Detailed view for TGME49_202640
Basic information
Toxoplasma gondii, RNA pseudouridine synthase superfamily protein
Source Database / ID: ToxoDB
pI: 7.9643 |
Length (AA): 2251 |
MW (Da): 243404 |
Paralog Number:
0
Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0
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
Network
Pfam domains
Gene Ontology
GO:0003723 RNA binding
GO:0009451 RNA modification
GO:0001522 pseudouridine synthesis
Metabolic Pathways
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 |
|---|---|---|---|---|---|---|---|---|---|
| 1456 | 1685 | 1v9k (A) | 93 | 314 | 29.00 | 0 | 1 | 0.46 | -0.18 |
| 1459 | 1686 | 1v9k (A) | 97 | 315 | 29.00 | 0 | 1 | 0.32 | -0.22 |
| 107 | 991 | 2vz8 (B) | 401 | 1445 | 15.00 | 0 | 0.81 | 0.279359 | 1.5 |
| 573 | 664 | 2kr0 (A) | 211 | 308 | 34.00 | 0.9 | 0.04 | 0.0699707 | 1.4 |
| 1671 | 1812 | 5cwp (A) | 77 | 223 | 21.00 | 0.92 | 0.1 | 0.417783 | -1.92 |
| 1676 | 1830 | 5j1g (A) | 1079 | 1231 | 16.00 | 0.31 | 0.02 | 0.330558 | -1.37 |
| 1752 | 1914 | 3vmk (A) | 108 | 262 | 28.00 | 0.48 | 0.15 | 0.347512 | -0.65 |
| 1959 | 2186 | 2i82 (A) | 3 | 216 | 21.00 | 0.000018 | 1 | 0.299988 | 0.24 |
| 2017 | 2172 | 1v9k (A) | 141 | 289 | 40.00 | 0 | 1 | 0.448403 | 0.16 |
Help me make sense of these data.
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:
Expression
| Upregulation Percent | Ranking | Stage | Dataset |
|---|---|---|---|
| Lower 20-40% percentile | VEG Tachyzoite, ME49 Tachyzoite, ME49 Bradyzoite. | Gregory Sibley/Greg |
| Upregulation Percent | Ranking | Stage | Dataset |
|---|---|---|---|
| Lower 0-20% percentile | ME49 merozoite, ME49 Oocyst. | Hehl AB Fritz HM |
-
Sibley/Greg ToxoDB -
Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts. -
Gregory ToxoDB -
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.
Orthologs
Ortholog group members (OG5_208376)
| Species | Accession | Gene Product |
|---|---|---|
| Neospora caninum | NCLIV_022300 | RNA pseudouridylate synthase domain-containing protein, putative |
| Toxoplasma gondii | TGME49_202640 | RNA pseudouridine synthase superfamily protein |
Essentiality
| Gene/Ortholog | Organism | Phenotype | Source Study |
|---|---|---|---|
| TGME49_202640 this record | Toxoplasma gondii | Essentiality uncertain | sidik |
-
neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs -
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 -
gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84 -
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 -
shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan -
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
Phenotypes and Validation (curated)
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
Associated compounds / Druggability
Druggability index (range: 0 to 1): 0.3
Known modulators for this target
Predicted associations
By orthology with druggable targets
By sequence similarity to non orthologous druggable targets
Obtained from network model
Assayability
Assay information
Reagent availability
Bibliographic References