Detailed view for TGME49_246760

Basic information

TDR Targets ID: 262152
Toxoplasma gondii, hypothetical protein
Source Database / ID:  ToxoDB 

pI: 6.5282 | Length (AA): 2831 | MW (Da): 314543 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0005515   protein binding  
GO:0006396   RNA processing  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
10 139 2ho1 (A) 63 191 12.00 0.19 0.01 0.19502 -0.53
148 614 2ooe (A) 23 387 26.00 0.000018 1 -0.107941 1.12
496 558 5ctr (A) 309 371 32.00 0.9 0.93 0.629354 -2.15
2040 2178 1c1g (A) 14 139 18.00 0.66 0 0.132199 -0.28

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
Mid 40-60% percentile ME49 merozoite, ME49 Oocyst. Hehl AB Fritz HM
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 Bradyzoite. Gregory Sibley/Greg
Show/Hide expression data references
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Sibley/Greg ToxoDB
  • 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_129904)

Species Accession Gene Product
Arabidopsis thaliana AT1G04080   pre-mRNA-processing factor 39
Brugia malayi Bm1_52755   PRPF39 protein
Caenorhabditis elegans CELE_F25B4.5   Protein F25B4.5
Dictyostelium discoideum DDB_G0283307   pre-mRNA processing factor 39
Drosophila melanogaster Dmel_CG1646   CG1646 gene product from transcript CG1646-RC
Echinococcus granulosus EgrG_000379000   pre mRNA processing factor 39
Echinococcus multilocularis EmuJ_000379000   pre mRNA processing factor 39
Homo sapiens ENSG00000185246   pre-mRNA processing factor 39
Loa Loa (eye worm) LOAG_00030   PRPF39 protein
Mus musculus ENSMUSG00000035597   PRP39 pre-mRNA processing factor 39 homolog (yeast)
Neospora caninum NCLIV_063530   PRPF39 protein, related
Oryza sativa 4332022   Os03g0210400
Plasmodium yoelii PY07220   hypothetical protein
Schistosoma japonicum Sjp_0107730   Pre-mRNA-processing factor 39, putative
Schistosoma japonicum Sjp_0074060   Pre-mRNA-processing factor 39, putative
Schistosoma mansoni Smp_170570   pre-mRNA processing protein prp39-related
Toxoplasma gondii TGME49_246760   hypothetical protein
Trichomonas vaginalis TVAG_102960   conserved hypothetical protein

Essentiality

TGME49_246760 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
CELE_F25B4.5 Caenorhabditis elegans embryonic lethal wormbase
TGME49_246760 this record Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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

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_246760 (Toxoplasma gondii), hypothetical protein
Title for this comment
Comment