Detailed view for LmjF.31.2630

Basic information

TDR Targets ID: 28414
Leishmania major, serine/threonine protein phosphatase pp1(5.9), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7748 | Length (AA): 365 | MW (Da): 40766 | 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

PF00149   Calcineurin-like phosphoesterase
PF16891   Serine-threonine protein phosphatase N-terminal domain

Gene Ontology

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

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
9 355 1wao (1) 107 476 35.00 0 1 1.44 -1.19
81 365 1s70 (A) 23 306 65.00 0 1 1.7 -1.82
85 355 1s95 (A) 201 476 41.00 0 1 1.41 -1.95
2 362 4ja7 (A) 109 485 34.00 0 1 1.42274 -0.55
77 365 1s70 (A) 19 306 64.00 0 1 1.62348 -1.03
81 358 5jpe (A) 188 464 55.00 0 1 1.54334 -1.43

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 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_140695)

Species Accession Gene Product
Leishmania braziliensis LbrM.31.2970   serine/threonine protein phosphatase pp1(5.9), putative
Leishmania donovani LdBPK_312700.1   serine/threonine protein phosphatase pp1(5.9), putative
Leishmania infantum LinJ.31.2700   serine/threonine protein phosphatase pp1(5.9), putative
Leishmania major LmjF.31.2630   serine/threonine protein phosphatase pp1(5.9), putative
Leishmania mexicana LmxM.30.2630   serine/threonine protein phosphatase pp1(5.9), putative
Trypanosoma brucei gambiense Tbg972.8.7650   serine/threonine protein phosphatase PP1, putative
Trypanosoma brucei gambiense Tbg972.4.5220   serine/threonine protein phosphatase PP1
Trypanosoma brucei Tb927.8.7390   protein phosphatase 1
Trypanosoma brucei Tb927.4.5030   protein phosphatase 1
Trypanosoma congolense TcIL3000_4_4280   serine/threonine protein phosphatase PP1, putative
Trypanosoma congolense TcIL3000_8_7600   protein phosphatase 1
Trypanosoma cruzi TcCLB.507757.50   serine/threonine-protein phosphatase PP1, putative

Essentiality

LmjF.31.2630 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.7390 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.7390 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.7390 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.7390 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.4.5030 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.5030 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.5030 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.5030 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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
Species Known druggable target Linked compounds Reference
Trypanosoma cruzi serine/threonine-protein phosphatase PP1, putative Compounds References
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 67.9% 271 aa Compounds References
Bos taurus Serine/threonine protein phosphatase 2A, catalytic subunit, alpha isoform 309 aa 46.0% 272 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.

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Gene identifier LmjF.31.2630 (Leishmania major), serine/threonine protein phosphatase pp1(5.9), putative
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