Detailed view for LmjF.36.3680

Basic information

TDR Targets ID: 20904
Leishmania major, mitogen activated kinase-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.888 | Length (AA): 977 | MW (Da): 108206 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 2

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:0004871   signal transducer activity  
GO:0004713   protein tyrosine kinase activity  
GO:0004674   protein serine/threonine kinase activity  
GO:0004672   protein kinase activity  
GO:0007165   signal transduction  
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
440 493 1ptq () 231 280 24.00 0.000017 0.08 0.22 -0.15
518 949 1opk (A) 83 528 19.00 0 1 0.58 0.21
692 934 1mq4 (A) 130 384 29.00 0 1 0.68 -1.04
260 363 1nwz (A) 19 123 11.00 0 0.29 0.186348 -0.12
269 324 3lyx (A) 20 74 27.00 0.21 0.8 0.364118 0.15
270 308 5iu1 (A) 5 43 23.00 0.56 0.48 0.310718 -0.11
563 619 1xhf (A) 6 61 21.00 0.44 0.23 0.289142 -0.26
591 954 3v5w (A) 87 474 21.00 0 1 0.536369 0.48
695 951 3a7i (A) 24 292 32.00 0 1 0.69685 -0.82
709 878 4d1z (A) 18 195 43.00 0.00000000026 1 0.278302 0.35

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 60-80% 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_155711)

Species Accession Gene Product
Leishmania braziliensis LbrM.35.3920   mitogen activated kinase-like protein
Leishmania donovani LdBPK_363870.1   mitogen activated kinase-like protein
Leishmania infantum LinJ.36.3870   mitogen activated kinase-like protein
Leishmania major LmjF.36.3680   mitogen activated kinase-like protein
Leishmania mexicana LmxM.36.3680   mitogen activated kinase-like protein
Mycobacterium leprae ML0017c   Probable transmembrane serine/threonine-protein kinase A PknA (protein kinase A) (STPK A)
Mycobacterium tuberculosis Rv0015c   Transmembrane serine/threonine-protein kinase A PknA (protein kinase A) (STPK A)
Mycobacterium ulcerans MUL_0019   serine/threonine-protein kinase a PknA
Oryza sativa 4347072   Os09g0418500

Essentiality

LmjF.36.3680 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu15 Mycobacterium tuberculosis essential nmpdr
Show/Hide essentiality data references
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.

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
Oryctolagus cuniculus Cyclin-dependent kinase 4 189 aa 32.9% 158 aa Compounds References
Rattus norvegicus Serine/threonine-protein kinase pim-3 326 aa 24.4% 315 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

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

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.36.3680 (Leishmania major), mitogen activated kinase-like protein
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