Detailed view for TcCLB.510901.120

Basic information

TDR Targets ID: 34649
Trypanosoma cruzi, Serine/threonine-protein kinase VPS15, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.0295 | Length (AA): 1341 | MW (Da): 148552 | Paralog Number: 0

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:0005515   protein binding  
GO:0005488   binding  
GO:0004674   protein serine/threonine kinase activity  
GO:0004672   protein kinase activity  
GO:0006468   protein amino acid phosphorylation  

Metabolic Pathways

Regulation of autophagy (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
79 381 1blx (A) 8 309 17.00 0 1 0.13 0.19
169 396 2c47 (A) 77 298 14.00 0.0000099 0.76 0.21 -0.59
419 734 1b3u (A) 302 586 15.00 0.0000000000078 0.78 0.36 -0.91
432 756 1ibr (B) 124 459 10.00 0.0000000000016 0.37 0.37 -1.15
932 1341 2aq5 (A) 8 394 11.00 0 0.97 0.03 0.31
974 1266 1npe (A) 913 1174 8.00 0 0.3 -0.05 -0.53
39 366 4idt (A) 346 647 17.00 0 1 0.281894 0.28
60 373 1phk (A) 21 288 19.00 0 1 0.234454 0.35
71 406 1vzo (A) 27 345 17.00 0 0.99 0.231859 0.43
101 1256 5dfz (B) 24 1387 17.00 0 1 0.688343 1.79
158 238 2jii (A) 246 335 35.00 0.3 0.28 0.188803 1
198 311 3nup (A) 127 219 41.00 0.029 0.67 -0.0175888 1.2
301 501 3k62 (A) 269 456 13.00 0 0.29 0.236488 -0.55
958 1333 2ovr (B) 2376 2692 14.00 0 1 0.161688 0.54
1007 1337 3ow8 (A) 13 301 20.00 0 0.54 0.240131 -0.14
1054 1337 4ggc (A) 186 470 17.00 0.00000000052 0.69 0.195082 0.01

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_150620)

Species Accession Gene Product
Leishmania braziliensis LbrM.28.1930   protein kinase, putative
Leishmania donovani LdBPK_281880.1   protein kinase, putative
Leishmania infantum LinJ.28.1880   protein kinase, putative
Leishmania major LmjF.28.1760   protein kinase, putative
Leishmania mexicana LmxM.28.1760   protein kinase, putative
Trypanosoma brucei gambiense Tbg972.11.10280   protein kinase, putative
Trypanosoma brucei Tb927.11.9190   Serine/threonine-protein kinase VPS15, putative
Trypanosoma congolense TcIL3000.11.9580   protein kinase, putative
Trypanosoma cruzi TcCLB.510901.120   Serine/threonine-protein kinase VPS15, putative

Essentiality

TcCLB.510901.120 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0930 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.0930 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.0930 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.0930 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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): 0.4

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

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User comments

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Gene identifier TcCLB.510901.120 (Trypanosoma cruzi), Serine/threonine-protein kinase VPS15, putative
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