0.5 0.5
0.0259 1 0.5
0.0164 0.5155 0
0.0049 0.5 0.5
0.008 0.5 0.5
0.0466 1 0.5
0.0091 1 1
0.0292 0.4121 1
0.0129 1 0.5
0.0258 1 1
0.0093 1 1
0.0212 1 1
0.0303 0.6098 1
0.009 0.9866 0.5
0.0203 1 0.5
0.0164 1 0.5
0.0122 0.4931 1
0.0132 0.9611 0.9549
0.0077 0.7437 0.5
0.0129 1 0.5
0.0111442 0.5 0.5
0.0515 0.6304 1
0.0145 1 1
0.0175 1 0.5
0.0041 0.5 0.5
0.0049 0.5 0.5
0.0387 1 1
0.0105 0.6066 1
0.0078 1 0.5
0.0327 1 1
0.0129 1 0.5
0.0214 0.5503 0.5
0.0041 0.941 0.5
0.0132 1 0.5
0.0128 1 0.5
0.112768 1 1
0.0077 0.4972 0.4176
0.0389 0.7819 1
0.0382 0.4425 1
0.0307 0.2918 1

Assayability

Assay information

  • Assay for Choline Kinase (2.7.1.32 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

  • Pkno006677AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pkno006677; Recombinant protein: full-length; Source: P knowlesi; choline kinase, putative homolog ; Identifier: PKH_134520

Bibliographic References

6 literature references were collected for this gene.

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Gene identifier PF3D7_1401800 (Plasmodium falciparum), choline kinase
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