Detailed view for TcCLB.511127.220

Basic information

TDR Targets ID: 51499
Trypanosoma cruzi, cdc2-related kinase 12
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.4284 | Length (AA): 788 | MW (Da): 86310 | Paralog Number: 1

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

Druggability Group : DG4

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 10 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
110 298 4ke2 (A) 2 189 11.00 0 0.02 0.309948 -0.31
205 329 2b5l (C) 38 197 14.00 0 0.03 0.239029 -0.21
296 734 3kvw (A) 83 463 20.00 0 0.81 0.512507 0.78
348 780 5lar (A) 12 353 25.00 0 1 0.507892 0.71
356 737 4bgq (A) 9 301 38.00 0 1 0.477972 0.54
356 736 4o2z (A) 43 338 36.00 0 1 0.511703 0.49
358 605 3blh (A) 17 255 41.00 0 1 0.678121 -0.24
358 702 2jed (B) 378 711 19.00 0 1 0.577217 0.3
474 523 2cmw (A) 136 190 36.00 0.62 0.87 0.313652 0.74
498 576 4an3 (A) 186 307 46.00 0.0000025 0.17 0.241454 1.03

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

Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile epimastigote, metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_151464)

Species Accession Gene Product
Leishmania braziliensis LbrM.09.0300   protein kinase, putative
Leishmania donovani LdBPK_090270.1   cdc2-related kinase 12
Leishmania infantum LinJ.09.0270   protein kinase, putative
Leishmania major LmjF.09.0310   protein kinase, putative
Leishmania mexicana LmxM.09.0310   protein kinase, putative
Trypanosoma brucei gambiense Tbg972.11.13750   protein kinase, putative
Trypanosoma brucei Tb927.11.12310   cdc2-related kinase 12
Trypanosoma congolense TcIL3000.11.12940   cdc2-related kinase 12
Trypanosoma cruzi TcCLB.511127.220   cdc2-related kinase 12
Trypanosoma cruzi TcCLB.509023.200   cdc2-related kinase 12

Essentiality

TcCLB.511127.220 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.4130 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.4130 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.4130 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.4130 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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
Zea mays Casein kinase II alpha 332 aa 27.7% 300 aa Compounds References
Oryctolagus cuniculus Cyclin-dependent kinase 4 189 aa 34.5% 206 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0067 0.5 0.5
0.0062 0.6935 0
0.0059 1 1
0.0007 0.5 0.5
0.0007 0.5 0.5
0.0059 1 1
0.0003 0.5 0.5
0.0033 1 0.5
0.0018 0.5 0.5
0.0066 0.3101 0
0.0039 0.5 0.5
0.0011 1 0.5
0.0039 0.5 0.5
0.0091 1 0.5
0.0063 1 0.5
0.0037 1 0.5
0.0026 0.5 0.5
0.0029 0.5 0.5
0.0016 0.5 0.5
0.0069 0.3067 1
0.0063 0.7244 0.2543
0.0008 0.5 0.5
0.0056 1 0.5
0.0081 0.5 0.5
0.0033 0.5 0.5
0.0022 0.5 0.5
0.0059 1 1
0.0012 0.5 0.5
0.0036 0.5 0.5
0.0092 1 0.5
0.0039 0.9485 0.5
0.0093 0.8828 0
0.0027 1 0.5
0.0061 0.6883 0.5304
0.0007 0.5 0.5
0.0088 0.4477 0.5
0.0098 0.3242 0.3649
0.0081 1 0.5
0.0042 0.5 0.5
0.0004 0.5 0.5
0.0023 0.5 0.5
0.0012 0.5 0.5
0.0032 0.5 0.5
0.0032 0.5 0.5
0.0064 0.3377 0
0.0012 0.5 0.5
0.0016 0.5 0.5

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier TcCLB.511127.220 (Trypanosoma cruzi), cdc2-related kinase 12
Title for this comment
Comment