Detailed view for TGME49_203080

Basic information

TDR Targets ID: 262591
Toxoplasma gondii, RNA recognition motif-containing protein
Source Database / ID:  ToxoDB 

pI: 10.2502 | Length (AA): 302 | MW (Da): 32684 | 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)

Gene Ontology

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

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
94 214 1x4b (A) 3 115 25.00 0 1 0.52 0.53
124 244 1fxl (A) 37 155 23.00 0 1 0.72 -0.22
128 238 1cvj (A) 13 123 28.00 0 1 0.76 -0.36
128 202 1rk8 (A) 75 149 21.00 0 1 0.75 -2.04
57 214 2kn4 (A) 6 158 21.00 0 1 0.783879 -0.07
127 188 4a8x (A) 162 224 29.00 0.99 1 0.724298 -1.5
128 199 1p27 (B) 75 146 25.00 0.076 1 0.785411 -2.08
156 203 2dgw (A) 323 368 48.00 0.012 0.91 0.68994 -0.11

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

Orthologs

Ortholog group members (OG5_129161)

Species Accession Gene Product
Arabidopsis thaliana AT3G04500   RNA recognition motif-containing protein
Babesia bovis BBOV_II004860   RNA recognition motif (RRM)-containing protein
Brugia malayi Bm1_40380   RNA recognition motif.
Candida albicans CaO19.444   RRM-containing orf similar to S. pombe SPAC22E12.02
Candida albicans CaO19.8074   RRM-containing orf similar to S. pombe SPAC22E12.02
Caenorhabditis elegans CELE_Y54H5A.3   Protein TAG-262
Cryptosporidium hominis Chro.10128   RNA recognition motif
Cryptosporidium parvum cgd1_1070   RRM domain protein
Dictyostelium discoideum DDB_G0277875   ssRNA-binding protein
Drosophila melanogaster Dmel_CG2931   CG2931 gene product from transcript CG2931-RA
Echinococcus granulosus EgrG_000727000   RNA binding protein 42
Entamoeba histolytica EHI_194440   RNA recognition motif domain containing protein
Echinococcus multilocularis EmuJ_000727000   RNA binding protein 42
Homo sapiens ENSG00000126254   RNA binding motif protein 42
Loa Loa (eye worm) LOAG_04208   RNA recognition domain-containing protein
Mus musculus ENSMUSG00000036733   RNA binding motif protein 42
Neospora caninum NCLIV_021850   RNA recognition motif-containing protein, putative
Oryza sativa 4346363   Os08g0567200
Plasmodium berghei PBANKA_1136300   RNA-binding protein, putative
Plasmodium falciparum PF3D7_1360100   RNA-binding protein, putative
Plasmodium knowlesi PKNH_1111200   RNA-binding protein, putative
Plasmodium vivax PVX_114975   RNA-binding protein, putative
Plasmodium yoelii PY00947   RNA recognition motif, putative
Toxoplasma gondii TGME49_203080   RNA recognition motif-containing protein
Theileria parva TP02_0264   hypothetical protein, conserved
Trichomonas vaginalis TVAG_004040   rrm-containing protein, putative

Essentiality

TGME49_203080 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
CELE_Y54H5A.3 Caenorhabditis elegans sterile wormbase
TGME49_203080 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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.

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

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Gene identifier TGME49_203080 (Toxoplasma gondii), RNA recognition motif-containing protein
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