Detailed view for TGME49_243540

Basic information

TDR Targets ID: 261793
Toxoplasma gondii, WD domain, G-beta repeat-containing protein
Source Database / ID:  ToxoDB 

pI: 6.5786 | Length (AA): 711 | MW (Da): 77280 | Paralog Number: 0

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

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

PF00400   WD domain, G-beta repeat
PF08799   pre-mRNA processing factor 4 (PRP4) like

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0008380   RNA splicing  

Metabolic Pathways

Spliceosome (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
94 124 1mzw (B) 106 136 61.00 0.00019 1 0.747501 -0.08
323 688 3ow8 (A) 6 303 30.00 0 1 0.642668 -0.07
457 537 3vl1 (A) 133 213 30.00 0.000006 0.59 0.546824 -0.83
500 537 4u7a (A) 435 472 47.00 0.12 0.85 0.547346 0.52

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, ME49 Tachyzoite, ME49 Bradyzoite. Gregory Sibley/Greg
Show/Hide expression data references
  • Sibley/Greg 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.
  • Gregory ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.

Orthologs

Ortholog group members (OG5_128652)

Species Accession Gene Product
Arabidopsis thaliana AT2G41500   splicing factor PRP4-like protein LACHESIS
Babesia bovis BBOV_I003610   WD domain, G-beta repeat domain containing protein
Brugia malayi Bm1_41875   U4/U6 small nuclear ribonucleoprotein hPrp4
Candida albicans CaO19.7343   WD40 repeat protein similar to S. cerevisiae PRP4 (YPR178W) spliceosomal U4/U6 snRNP 60 kd protein
Caenorhabditis elegans CELE_C36B1.5   Protein PRP-4
Cryptosporidium hominis Chro.50272   WD-40 repeat protein family / small nuclear ribonucleoprotein Prp4p-related
Cryptosporidium parvum cgd5_1130   WD-40 repeat protein family / small nuclear ribonucleoprotein Prp4p-related
Dictyostelium discoideum DDB_G0287635   U4/U6 small nuclear ribonucleoprotein
Drosophila melanogaster Dmel_CG6322   U4-U6 small nuclear riboprotein factor 60K
Echinococcus granulosus EgrG_000792350   U4:U6 small nuclear ribonucleoprotein Prp4
Entamoeba histolytica EHI_040300   WD domain containing protein
Echinococcus multilocularis EmuJ_000792350   U4:U6 small nuclear ribonucleoprotein Prp4
Homo sapiens ENSG00000136875   pre-mRNA processing factor 4
Loa Loa (eye worm) LOAG_05583   U4/U6 small nuclear ribonucleoprotein hPrp4
Mus musculus ENSMUSG00000066148   PRP4 pre-mRNA processing factor 4 homolog (yeast)
Neospora caninum NCLIV_018260   U4/U6 small nuclear ribonucleoprotein, putative
Oryza sativa 4332861   Os03g0355200
Plasmodium berghei PBANKA_1356900   U4/U6 small nuclear ribonucleoprotein PRP4, putative
Plasmodium falciparum PF3D7_1343900   U4/U6 small nuclear ribonucleoprotein PRP4, putative
Plasmodium knowlesi PKNH_1257500   U4/U6 small nuclear ribonucleoprotein PRP4, putative
Plasmodium vivax PVX_083090   U4/U6 small nuclear ribonucleoprotein PRP4, putative
Plasmodium yoelii PY05621   Homo sapiens RIKEN cDNA 1600015H11 gene-related
Saccharomyces cerevisiae YPR178W   Prp4p
Schistosoma japonicum Sjp_0310570   similar to UPF0458 protein C7orf42 homolog, putative
Schistosoma japonicum Sjp_0028890   ko:K08827 pre-mRNA-processing factor 4, putative
Schistosoma japonicum Sjp_0206580   Conserved hypothetical protein
Schistosoma mansoni Smp_169060   hypothetical protein
Schmidtea mediterranea mk4.000224.00   U4/U6 small nuclear ribonucleoprotein Prp4
Schmidtea mediterranea mk4.000224.02   U4/U6 small nuclear ribonucleoprotein Prp4
Toxoplasma gondii TGME49_243540   WD domain, G-beta repeat-containing protein
Theileria parva TP01_0483   hypothetical protein, conserved
Trichomonas vaginalis TVAG_063230   WD-repeat protein, putative

Essentiality

TGME49_243540 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
CELE_C36B1.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_C36B1.5 Caenorhabditis elegans larval arrest wormbase
CELE_C36B1.5 Caenorhabditis elegans slow growth wormbase
CELE_C36B1.5 Caenorhabditis elegans sterile wormbase
YPR178W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1356900 Plasmodium berghei Essential plasmo
TGME49_243540 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
Species Known druggable target Linked compounds Reference
Homo sapiens pre-mRNA processing factor 4 Compounds References
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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Gene identifier TGME49_243540 (Toxoplasma gondii), WD domain, G-beta repeat-containing protein
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