Detailed view for PBANKA_0925500

Basic information

TDR Targets ID: 825712
Plasmodium berghei, calcium-dependent protein kinase 6
Source Database / ID: 

pI: 8.4209 | Length (AA): 1482 | MW (Da): 177394 | Paralog Number: 0

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

Druggability Group : DG

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

PF00069   Protein kinase domain
PF13202   EF hand

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0005509   calcium ion binding  
GO:0004672   protein kinase activity  
GO:0006468   protein amino acid phosphorylation  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
6 1150 5wtk (A) 27 1382 24.00 0.000022 0.99 0.587105 1.58
1013 1481 3lij (A) 38 512 32.00 0 1 0.666464 -0.35
1304 1482 3mse (B) 1 179 79.00 0 1 0.943283 -0.89
1340 1398 4gft (A) 141 199 23.00 0.65 0.99 0.464811 -1.51

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:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Male gametocyte. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 16 hs Trophozoite, Erthyrocytic stages, Female gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Gametocyte, Ookinete, 22 hs Schizont. Otto TD
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile 4 hs Ring. Otto TD
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_146625)

Species Accession Gene Product
Cryptosporidium hominis Chro.40377   hypothetical protein
Cryptosporidium parvum cgd4_3330   hypothetical protein
Neospora caninum NCLIV_061660   CAM kinase, CDPK family, putative
Plasmodium berghei PBANKA_0925500   calcium-dependent protein kinase 6
Plasmodium falciparum PF3D7_1122800   calcium-dependent protein kinase 6
Plasmodium knowlesi PKNH_0920600   calcium-dependent protein kinase 6, putative
Plasmodium vivax PVX_091755   calcium-dependent protein kinase 6, putative
Plasmodium yoelii PY04265   Plasmodium falciparum CDPK2 protein-related
Toxoplasma gondii TGME49_218720   calcium-dependent protein kinase CDPK6

Essentiality

PBANKA_0925500 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0925500 this record Plasmodium berghei Slow plasmo
TGME49_218720 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Zea mays CaM kinase I alpha 492 aa 28.4% 416 aa Compounds References
Rattus norvegicus Cell division protein kinase 5 292 aa 28.1% 249 aa Compounds References
Homo sapiens Cyclin-dependent kinase 1/cyclin B1 297 aa 30.1% 239 aa Compounds References
Triticum aestivum Calcium dependent protein kinase 548 aa 29.4% 439 aa Compounds References
Patiria pectinifera Cdc2 300 aa 25.3% 304 aa Compounds References
Rattus norvegicus MAP kinase p38 alpha 360 aa 28.9% 294 aa Compounds References
Rattus norvegicus Mitogen-activated protein kinase 1 358 aa 29.8% 312 aa Compounds References
Oryctolagus cuniculus Cyclin-dependent kinase 4 189 aa 33.1% 157 aa Compounds References
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier PBANKA_0925500 (Plasmodium berghei), calcium-dependent protein kinase 6
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