Detailed view for TGME49_266880

Basic information

TDR Targets ID: 260198
Toxoplasma gondii, dihydrouridine synthase, putative
Source Database / ID:  ToxoDB 

pI: 7.4163 | Length (AA): 394 | MW (Da): 44052 | Paralog Number: 0

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

Druggability Group : DG1

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

PF01207   Dihydrouridine synthase (Dus)

Gene Ontology

Mouse over links to read term descriptions.
GO:0002943   GO:tRNA dihydrouridine synthesis  

GO:0050660   FAD binding  
GO:0017150   tRNA dihydrouridine synthase activity  
GO:0003824   catalytic activity  
GO:0055114   oxidation reduction  
GO:0008152   metabolic process  
GO:0008033   tRNA processing  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 7 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
14 363 1vhn (A) 6 309 22.00 0 1 0.99 -0.57
14 363 1vhn (A) 6 309 23.00 0 0.99 1.08 -0.4
15 178 1vhn (A) 7 162 33.00 0 1 0.88 -0.98
8 181 3fa3 (A) 15 196 13.00 0 0.53 0.459824 0.06
12 335 3b0p (A) 3 293 39.00 0 1 1.16053 -0.27
13 364 3b0p (A) 4 318 35.00 0.000000000036 1 1.232 -0.48
70 180 3qyq (A) 78 179 18.00 0 0.94 0.578926 -1.4

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 VEG Tachyzoite, ME49 Tachyzoite, ME49 Oocyst, ME49 Bradyzoite. Gregory Fritz HM Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile ME49 merozoite. Hehl AB
Show/Hide expression data references
  • 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.
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Sibley/Greg ToxoDB

Orthologs

Ortholog group members (OG5_130830)

Species Accession Gene Product
Arabidopsis thaliana AT3G63510   FMN-linked oxidoreductases superfamily protein
Babesia bovis BBOV_I002610   dihydrouridine synthase (Dus) domain containing protein
Cryptosporidium hominis Chro.20381   uncharacterized protein family UPF0034
Cryptosporidium parvum cgd2_3570   YjbN-like Dus1p tRNA dihydouriding synthase Tim barrel
Dictyostelium discoideum DDB_G0277081   hypothetical protein
Escherichia coli b4049   tRNA-dihydrouridine synthase A
Neospora caninum NCLIV_039180   hypothetical protein
Oryza sativa 4335364   Os04g0278900
Plasmodium berghei PBANKA_0819700   dihydrouridine synthase, putative
Plasmodium falciparum PF3D7_0918800   dihydrouridine synthase, putative
Plasmodium knowlesi PKNH_0716800   dihydrouridine synthase, putative
Plasmodium vivax PVX_099355   tRNA-dihydrouridine synthase A, putative
Plasmodium yoelii PY06801   Uncharacterized protein family UPF0034, putative
Toxoplasma gondii TGME49_266880   dihydrouridine synthase, putative
Theileria parva TP01_0028   tRNA-dihydrouridine synthase A, putative

Essentiality

TGME49_266880 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
b4049 Escherichia coli non-essential goodall
PBANKA_0819700 Plasmodium berghei Slow plasmo
TGME49_266880 this record Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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
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

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier TGME49_266880 (Toxoplasma gondii), dihydrouridine synthase, putative
Title for this comment
Comment