Detailed view for LmjF.25.0750

Basic information

TDR Targets ID: 22683
Leishmania major, protein phosphatase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.4558 | Length (AA): 406 | MW (Da): 44951 | 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

PF00481   Protein phosphatase 2C

Gene Ontology

Mouse over links to read term descriptions.
GO:0043169   cation binding  
GO:0004722   protein serine/threonine phosphatase activity  
GO:0003824   catalytic activity  
GO:0006470   protein amino acid dephosphorylation  

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
2 367 1a6q () 2 368 26.00 0 1 1.05 0.02
2 330 1a6q () 2 361 29.00 0 1 1.07 -0.5
1 275 2i0o (A) 1 578 35.00 0 1 1.01884 -0.39
2 278 4rag (A) 2 295 31.00 0 1 1.10587 -1.12
4 274 2p8e (A) 4 295 32.00 0.0000000035 1 1.11179 -1.04
7 274 2isn (A) 3 332 39.00 0 1 0.957599 -0.85
19 275 3rt0 (A) 185 502 30.00 0 1 0.812605 -1.24
20 275 2iq1 (A) 91 347 30.00 0 1 1.01314 -1.07

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
Upper 60-80% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_150267)

Species Accession Gene Product
Leishmania braziliensis LbrM.25.0630   protein phosphatase, putative
Leishmania donovani LdBPK_250780.1   protein phosphatase, putative
Leishmania infantum LinJ.25.0780   protein phosphatase, putative
Leishmania major LmjF.25.0750   protein phosphatase, putative
Leishmania mexicana LmxM.25.0750   protein phosphatase, putative
Trypanosoma brucei gambiense Tbg972.11.760   protein phosphatase 2C, putative
Trypanosoma brucei Tb927.11.760   protein phosphatase 2C, putative
Trypanosoma congolense TcIL3000_0_15250   protein phosphatase 2C, putative
Trypanosoma cruzi TcCLB.506925.150   protein phosphatase, putative

Essentiality

LmjF.25.0750 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.03.0390 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.03.0390 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.03.0390 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.03.0390 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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): 0.3

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
No druggable targets predicted through repurposing network model

Assayability

Assay information

  • Assay for Calcineurin (3.1.3.16 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

  • Lmaj003027AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj003027; Recombinant protein: full-length; Source: L major; protein phosphatase, putative ;

Bibliographic References

15 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.

User comments

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