Detailed view for PVX_087765

Basic information

TDR Targets ID: 270026
Plasmodium vivax, calcium-dependent protein kinase 3, putative
Source Database / ID:  PlasmoDB 

pI: 9.6416 | Length (AA): 1251 | MW (Da): 142153 | Paralog Number: 0

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

Druggability Group : DG5

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

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0004713   protein tyrosine kinase activity  
GO:0004674   protein serine/threonine kinase activity  
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 7 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
727 1127 1koa () 5936 6328 17.00 0 1 0.34 0.57
747 879 1jks (A) 27 165 30.00 0.0000000017 1 0.56 -1.07
711 1065 2xrw (A) 2 354 20.00 0 1 0.413173 0.44
727 881 3kvw (A) 143 301 27.00 0.000000064 1 0.456501 -0.34
729 1164 3q5i (A) 53 512 19.00 0 1 0.481921 0.4
733 906 2h34 (A) 16 217 24.00 0.000086 1 0.385689 0.32
747 893 4lg4 (E) 41 187 35.00 0.00095 0.88 0.199106 1.25

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 80-100% percentile intraerythrocytic - 6 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs, intraerythrocytic - 40 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intraerythrocytic - 48 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intraerythrocytic - 24 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile intraerythrocytic - 12 hs, intraerythrocytic - 18 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_167124)

Species Accession Gene Product
Plasmodium berghei PBANKA_0802200   serine/threonine protein kinase, putative
Plasmodium falciparum PF3D7_0704500   serine/threonine protein kinase, putative
Plasmodium knowlesi PKNH_0103000   calcium-dependent protein kinase 3, putative
Plasmodium vivax PVX_087765   calcium-dependent protein kinase 3, putative
Plasmodium yoelii PY01945   serine/threonine-protein kinase, putative

Essentiality

PVX_087765 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0802200 Plasmodium berghei Slow plasmo
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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

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): 0.1

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
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0039 0.9485 0.5
0.0069 0.3067 1
0.0032 0.5 0.5
0.0016 0.5 0.5
0.0088 0.4477 0.5
0.0012 0.5 0.5
0.0067 0.5 0.5
0.0042 0.5 0.5
0.0093 0.8828 0
0.0033 0.5 0.5
0.0039 0.5 0.5
0.0007 0.5 0.5
0.0059 1 1
0.0059 1 1
0.0081 1 0.5
0.0012 0.5 0.5
0.0092 1 0.5
0.0036 0.5 0.5
0.0066 0.3101 0.5
0.0091 1 0.5
0.0026 0.5 0.5
0.0029 0.5 0.5
0.0037 1 0.5
0.0056 1 0.5
0.0023 0.5 0.5
0.0061 0.6883 1
0.0033 1 1
0.0007 0.5 0.5
0.0003 0.5 0.5
0.0016 0.5 0.5
0.0027 1 0.5
0.0011 1 0.5
0.0008 0.5 0.5
0.0032 0.5 0.5
0.0007 0.5 0.5
0.0098 0.3242 0.2614
0.0012 0.5 0.5
0.0062 0.6935 0.5
0.0004 0.5 0.5
0.0081 0.5 0.5
0.0063 1 1
0.0063 0.7244 0.7244
0.0022 0.5 0.5
0.0039 0.5 0.5
0.0064 0.3377 0.5
0.0018 0.5 0.5
0.0059 1 1

Assayability

Assay information

  • Assay for Protein Kinase C (2.7.1.37 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

2 literature references were collected for this gene.

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 PVX_087765 (Plasmodium vivax), calcium-dependent protein kinase 3, putative
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