Detailed view for LmjF.16.0230

Basic information

TDR Targets ID: 22353
Leishmania major, protein tyrosine phosphatase-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.3644 | Length (AA): 175 | MW (Da): 19376 | Paralog Number: 1

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

PF00782   Dual specificity phosphatase, catalytic domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008138   protein tyrosine/serine/threonine phosphatase activity  
GO:0016791   phosphoric monoester hydrolase activity  
GO:0006470   protein amino acid dephosphorylation  
GO:0016311   dephosphorylation  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
2 174 1vhr (A) 11 184 17.00 0 1 1.24 -1.06
13 168 1rxd (A) 8 156 46.00 0 1 1.57 -2.31
3 165 3s4o (A) 1 163 99.00 0 1 2.29253 -2.8
71 156 2gjt (A) 1099 1180 34.00 0.041 0.74 0.796529 0

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:

PDB tag
  • 3S4O:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% 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_128071)

Species Accession Gene Product
Babesia bovis BBOV_IV011660   tyrosine phosphatase, putative
Brugia malayi Bm1_19115   Dual specificity protein phosphatase CDC14B
Caenorhabditis elegans CELE_T19D2.2   Protein PRL-1
Dictyostelium discoideum DDB_G0292024   hypothetical protein
Drosophila melanogaster Dmel_CG4993   CG4993 gene product from transcript CG4993-RB
Echinococcus granulosus EgrG_000716100   protein tyrosine phosphatase PRL
Entamoeba histolytica EHI_044560   protein tyrosine phosphatase, putative
Echinococcus multilocularis EmuJ_000716100   protein tyrosine phosphatase PRL
Homo sapiens ENSG00000112245   protein tyrosine phosphatase type IVA, member 1
Homo sapiens ENSG00000184007   protein tyrosine phosphatase type IVA, member 2
Leishmania braziliensis LbrM.16.0260   protein tyrosine phosphatase-likie protein
Leishmania braziliensis LbrM.16.0240   protein tyrosine phosphatase-like protein
Leishmania donovani LdBPK_160240.1   protein tyrosine phosphatase-like protein
Leishmania donovani LdBPK_160260.1   protein tyrosine phosphatase-likie protein
Leishmania infantum LinJ.16.0240   protein tyrosine phosphatase-like protein
Leishmania infantum LinJ.16.0260   protein tyrosine phosphatase-likie protein
Leishmania major LmjF.16.0230   protein tyrosine phosphatase-like protein
Leishmania major LmjF.16.0250   protein tyrosine phosphatase-likie protein
Leishmania mexicana LmxM.16.0250   protein tyrosine phosphatase-likie protein
Leishmania mexicana LmxM.16.0230   protein tyrosine phosphatase-like protein
Loa Loa (eye worm) LOAG_10083   dual specificity protein phosphatase CDC14B
Mus musculus 100862124   predicted gene 15026
Mus musculus 102643131   protein tyrosine phosphatase type IVA 1-like
Mus musculus 622019   predicted gene 11780
Mus musculus ENSMUSG00000059895   protein tyrosine phosphatase 4a3
Mus musculus ENSMUSG00000026064   protein tyrosine phosphatase 4a1
Mus musculus ENSMUSG00000028788   protein tyrosine phosphatase 4a2
Neospora caninum NCLIV_003240   phosphatase, putative
Plasmodium berghei PBANKA_0934500   protein tyrosine phosphatase
Plasmodium falciparum PF3D7_1113100   protein tyrosine phosphatase
Plasmodium knowlesi PKNH_0910700   protein tyrosine phosphatase, putative
Plasmodium vivax PVX_091305   protein tyrosine phosphatase, putative
Plasmodium yoelii PY05564   protein tyrosine phosphatase
Schistosoma japonicum Sjp_0035790   Protein tyrosine phosphatase type IVA 3, putative
Schistosoma japonicum Sjp_0305570   ko:K01104 protein-tyrosine phosphatase [EC3.1.3.48], putative
Schistosoma japonicum Sjp_0113010   expressed protein
Schistosoma mansoni Smp_040550   protein tyrosine phosphatase prl
Schistosoma mansoni Smp_005910   protein tyrosine phosphatase prl
Schmidtea mediterranea mk4.000425.07  
Schmidtea mediterranea mk4.001691.02  
Trypanosoma brucei gambiense Tbg972.8.5790   protein tyrosine phosphatase, putative
Trypanosoma brucei Tb927.8.5780   phosphatase of regenerating liver-type phosphatase, putative
Trypanosoma congolense TcIL3000_8_5570   protein tyrosine phosphatase, putative
Trypanosoma cruzi TcCLB.503471.10   protein tyrosine phosphatase, putative
Trypanosoma cruzi TcCLB.510603.80   protein tyrosine phosphatase-like protein, putative
Trypanosoma cruzi TcCLB.506743.130   protein tyrosine phosphatase-like protein, putative
Trypanosoma cruzi TcCLB.503851.24   protein tyrosine phosphatase PRL
Trypanosoma cruzi TcCLB.506743.110   protein tyrosine phosphatase, putative
Trypanosoma cruzi TcCLB.509109.130   protein tyrosine phosphatase-like protein, putative
Trypanosoma cruzi TcCLB.509109.120   protein tyrosine phosphatase, putative
Trypanosoma cruzi TcCLB.510603.60   protein tyrosine phosphatase-like protein, putative
Toxoplasma gondii TGME49_208722   hypothetical protein
Theileria parva TP01_1140   protein tyrosine phosphatase, putative
Trichomonas vaginalis TVAG_308020   conserved hypothetical protein

Essentiality

LmjF.16.0230 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.5780 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.5780 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.5780 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.5780 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_208722 Toxoplasma gondii Probably essential sidik
TGME49_208722 Toxoplasma gondii Essentiality uncertain sidik
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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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

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

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
Homo sapiens protein tyrosine phosphatase type IVA, member 1 Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

No enough druggable targets predicted through repurposing network model to make a plot

Putative Drugs List

Compound Raw Global Species
0.0025 1 0.5

Assayability

Assay information

No assay information for this target.

Reagent availability

  • Lmaj002537AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj002537; Recombinant protein: full-length; Source: L major; protein tyrosine phosphatase-like protein ;

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

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Gene identifier LmjF.16.0230 (Leishmania major), protein tyrosine phosphatase-like protein
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