Detailed view for LmjF.15.0030

Basic information

TDR Targets ID: 24610
Leishmania major, ATP diphosphohydrolase
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.4285 | Length (AA): 425 | MW (Da): 47221 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

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

PF01150   GDA1/CD39 (nucleoside phosphatase) family

Gene Ontology

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

Metabolic Pathways

Purine metabolism (KEGG)
Pyrimidine metabolism (KEGG)

Structural information

Modbase 3D models:

There are 5 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
50 352 1t6c (A) 7 294 16.00 0 0.49 0.69 -0.13
35 425 4a5a (B) 49 613 23.00 0 1 0.7259 0.33
49 420 3cj1 (A) 36 444 31.00 0 1 1.15959 -0.14
53 419 4cd1 (A) 40 443 34.00 0 1 1.15333 -0.05
55 418 3aap (A) 46 390 26.00 0 1 1.11037 -0.25

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
Mid 40-60% 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_127709)

Species Accession Gene Product
Arabidopsis thaliana AT3G04080   apyrase 1
Arabidopsis thaliana AT5G18280   apyrase 2
Candida albicans CaO19.7394   guanosine diphosphatase
Caenorhabditis elegans CELE_K08H10.4   Protein UDA-1
Drosophila melanogaster Dmel_CG3059   CG3059 gene product from transcript CG3059-RD
Homo sapiens 957   ectonucleoside triphosphate diphosphohydrolase 5
Homo sapiens ENSG00000197586   ectonucleoside triphosphate diphosphohydrolase 6 (putative)
Leishmania braziliensis LbrM.15.0030   ATP diphosphohydrolase
Leishmania braziliensis LbrM.10.0170   nucleoside phosphatase, putative,guanosine diphosphatase, putative
Leishmania donovani LdBPK_150030.1   ATP diphosphohydrolase
Leishmania donovani LdBPK_100150.1   nucleoside phosphatase, putative
Leishmania infantum LinJ.10.0150   nucleoside phosphatase, putative,guanosine diphosphatase, putative
Leishmania infantum LinJ.15.0030   ATP diphosphohydrolase
Leishmania major LmjF.15.0030   ATP diphosphohydrolase
Leishmania major LmjF.10.0170   nucleoside phosphatase, putative,guanosine diphosphatase, putative
Leishmania mexicana LmxM.15.0030   nucleoside diphosphatase, putative
Leishmania mexicana LmxM.10.0170   nucleoside phosphatase, putative,guanosine diphosphatase, putative
Mus musculus ENSMUSG00000033068   ectonucleoside triphosphate diphosphohydrolase 6
Mus musculus ENSMUSG00000021236   ectonucleoside triphosphate diphosphohydrolase 5
Neospora caninum NCLIV_060550   Ectonucleoside triphosphate diphosphohydrolase 2, related
Oryza sativa 4350421   Os11g0440200
Oryza sativa 4350420   Os11g0439600
Oryza sativa 4349645   Os11g0126400
Oryza sativa 4351367   Os12g0123500
Oryza sativa 4344315   Os07g0682800
Saccharomyces cerevisiae YEL042W   Gda1p
Schistosoma japonicum Sjp_0214380   ko:K01511 nucleoside-diphosphatase [EC3.6.1.6], putative
Schistosoma mansoni Smp_081450   adenosine diphosphatase
Schmidtea mediterranea mk4.003992.02  
Schmidtea mediterranea mk4.010067.00  
Schmidtea mediterranea mk4.000295.05   Nucleoside-diphosphatase uda-1
Schmidtea mediterranea mk4.001744.00  
Schmidtea mediterranea mk4.003743.01  
Schmidtea mediterranea mk4.002538.04  
Schmidtea mediterranea mk4.003743.03  
Trypanosoma brucei gambiense Tbg972.8.3510   nucleoside phosphatase, putative,guanosine diphosphatase, putative
Trypanosoma brucei gambiense Tbg972.7.1920   nucleoside diphosphatase, putative
Trypanosoma brucei Tb927.8.3800   nucleoside phosphatase, putative
Trypanosoma brucei Tb927.7.1930   nucleoside diphosphatase, putative
Trypanosoma congolense TcIL3000_0_35580   nucleoside diphosphatase, putative
Trypanosoma congolense TcIL3000_8_3670   nucleoside phosphatase, putative
Trypanosoma cruzi TcCLB.506229.50   nucleoside phosphatase, putative
Toxoplasma gondii TGME49_307800   GDA1/CD39 (nucleoside phosphatase) family protein

Essentiality

LmjF.15.0030 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.3800 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.3800 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.3800 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.3800 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.7.1930 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.1930 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.1930 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.7.1930 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_307800 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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
Trypanosoma cruzi nucleoside phosphatase, putative Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Trypanosoma cruzi nucleoside phosphatase, putative 246 aa 28.0% 239 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0087 0.2929 1
0.0056 0.4121 0.9554
0.0042 0.4127 1

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.15.0030 (Leishmania major), ATP diphosphohydrolase
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