Detailed view for LmjF.11.0060

Basic information

TDR Targets ID: 26156
Leishmania major, protein kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.994 | Length (AA): 1126 | MW (Da): 124574 | Paralog Number: 0

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

Druggability Group : DG3

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 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
171 255 1x8b (A) 293 380 29.00 0.0000036 0.44 0.4 -0.48
172 567 1zy4 (A) 594 982 37.00 0 1 0.13 0.84
332 615 1kob (A) 104 351 28.00 0.0000000002 0.91 0.39 0.26
626 820 1azs (A) 380 556 8.00 0 0.02 0.15 -0.19
166 238 2hak (B) 46 117 38.00 0.0021 0.88 0.302031 1.16
175 598 5byz (A) 53 388 24.00 0 1 0.00285417 1.16
350 562 4e5w (A) 954 1147 20.00 0 1 0.238465 -0.37
391 437 2eu9 (A) 266 324 49.00 0.29 0.57 0.300941 0.43

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
Upper 80-100% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_130490)

Species Accession Gene Product
Brugia malayi Bm1_33235   hypothetical protein
Dictyostelium discoideum DDB_G0283065   PEK family protein kinase
Echinococcus granulosus EgrG_000183600   eukaryotic translation initiation factor 2 alpha
Entamoeba histolytica EHI_035950   protein kinase domain containing protein
Entamoeba histolytica EHI_109700   protein kinase domain containing protein
Echinococcus multilocularis EmuJ_000183600   eukaryotic translation initiation factor 2 alpha
Homo sapiens ENSG00000086232   eukaryotic translation initiation factor 2-alpha kinase 1
Leishmania braziliensis LbrM.19.0260   protein kinase
Leishmania donovani LdBPK_110060.1   protein kinase, putative
Leishmania infantum LinJ.11.0060   protein kinase, putative
Leishmania major LmjF.11.0060   protein kinase, putative
Leishmania mexicana LmxM.11.0060   protein kinase, putative
Loa Loa (eye worm) LOAG_05819   PEK/HRI protein kinase
Mus musculus 15467   eukaryotic translation initiation factor 2 alpha kinase 1
Trypanosoma brucei gambiense Tbg972.11.8150   protein kinase, putative
Trypanosoma brucei Tb11.02.5050b   protein kinase, putative
Trypanosoma brucei Tb927.11.7210   eukaryotic translation initiation factor 2-alpha kinase 1, putative
Trypanosoma congolense TcIL3000.11.7780   protein kinase, putative
Trypanosoma congolense TcIL3000_0_47340   protein kinase, putative

Essentiality

LmjF.11.0060 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.5050 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.5050 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.02.5050 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.5050 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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
Species Known druggable target Linked compounds Reference
Homo sapiens eukaryotic translation initiation factor 2-alpha kinase 1 Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Cell division protein kinase 5 292 aa 26.2% 260 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0101 0.4066 1
0.0336 0.3872 0.5
0.01 0.3721 1
0.0032 0.5 0.5
0.1402 1 0.5
0.0008 0.5 0.5
0.01 0.2665 1
0.0165 0.2862 1
0.0091 1 0.5
0.0067 0.5 0.5
0.0016 0.5 0.5
0.0098 0.3242 0.2614
0.0063 1 1
0.0026 0.5 0.5
0.0032 0.5 0.5
0.0093 0.8828 0
0.0023 0.5 0.5
0.1597 0.629 1
0.0012 0.5 0.5
0.0064 0.3377 0
0.0007 0.5 0.5
0.0963 0.7114 1
0.0012 0.5 0.5
0.0066 0.3101 0
0.01 0.2711 0.695
0.01 0.5873 1
0.0018 0.5 0.5
0.0081 1 0.5
0.0096 0.3956 1
0.0033 1 1
0.1514 1 1
0.0027 1 0.5
0.1827 1 0.5
0.1887 1 1
0.1039 0.3143 1
0.0039 0.5 0.5
0.0061 0.6883 0.5304
0.0101 0.3584 1
0.0069 0.3067 1
0.0087 0.3819 1
0.1887 1 1
0.0033 0.5 0.5
0.0029 0.5 0.5
0.0187 0.5422 1
0.0042 0.5 0.5
0.1717 1 0.5
0.0059 1 1
0.1039 0.3143 1
0.0039 0.5 0.5
0.1039 0.3143 1
0.0101 0.4263 1
0.0036 0.5 0.5
0.0088 0.4477 1
0.1699 1 0.5
0.198 1 0.5
0.0007 0.5 0.5
0.1589 1 0.5
0.0087 0.3819 1
0.0101 0.4127 1
0.1564 1 1
0.0056 1 0.5
0.0279 0.2659 1
0.0063 0.7244 0.2543
0.0011 1 0.5
0.0037 1 0.5
0.0003 0.5 0.5
0.0016 0.5 0.5
0.0007 0.5 0.5
0.0022 0.5 0.5
0.0849 1 0.5
0.1451 1 0.5
0.0081 0.5 0.5
0.0092 1 0.5
0.0169 0.3972 1
0.0059 1 1
0.0012 0.5 0.5
0.0062 0.6935 0
0.1597 0.629 1
0.1589 1 0.5
0.1887 1 1
0.0336 0.3872 0.5
0.01 0.3579 0.5
0.0039 0.9485 0.5
0.0059 1 1
0.1887 1 1
0.0004 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier LmjF.11.0060 (Leishmania major), protein kinase, putative
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