Detailed view for TGME49_240710

Basic information

TDR Targets ID: 262381
Toxoplasma gondii, RNA recognition motif-containing protein
Source Database / ID:  ToxoDB 

pI: 5.4632 | Length (AA): 929 | MW (Da): 102231 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF01805   Surp module

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  
GO:0006396   RNA processing  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 5 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
115 161 4zrj (B) 515 559 40.00 0.59 0.02 0.411092 -0.06
132 258 2ku7 (A) 18 139 23.00 0 1 0.469406 -0.64
344 402 2dt6 (A) 50 104 38.00 0.19 1 0.586009 -1.2
748 905 3na7 (A) 6 165 13.00 0.031 0 0.244775 -0.41
821 874 5hmo (A) 825 886 39.00 0.5 0.06 0.527627 -2.21

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
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • 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_129457)

Species Accession Gene Product
Arabidopsis thaliana AT5G10800   RNA recognition motif (RRM)-containing protein
Arabidopsis thaliana AT5G25060   RNA recognition motif-containing protein RRC1
Babesia bovis BBOV_III008490   surp module family protein
Brugia malayi Bm1_33370   Surp module family protein
Caenorhabditis elegans CELE_C07H6.4   Protein C07H6.4
Dictyostelium discoideum DDB_G0281687   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG9346   CG9346 gene product from transcript CG9346-RA
Echinococcus granulosus EgrG_001098000   U2 snRNP associated SURP motif containing
Echinococcus multilocularis EmuJ_001098000   U2 snRNP associated SURP motif containing
Homo sapiens ENSG00000163714   U2 snRNP-associated SURP domain containing
Loa Loa (eye worm) LOAG_01982   hypothetical protein
Mus musculus ENSMUSG00000032407   U2 snRNP-associated SURP domain containing
Neospora caninum NCLIV_016900   hypothetical protein
Oryza sativa 4328504   Os02g0179900
Onchocerca volvulus OVOC2891  
Plasmodium berghei PBANKA_1039300   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium falciparum PF3D7_1402700   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium knowlesi PKNH_1355400   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium vivax PVX_086295   U2 snRNP-associated SURP motif-containing protein, putative
Plasmodium yoelii PY00123   Drosophila melanogaster LD23810p
Schistosoma japonicum Sjp_0023880   U2-associated protein SR140, putative
Schistosoma mansoni Smp_161730   hypothetical protein
Schmidtea mediterranea mk4.000959.07  
Toxoplasma gondii TGME49_240710   RNA recognition motif-containing protein
Theileria parva TP04_0751   hypothetical protein, conserved

Essentiality

TGME49_240710 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
CELE_C07H6.4 Caenorhabditis elegans embryonic lethal wormbase
PBANKA_1039300 Plasmodium berghei Slow plasmo
TGME49_240710 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.

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.

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Gene identifier TGME49_240710 (Toxoplasma gondii), RNA recognition motif-containing protein
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