Detailed view for LmjF.28.0620

Basic information

TDR Targets ID: 26269
Leishmania major, protein kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6938 | Length (AA): 1315 | MW (Da): 142987 | 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:0004672   protein kinase activity  
GO:0005524   ATP binding  
GO:0005488   binding  
GO:0004713   protein tyrosine kinase activity  
GO:0004674   protein serine/threonine 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 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
1 437 1omw (A) 188 668 21.00 0 1 0.3 0.13
1 252 1unl (A) 1 288 29.00 0 1 0.55 -1.54
447 527 1kwa (A) 487 572 7.00 0.000000000097 0.03 0.08 -0.38
1 252 1fot (A) 84 343 26.00 0 1 0.459035 -0.34
2 252 3q5i (A) 55 326 22.00 0 1 0.472275 -0.78
2 429 3mwu (A) 74 520 20.00 0 1 0.412875 0.36
9 209 1bi8 (A) 18 232 34.00 0 0.76 0.329352 1
530 743 1xqr (A) 114 313 16.00 0 1 0.326438 -0.59
579 1281 1u6g (C) 23 734 12.00 0 0.97 0.474301 0.82
909 1314 3gq2 (A) 21 447 12.00 0 0.84 0.343445 -0.15

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
Mid 40-60% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_132036)

Species Accession Gene Product
Arabidopsis thaliana AT5G18700   protein kinase family protein with ARM repeat domain
Homo sapiens ENSG00000168038   unc-51 like kinase 4
Leishmania braziliensis LbrM.28.0640   protein kinase, putative
Leishmania donovani LdBPK_280660.1   protein kinase, putative
Leishmania infantum LinJ.28.0660   protein kinase, putative
Leishmania major LmjF.28.0620   protein kinase, putative
Leishmania mexicana LmxM.28.0620   protein kinase, putative
Mus musculus ENSMUSG00000040936   unc-51-like kinase 4
Oryza sativa 4326239   Os01g0259400
Schmidtea mediterranea mk4.002641.05   Serine/threonine-protein kinase ULK4
Trypanosoma brucei gambiense Tbg972.11.9310   protein kinase, putative
Trypanosoma brucei Tb11.v5.1045   protein kinase, putative
Trypanosoma brucei Tb927.11.8150   ULK family pseudokinase, putative
Trypanosoma brucei Tb11.v5.1048   protein kinase, putative
Trypanosoma congolense TcIL3000_0_54990   protein kinase, putative
Trypanosoma cruzi TcCLB.508815.170   ULK family pseudokinase, putative

Essentiality

LmjF.28.0620 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0400 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.0400 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.0400 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.0400 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • 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
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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
Rattus norvegicus Cell division protein kinase 5 292 aa 28.0% 236 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

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

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

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier LmjF.28.0620 (Leishmania major), protein kinase, putative
Title for this comment
Comment