Detailed view for TcCLB.508989.9

Basic information

TDR Targets ID: 30261
Trypanosoma cruzi, nucleoside phosphorylase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.9798 | Length (AA): 267 | MW (Da): 28926 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG4

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

PF01048   Phosphorylase superfamily

Gene Ontology

Mouse over links to read term descriptions.
GO:0003824   catalytic activity  
GO:0009116   nucleoside metabolic process  

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
24 184 1pk9 (A) 2 128 41.00 0.000000014 1 0.74 0.55
24 154 1vhw (A) 3 130 37.00 0.00000000068 1 0.81 -0.08
15 267 3bje (A) 15 266 61.00 0 1 1.63227 0.19
26 101 4mch (A) 6 79 32.00 0.00000044 0.98 0.820644 -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 80-100% percentile epimastigote. Smircich P
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_131102)

Species Accession Gene Product
Dictyostelium discoideum DDB_G0280985   uridine phosphorylase
Escherichia coli b3831   uridine phosphorylase
Entamoeba histolytica EHI_012720   purine nucleoside phosphorylase, putative
Entamoeba histolytica EHI_200080   purine nucleoside phosphorylase, putative
Entamoeba histolytica EHI_048740   purine nucleoside phosphorylase, putative
Giardia lamblia GL50803_9779   UPL-1
Leishmania braziliensis LbrM.10.1110   nucleoside phosphorylase-like protein
Leishmania donovani LdBPK_101090.1   nucleoside phosphorylase-like protein
Leishmania infantum LinJ.10.1090   nucleoside phosphorylase-like protein
Leishmania major LmjF.10.1010   nucleoside phosphorylase-like protein
Leishmania mexicana LmxM.10.1010   nucleoside phosphorylase-like protein
Neospora caninum NCLIV_054700   uridine phosphorylase, putative
Trypanosoma brucei gambiense Tbg972.8.4190   nucleoside phosphorylase, putative
Trypanosoma brucei Tb927.8.4430   uridine phosphorylase
Trypanosoma congolense TcIL3000_8_4180   nucleoside phosphorylase, putative
Trypanosoma cruzi TcCLB.508989.9   nucleoside phosphorylase, putative
Trypanosoma cruzi TcCLB.509569.100   nucleoside phosphorylase, putative
Toxoplasma gondii TGME49_310640   phosphorylase family protein
Trichomonas vaginalis TVAG_020130   purine nucleoside phosphorylase, putative
Trichomonas vaginalis TVAG_081630   purine nucleoside phosphorylase, putative
Trichomonas vaginalis TVAG_256820   purine nucleoside phosphorylase, putative

Essentiality

TcCLB.508989.9 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.4430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.4430 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.4430 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.4430 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b3831 Escherichia coli non-essential goodall
TGME49_310640 Toxoplasma gondii Probably non-essential 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
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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

Druggability index (range: 0 to 1): 0.2

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.1105 0.2977 0
0.1314 0.2921 0.5
0.1768 0.2963 0.8847
0.1453 0.2923 0.9258
0.1485 0.2987 0.8567
0.1125 0.2944 1
0.1732 0.2917 0.9348
0.0901 0.3068 0.8631
0.0755 0.2681 0.7673
0.1453 0.2923 0.9258
0.1746 0.2673 0.8656
0.1503 0.2939 1
0.1492 0.2666 0
0.1715 0.2964 0.936
0.1175 0.2901 1
0.1508 0.2655 0.8399
0.1357 0.2878 1
0.1453 0.2923 0.9258
0.0624 0.293 1
0.1314 0.2921 0.5
0.1473 0.2771 0.8164
0.0755 0.2681 0.7673
0.1696 0.2827 0
0.1526 0.273 0.8481
0.1503 0.2939 1
0.1453 0.2923 0.9258
0.0901 0.3068 0.8631
0.0961 0.2813 0.6216
0.1495 0.3047 0.8042
0.0755 0.2681 0.7673

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.

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User comments

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Gene identifier TcCLB.508989.9 (Trypanosoma cruzi), nucleoside phosphorylase, putative
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