Detailed view for Sjp_0034250

Basic information

TDR Targets ID: 978408
Schistosoma japonicum, ko:K02208 cyclin-dependent kinase 8/11, putative
Source Database / ID:  Wormbase Parasite  

pI: 9.0024 | Length (AA): 615 | MW (Da): 69942 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP 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 5 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
1 365 5xs2 (A) 0 363 72.00 0 1 1.4488 -1.03
2 361 4f6u (A) 1 359 53.00 0 1 1.05537 0.11
27 485 4ysj (A) 33 435 24.00 0 1 0.752341 0.49
378 474 3wwt (A) 12 112 6.00 0 0 0.223724 -1.12
571 607 3bog (C) 3 79 95.00 0 0.98 1.08956 0.03

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129229)

Species Accession Gene Product
Arabidopsis thaliana AT5G63610   1
Brugia malayi Bm1_33825   Protein kinase domain containing protein
Candida albicans CaO19.794   Cyclin-dependent serine/threonin protein kinase
Candida albicans CaO19.8413   Cyclin-dependent serine/threonin protein kinase
Caenorhabditis elegans CELE_F39H11.3   Protein CDK-8
Dictyostelium discoideum DDB_G0267442   CDK family protein kinase
Drosophila melanogaster Dmel_CG10572   Cyclin-dependent kinase 8
Echinococcus granulosus EgrG_000582700   cyclin dependent kinase 19
Echinococcus multilocularis EmuJ_000582700   cyclin dependent kinase 19
Homo sapiens ENSG00000132964   cyclin-dependent kinase 8
Homo sapiens ENSG00000155111   cyclin-dependent kinase 19
Loa Loa (eye worm) LOAG_06222   gastrulation defective protein 1
Loa Loa (eye worm) LOAG_06223   CMGC/CDK/CDK8 protein kinase
Mus musculus ENSMUSG00000029635   cyclin-dependent kinase 8
Mus musculus ENSMUSG00000038481   cyclin-dependent kinase 19
Oryza sativa 4349519   Os10g0580300
Saccharomyces cerevisiae YPL042C   Ssn3p
Schistosoma japonicum Sjp_0034250   ko:K02208 cyclin-dependent kinase 8/11, putative
Schistosoma mansoni Smp_156990   serine/threonine protein kinase
Schmidtea mediterranea mk4.001470.03   Cdk11-like protein

Essentiality

Sjp_0034250 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F39H11.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F39H11.3 Caenorhabditis elegans larval lethal wormbase
CELE_F39H11.3 Caenorhabditis elegans slow growth wormbase
CELE_F39H11.3 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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

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 cyclin-dependent kinase 8 Compounds References
Homo sapiens cyclin-dependent kinase 19 Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Schizosaccharomyces pombe 972h- Casein kinase II subunit alpha 332 aa 26.2% 317 aa Compounds References
Rattus norvegicus Mitogen-activated protein kinase 8 411 aa 26.2% 343 aa Compounds References
Zea mays Casein kinase II alpha 332 aa 24.8% 319 aa Compounds References
Rattus norvegicus Cell division protein kinase 5 292 aa 36.6% 322 aa Compounds References
Oryctolagus cuniculus Cyclin-dependent kinase 4 189 aa 43.2% 183 aa Compounds References
Patiria pectinifera Cdc2 300 aa 37.9% 330 aa Compounds References
Plasmodium falciparum (isolate 3D7) Cell division control protein 2 homolog 288 aa 36.9% 317 aa Compounds References
Homo sapiens Cyclin-dependent kinase 1/cyclin B1 297 aa 37.9% 327 aa Compounds References
Rattus norvegicus MAP kinase p38 alpha 360 aa 30.6% 353 aa Compounds References
Rattus norvegicus Mitogen-activated protein kinase 1 358 aa 29.3% 335 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 Sjp_0034250 (Schistosoma japonicum), ko:K02208 cyclin-dependent kinase 8/11, putative
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