Detailed view for TGME49_220420

Basic information

TDR Targets ID: 264171
Toxoplasma gondii, 3'5'-cyclic nucleotide phosphodiesterase domain-containing protein
Source Database / ID:  ToxoDB 

pI: 8.4394 | Length (AA): 1040 | MW (Da): 116126 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 5

Druggability Group : DG5

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

PF00233   3'5'-cyclic nucleotide phosphodiesterase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004114   3',5'-cyclic-nucleotide phosphodiesterase activity  
GO:0008081   phosphoric diester hydrolase activity  
GO:0007165   signal transduction  

Metabolic Pathways

Purine metabolism (KEGG)

Structural information

Modbase 3D models:

There are 9 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
91 441 1tbf (A) 538 851 23.00 0 1 0.79 -0.41
93 435 2hd1 (A) 189 481 26.00 0 1 1.02 -0.78
152 239 2hd1 (A) 246 333 41.00 0 1 0.85 -1.51
86 156 2mqa (A) 39 109 11.00 0 0.01 0.273969 -1.06
87 166 4nx9 (A) 210 289 29.00 0.044 0.03 0.390323 -0.4
661 1033 3itu (C) 593 913 24.00 0 1 0.519354 -0.12
665 1021 1zkl (A) 140 455 27.00 0 1 0.598869 -0.38
673 1022 3ecm (A) 492 818 30.00 0 1 0.703138 -0.69
677 1032 1taz (A) 162 501 32.00 0 1 0.600008 -0.39

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 ME49 merozoite, ME49 Oocyst. Hehl AB Fritz HM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile VEG Tachyzoite. Gregory
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile ME49 Tachyzoite, ME49 Bradyzoite. Gregory Sibley/Greg
Show/Hide expression data references
  • Hehl AB Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within feline enterocytes.
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Sibley/Greg ToxoDB
  • Gregory ToxoDB

Orthologs

Ortholog group members (OG5_239587)

Species Accession Gene Product
Neospora caninum NCLIV_012520   35-cyclic nucleotide phosphodiesterase, putative
Toxoplasma gondii TGME49_220420   3'5'-cyclic nucleotide phosphodiesterase domain-containing protein

Essentiality

TGME49_220420 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
TGME49_220420 this record 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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): 0.5

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

  • Assay for Phosphodiesterase, 3' 5'-Cyclic Nucleotide Crude Complex (3.1.4.17 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

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 TGME49_220420 (Toxoplasma gondii), 3'5'-cyclic nucleotide phosphodiesterase domain-containing protein
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