Detailed view for TGME49_262410

Basic information

TDR Targets ID: 258305
Toxoplasma gondii, WD domain, G-beta repeat-containing protein
Source Database / ID:  ToxoDB 

pI: 6.6921 | Length (AA): 1944 | MW (Da): 209084 | Paralog Number: 0

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

Druggability Group : DG3

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

PF00400   WD domain, G-beta repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 12 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
40 196 5k1b (B) 113 288 28.00 0.021 1 0.286761 0.06
41 157 2pbi (B) 236 350 31.00 0.0056 0.85 0.323185 0.14
41 159 3fm0 (A) 58 177 34.00 0.00006 1 0.443214 -0.3
43 160 4xyh (A) 231 351 31.00 0.26 0.99 0.4497 -0.48
55 160 5igo (A) 475 576 30.00 0.28 1 0.383527 -0.37
199 261 2kr0 (A) 187 248 45.00 0.011 0.01 0.232407 2.13
704 828 2dba (A) 21 143 28.00 0.15 1 0.4073 -0.21
1078 1173 4dt5 (A) 42 137 20.00 0 0.12 0.275483 -0.77
1663 1944 2ovr (B) 2317 2588 16.00 0.000000013 0.81 0.249762 0.69
1820 1885 5fa5 (B) 137 202 32.00 0.7 0.5 0.388951 -0.43
1821 1881 4wju (A) 156 216 33.00 0.016 0.58 0.377379 -0.16
1846 1878 5cxb (B) 448 480 45.00 0.31 0.18 0.348975 1.08

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 Tachyzoite, ME49 Bradyzoite. Gregory Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile VEG Tachyzoite, ME49 Oocyst. Gregory Fritz HM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile ME49 merozoite. Hehl AB
Show/Hide expression data references
  • 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_130906)

Species Accession Gene Product
Arabidopsis thaliana AT5G10940   WD and tetratricopeptide repeats protein 1
Babesia bovis BBOV_IV005530   WD domain, G-beta repeat containing protein
Brugia malayi Bm1_26055   hypothetical protein
Brugia malayi Bm1_54775   WD and tetratricopeptide repeats protein 1
Caenorhabditis elegans CELE_Y73E7A.9   Protein ADPR-1
Drosophila melanogaster Dmel_CG5124   adipose
Homo sapiens ENSG00000142784   WD and tetratricopeptide repeats 1
Loa Loa (eye worm) LOAG_09511   hypothetical protein
Mus musculus ENSMUSG00000037622   WD and tetratricopeptide repeats 1
Neospora caninum NCLIV_025420   Os06g0724500 protein, related
Plasmodium falciparum PF3D7_1428400   WD and tetratricopeptide repeats protein 1, putative
Schistosoma mansoni Smp_178480   hypothetical protein
Schmidtea mediterranea mk4.020945.01   WD and tetratricopeptide repeats protein 1
Schmidtea mediterranea mk4.020460.00  
Schmidtea mediterranea mk4.022877.00   WD and tetratricopeptide repeats protein 1
Schmidtea mediterranea mk4.020945.00  
Toxoplasma gondii TGME49_262410   WD domain, G-beta repeat-containing protein

Essentiality

TGME49_262410 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
TGME49_262410 this record Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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.

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User comments

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Gene identifier TGME49_262410 (Toxoplasma gondii), WD domain, G-beta repeat-containing protein
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