Detailed view for PF3D7_1238900

Basic information

TDR Targets ID: 5430
Plasmodium falciparum, protein kinase 2
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.656 | Length (AA): 509 | MW (Da): 58915 | 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

PF00069   Protein kinase domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0005524   ATP binding  
GO:0004713   protein tyrosine kinase activity  
GO:0004683   calmodulin-dependent protein 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 16 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
2 468 1omw (A) 88 553 19.00 0 1 0.98 0.25
111 384 1kob (A) 53 326 29.00 0 1 1.01 -1.11
155 364 1phk () 73 287 39.00 0 1 0.98 -1.49
22 435 4tnd (A) 86 523 25.00 0 1 1.03556 0.3
86 474 4o1p (A) 337 723 18.00 0.00000000005 1 0.771444 0.65
107 488 3nyv (A) 47 444 25.00 0.000000021 1 1.08029 -0.37
107 491 3lij (A) 58 455 28.00 0 1 1.12059 -0.32
110 471 3q5i (A) 44 437 36.00 0 1 0.909098 0.11
22 436 4tnd (A) 86 523 25.00 0 1 1.02803 0.26
106 379 2jc6 (A) 18 291 38.00 0 1 0.937555 -0.4
107 504 3mwu (A) 72 513 26.00 0 1 1.07169 -0.21
107 492 3lij (A) 58 455 28.00 0 1 1.09516 -0.18
107 385 2bdw (A) 9 295 33.00 0 1 1.00696 -0.91
107 385 3c0g (B) 8 300 32.00 0 1 0.953959 -0.78
110 472 3q5i (A) 44 437 36.00 0 1 0.913665 0.17
404 485 2aao (A) 19 98 14.00 0.073 0.02 0.298084 -0.65

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
  • 4MVF:
  • 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 - 40 hs, intra-erythrocytic - 48 hs, merozoite, early schizont, early trophozoite, late schizont. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, sporozoite, early ring, late ring, late trophozoite, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte, Ring. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Oocyst, Female Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 0-20% 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
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • 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_139549)

Species Accession Gene Product
Cryptosporidium hominis Chro.60070   serine/threonine-protein kinase 2
Cryptosporidium parvum cgd6_520   Ser/Thr protein kinase
Neospora caninum NCLIV_057940   hypothetical protein
Plasmodium berghei PBANKA_1453400   protein kinase 2
Plasmodium falciparum PF3D7_1238900   protein kinase 2
Plasmodium knowlesi PKNH_1458700   serine/threonine protein kinase, putative
Plasmodium vivax PVX_100895   serine/threonine-protein kinase 2, putative
Plasmodium yoelii PY00790   probable serine/threonine-protein kinase 2
Toxoplasma gondii TGME49_315190   CAM kinase, SNF1 family

Essentiality

PF3D7_1238900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
TGME49_315190 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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): 0.5

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
Rattus norvegicus Mitogen-activated protein kinase 1 358 aa 25.0% 288 aa Compounds References
Oryctolagus cuniculus Cyclin-dependent kinase 4 189 aa 31.1% 167 aa Compounds References
Plasmodium falciparum (isolate 3D7) Cell division control protein 2 homolog 288 aa 29.1% 282 aa Compounds References
Rattus norvegicus Serine/threonine-protein kinase pim-3 326 aa 30.6% 271 aa Compounds References
Sus scrofa Casein kinase I isoform alpha 125 aa 24.8% 125 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

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

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

56 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.

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Gene identifier PF3D7_1238900 (Plasmodium falciparum), protein kinase 2
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