Detailed view for LmjF.32.0640

Basic information

TDR Targets ID: 29125
Leishmania major, phosphatase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.7124 | Length (AA): 605 | MW (Da): 68159 | 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

PF00782   Dual specificity phosphatase, catalytic domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016791   phosphoric monoester hydrolase activity  
GO:0008138   protein tyrosine/serine/threonine phosphatase activity  
GO:0004725   protein tyrosine phosphatase activity  
GO:0016311   dephosphorylation  
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 7 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
2 265 1ohe (A) 155 379 26.00 0 1 0.4 0.32
167 254 2gjt (A) 1100 1196 38.00 0.0000077 1 0.64 -1.48
24 246 4az1 (A) 42 280 18.00 0 0.56 0.519195 0.19
34 262 1ohe (A) 181 376 26.00 0.19 1 0.593312 -0.34
126 253 1fpz (A) 59 196 33.00 0.000002 1 0.67557 -1.11
156 253 2hcm (A) 51 149 19.00 0 0.72 0.472583 -0.71
180 214 4kyq (A) 173 209 46.00 0.98 0.77 0.405851 1.32

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 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_132316)

Species Accession Gene Product
Brugia malayi Bm1_35210   protein tyrosine phosphatase
Caenorhabditis elegans CELE_T12B3.1   Protein T12B3.1
Homo sapiens ENSG00000158079   protein tyrosine phosphatase domain containing 1
Leishmania braziliensis LbrM.32.0720   phosphatase, putative
Leishmania donovani LdBPK_320670.1   phosphatase, putative
Leishmania infantum LinJ.32.0670   phosphatase, putative
Leishmania major LmjF.32.0640   phosphatase, putative
Leishmania mexicana LmxM.31.0640   phosphatase, putative
Loa Loa (eye worm) LOAG_06342   protein tyrosine phosphatase
Mus musculus 102641818   protein tyrosine phosphatase domain-containing protein 1-like
Mus musculus ENSMUSG00000038042   protein tyrosine phosphatase domain containing 1
Onchocerca volvulus OVOC5792  
Schistosoma japonicum Sjp_0209620   ko:K01104 protein-tyrosine phosphatase [EC3.1.3.48], putative
Trypanosoma brucei gambiense Tbg972.11.15500   phosphatase, putative
Trypanosoma brucei Tb927.11.13880   kinetoplastid-specific protein tyrosine phosphatase, putative
Trypanosoma congolense TcIL3000.11.14250   kinetoplastid-specific protein tyrosine phosphatase, putative

Essentiality

LmjF.32.0640 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.5450 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5450 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.5450 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.5450 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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
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

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

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Gene identifier LmjF.32.0640 (Leishmania major), phosphatase, putative
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