Detailed view for LmjF.07.0170

Basic information

TDR Targets ID: 27786
Leishmania major, protein kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.7425 | Length (AA): 1064 | MW (Da): 115100 | Paralog Number: 0

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

Druggability Group : DG2

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  

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
26 464 1y8g (A) 51 356 19.00 0 1 -0.01 0.52
322 406 2acx (A) 347 434 35.00 0.0000021 1 0.63 -1.47
20 609 3hx4 (A) 43 483 21.00 0 1 0.313211 1.55
23 176 2f2u (A) 87 234 28.00 0.0000058 1 0.407137 0.18
28 283 5ax9 (A) 25 291 21.00 0 1 0.452302 -0.18
137 196 2dyl (A) 240 328 37.00 0.39 0.26 0.190791 0.92
314 354 2oid (C) 331 381 51.00 0.084 0.21 0.379934 1
322 403 4ow8 (A) 179 260 37.00 0.00001 0.97 0.636468 -1.12
326 412 3bu3 (A) 1175 1262 29.00 0.00093 0.66 0.496167 -0.88
326 417 4af3 (A) 239 329 34.00 0.000015 0.99 0.531866 -0.36

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
Lower 20-40% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_148290)

Species Accession Gene Product
Leishmania braziliensis LbrM.07.0170   protein kinase, putative
Leishmania donovani LdBPK_070330.1   protein kinase, putative
Leishmania infantum LinJ.07.0330   protein kinase, putative
Leishmania major LmjF.07.0170   protein kinase, putative
Leishmania mexicana LmxM.07.0170   protein kinase, putative
Trypanosoma brucei gambiense Tbg972.8.1300   serine/threonine-protein kinase, putative
Trypanosoma brucei Tb927.8.1690   Serine/threonine-protein kinase NEK14, putative
Trypanosoma congolense TcIL3000_8_1540   serine/threonine-protein kinase, putative
Trypanosoma cruzi TcCLB.511395.60   Serine/threonine-protein kinase NEK14, putative
Trypanosoma cruzi TcCLB.505071.60   Serine/threonine-protein kinase NEK14, putative

Essentiality

LmjF.07.0170 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.1690 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.1690 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1690 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.1690 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0027 1 0.5
0.0016 0.5 0.5
0.0067 0.5 0.5
0.0066 0.3101 0
0.0026 0.5 0.5
0.0036 0.5 0.5
0.0039 0.5 0.5
0.0061 0.6883 0.5304
0.0023 0.5 0.5
0.0007 0.5 0.5
0.0039 0.9485 0.5
0.0098 0.3242 0.2614
0.0008 0.5 0.5
0.0029 0.5 0.5
0.0092 1 0.5
0.0011 1 0.5
0.0062 0.6935 0
0.0059 1 1
0.0063 1 1
0.0033 0.5 0.5
0.0004 0.5 0.5
0.0081 0.5 0.5
0.0091 1 0.5
0.0007 0.5 0.5
0.0042 0.5 0.5
0.0018 0.5 0.5
0.0069 0.3067 1
0.0059 1 1
0.0032 0.5 0.5
0.0039 0.5 0.5
0.0037 1 0.5
0.0012 0.5 0.5
0.0012 0.5 0.5
0.0003 0.5 0.5
0.0012 0.5 0.5
0.0016 0.5 0.5
0.0033 1 1
0.0007 0.5 0.5
0.0063 0.7244 0.2543
0.0059 1 1
0.0022 0.5 0.5
0.0064 0.3377 0
0.0088 0.4477 1
0.0081 1 0.5
0.0056 1 0.5
0.0093 0.8828 0
0.0032 0.5 0.5

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

22 literature references were collected for this gene.

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User comments

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Gene identifier LmjF.07.0170 (Leishmania major), protein kinase, putative
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