Detailed view for LmjF.01.0310

Basic information

TDR Targets ID: 29931
Leishmania major, acidocalcisomal exopolyphosphatase, putative

Source Database / ID:  TriTrypDB  GeneDB

pI: 5.697 | Length (AA): 388 | MW (Da): 42595 | 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

PF01368   DHH family
PF02833   DHHA2 domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0030145   manganese ion binding  
GO:0016787   hydrolase activity  
GO:0016462   pyrophosphatase activity  

Metabolic Pathways

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
5 388 1ir6 (A) 58 423 11.00 0 1 0.85 0
22 231 1wpn (A) 2 188 21.00 0 0.98 0.64 -0.85
22 380 1wpm (A) 2 308 21.00 0 1 1.07 -0.36
1 381 2qb7 (A) 12 394 25.00 0 1 1.21726 -0.07
3 383 2qb7 (A) 6 396 23.00 0 1 1.26646 -0.23
53 171 1i74 (A) 6 131 32.00 0.00053 0.71 0.483301 0.06

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_129543)

Species Accession Gene Product
Candida albicans CaO19.11588   exopolyphosphatase
Candida albicans CaO19.4107   exopolyphosphatase
Drosophila melanogaster Dmel_CG3461   prune
Echinococcus granulosus EgrG_001064100   protein prune
Homo sapiens ENSG00000143363   prune exopolyphosphatase
Leishmania braziliensis LbrM.01.0340   acidocalcisomal exopolyphosphatase, putative
Leishmania donovani LdBPK_010310.1   acidocalcisomal exopolyphosphatase, putative
Leishmania infantum LinJ.01.0310   acidocalcisomal exopolyphosphatase, putative
Leishmania major LmjF.01.0310   acidocalcisomal exopolyphosphatase, putative
Leishmania mexicana LmxM.01.0310   acidocalcisomal exopolyphosphatase, putative
Mus musculus ensembl-mmu:ENSMUSG00000015711   prune homolog (Drosophila)
Neospora caninum NCLIV_026620   hypothetical protein
Saccharomyces cerevisiae YHR201C   Ppx1p
Schistosoma mansoni Smp_173050.1   hypothetical protein
Schistosoma mansoni Smp_173050.2   hypothetical protein
Trypanosoma brucei gambiense Tbg972.9.1630   acidocalcisomal exopolyphosphatase, putative
Trypanosoma brucei Tb927.9.3280   exopolyphosphatase
Trypanosoma congolense TcIL3000_0_32900   acidocalcisomal exopolyphosphatase
Trypanosoma cruzi TcCLB.511577.110   exopolyphosphatase
Trypanosoma cruzi TcCLB.504797.10   acidocalcisomal exopolyphosphatase, putative
Toxoplasma gondii TGME49_260430   hypothetical protein

Essentiality

LmjF.01.0310 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.1950 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.160.1950 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.160.1950 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.160.1950 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_260430 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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 prune exopolyphosphatase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets

Obtained from network model

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.0114 1 1
0.0116 1 0.5
0.0119 1 1
0.0109 0.3278 1

Assayability

Assay information

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Leishmania major ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    LmjF.01.0310 cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Leishmania major ( 1 )

Bibliographic References

1 literature reference was 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.01.0310 (Leishmania major), acidocalcisomal exopolyphosphatase, putative
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