Detailed view for LmjF.05.0100

Basic information

TDR Targets ID: 27402
Leishmania major, phosphoprotein phosphatase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.9987 | Length (AA): 636 | MW (Da): 71712 | Paralog Number: 0

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

Druggability Group : DG1

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

PF00149   Calcineurin-like phosphoesterase
PF03126   Plus-3 domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016787   hydrolase activity  
GO:0003677   DNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 11 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
9 252 1fch (A) 290 587 11.00 0.0000000000063 0.17 0.33 -0.17
68 633 1wao (1) 25 496 20.00 0 1 0.65 0.64
118 624 1wao (1) 25 491 21.00 0 1 1.03 -0.36
276 605 1jk7 (A) 6 299 33.00 0 1 0.9 -1.56
1 119 2ho1 (A) 85 199 8.00 0.16 0.01 0.255707 -0.45
278 590 5inb (A) 15 282 38.00 0 1 0.823638 -0.3
299 613 3icf (A) 209 492 27.00 0 1 0.743883 -0.64
306 447 4iyp (C) 28 153 47.00 0.00000028 0.81 0.20577 1
306 608 1s70 (A) 35 302 37.00 0 1 0.887015 -1.06
306 615 1s70 (A) 35 309 37.00 0 1 0.846921 -0.48
306 580 3fga (C) 28 265 41.00 0 1 0.84689 -0.73

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_138502)

Species Accession Gene Product
Entamoeba histolytica EHI_056650   serine/threonine protein phosphatase, putative
Leishmania braziliensis LbrM.05.0100   phosphoprotein phosphatase, putative
Leishmania donovani LdBPK_050100.1   phosphoprotein phosphatase, putative
Leishmania infantum LinJ.05.0100   phosphoprotein phosphatase, putative
Leishmania major LmjF.05.0100   phosphoprotein phosphatase, putative
Leishmania mexicana LmxM.05.0100   phosphoprotein phosphatase, putative
Trypanosoma brucei gambiense Tbg972.5.5920   serine/threonine protein phosphatase, putative
Trypanosoma brucei Tb05.5K5.30   serine/threonine protein phosphatase, putative
Trypanosoma brucei Tb927.5.4380   kinetoplastid-specific phospho-protein phosphatase, putative
Trypanosoma congolense TcIL3000_0_18660   kinetoplastid-specific phospho-protein phosphatase, putative
Trypanosoma congolense TcIL3000_5_5010   serine/threonine protein phosphatase, putative
Trypanosoma cruzi TcCLB.507601.10   phosphoprotein phosphatase, putative
Trypanosoma cruzi TcCLB.510351.150   phosphoprotein phosphatase, putative

Essentiality

LmjF.05.0100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.4380 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.5.4380 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.5.4380 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.5.4380 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
Species Target Length Identity Alignment span Linked Drugs Reference
Oryctolagus cuniculus Serine/threonine protein phosphatase PP1-alpha catalytic subunit 330 aa 34.9% 284 aa Compounds References
Bos taurus Serine/threonine protein phosphatase 2A, catalytic subunit, alpha isoform 309 aa 35.0% 277 aa Compounds References
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

No reagent availability information for this target.

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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Gene identifier LmjF.05.0100 (Leishmania major), phosphoprotein phosphatase, putative
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