Detailed view for LmjF.28.2000

Basic information

TDR Targets ID: 22226
Leishmania major, protein kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.0762 | Length (AA): 877 | MW (Da): 95731 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

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  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 8 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
10 494 1omw (A) 188 651 20.00 0 1 0.44 0.56
11 299 1phk () 17 290 30.00 0 1 0.62 -1.04
1 481 3q5i (A) 44 506 22.00 0 1 0.676161 0.34
125 308 2b9h (A) 99 319 35.00 0 1 0.457206 -0.43
135 297 3npc (A) 123 322 33.00 0.00000024 1 0.354261 -0.14
140 236 4ian (A) 792 885 44.00 0.00000000055 0.8 0.385004 0.5
222 296 3aln (C) 289 367 38.00 0.51 0.93 0.129919 0.93
379 488 2ehb (D) 314 418 19.00 0.12 0.04 0.228128 -0.07

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile amastigotes. 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_148826)

Species Accession Gene Product
Leishmania braziliensis LbrM.28.2190   protein kinase, putative
Leishmania donovani LdBPK_282140.1   protein kinase, putative
Leishmania infantum LinJ.28.2140   protein kinase, putative
Leishmania major LmjF.28.2000   protein kinase, putative
Leishmania mexicana LmxM.28.2000   protein kinase, putative,phosphorylase kinase-like protein
Trypanosoma brucei gambiense Tbg972.11.9990   protein kinase, putative,serine/threonine protein kinase, putative
Trypanosoma brucei Tb927.11.8940   protein lipid droplet kinase (LDK)
Trypanosoma congolense TcIL3000.11.9250   protein lipid droplet kinase (LDK)
Trypanosoma cruzi TcCLB.511801.14   protein lipid droplet kinase (LDK)
Trypanosoma cruzi TcCLB.508601.90   Small Surface Antigen

Essentiality

LmjF.28.2000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0670 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.0670 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.0670 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.0670 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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
Bos taurus cAMP-dependent protein kinase alpha-catalytic subunit 351 aa 25.9% 290 aa Compounds References
Xenopus laevis Aurora kinase B-A 361 aa 25.8% 291 aa Compounds References
Patiria pectinifera Cdc2 300 aa 22.9% 310 aa Compounds References
Rattus norvegicus MAP kinase p38 alpha 360 aa 23.9% 335 aa Compounds References
Rattus norvegicus cAMP-dependent protein kinase alpha-catalytic subunit 351 aa 26.5% 283 aa Compounds References
Rattus norvegicus Serine/threonine-protein kinase pim-3 326 aa 27.8% 306 aa Compounds References
Homo sapiens Cyclin-dependent kinase 1/cyclin B1 297 aa 24.6% 313 aa Compounds References
Oryctolagus cuniculus cAMP-dependent protein kinase alpha-catalytic subunit 351 aa 24.8% 290 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

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

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 LmjF.28.2000 (Leishmania major), protein kinase, putative
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