Detailed view for TGME49_285170

Basic information

TDR Targets ID: 262935
Toxoplasma gondii, ribosomal RNA large subunit methyltransferase I, putative
Source Database / ID:  ToxoDB 

pI: 8.783 | Length (AA): 853 | MW (Da): 93412 | Paralog Number: 1

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

PF02475   Met-10+ like-protein

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 7 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
41 532 2as0 (A) 4 395 23.00 0 1 0.86 0.17
335 471 2avd (A) 89 210 19.00 0.0000042 0.92 0.4 -1.05
22 443 4k6j (A) 691 1165 11.00 0 0.05 0.548024 -0.08
369 850 3c0k (A) 3 395 26.00 0 1 0.624864 0.7
648 798 3p9n (A) 13 156 21.00 0 0.97 0.383322 -0.79
656 800 3cbg (A) 47 176 19.00 0 0.99 0.370288 -0.61
670 744 5jdz (B) 40 124 39.00 0.71 1 0.187525 0.32

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

Orthologs

Ortholog group members (OG5_129977)

Species Accession Gene Product
Dictyostelium discoideum DDB_G0273547   hypothetical protein
Dictyostelium discoideum DDB_G0273417   hypothetical protein
Escherichia coli b0967   23S rRNA m(5)C1962 methyltransferase, SAM-dependent
Neospora caninum NCLIV_034210   hypothetical protein, conserved
Neospora caninum NCLIV_015020   Ribosomal RNA large subunit methyltransferase I (EC 2.1.1.-), related
Oryza sativa 4328457   Os02g0173700
Plasmodium berghei PBANKA_1314300   S-adenosylmethionine-dependent methyltransferase, putative
Plasmodium berghei PBANKA_1459600   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1246500   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1450600   S-adenosylmethionine-dependent methyltransferase, putative
Plasmodium knowlesi PKNH_1231500   S-adenosylmethionine-dependent methyltransferase, putative
Plasmodium knowlesi PKNH_1466200   hypothetical protein, conserved in Apicomplexan species
Plasmodium vivax PVX_117950   S-adenosylmethionine-dependent methyltransferase, putative
Plasmodium vivax PVX_101220   hypothetical protein, conserved
Plasmodium yoelii PY01988   hypothetical protein
Plasmodium yoelii PY00407   hypothetical protein
Toxoplasma gondii TGME49_285170   ribosomal RNA large subunit methyltransferase I, putative
Toxoplasma gondii TGME49_273430   SAM-dependent methyltransferase

Essentiality

TGME49_285170 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
b0967 Escherichia coli non-essential goodall
PBANKA_1459600 Plasmodium berghei Essential plasmo
TGME49_273430 Toxoplasma gondii Probably essential sidik
TGME49_285170 this record Toxoplasma gondii Probably essential sidik
TGME49_273430 Toxoplasma gondii Essentiality uncertain sidik
TGME49_285170 this record Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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.
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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_285170 (Toxoplasma gondii), ribosomal RNA large subunit methyltransferase I, putative
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