Detailed view for TGME49_255250

Basic information

TDR Targets ID: 262321
Toxoplasma gondii, tRNA (cytosine(34)-C(5))-methyltransferase, putative
Source Database / ID:  ToxoDB 

pI: 7.1109 | Length (AA): 1066 | MW (Da): 116295 | 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

PF01189   16S rRNA methyltransferase RsmB/F

Gene Ontology

Mouse over links to read term descriptions.
GO:0016428   tRNA (cytosine-5-)-methyltransferase activity  
GO:0008168   methyltransferase activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
22 458 1sqg (A) 88 415 22.00 0 0.85 0.230344 1.36
72 534 4fzv (A) 46 382 21.00 0 1 0.162734 1.23
182 443 3ajd (A) 66 236 35.00 0.00013 0.54 -0.229421 1.82
359 556 3m6w (A) 171 394 32.00 0.00000032 0.78 0.300541 0.76
548 699 5cwh (A) 2 148 11.00 0 0.01 0.321989 -1.21

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
Mid 40-60% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite. Gregory Hehl AB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile ME49 Oocyst, ME49 Bradyzoite. Fritz HM 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_127434)

Species Accession Gene Product
Arabidopsis thaliana AT2G22400   S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Arabidopsis thaliana AT4G40000   S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Babesia bovis BBOV_IV000560   proliferating-cell nucleolar protein, putative
Brugia malayi Bm1_48945   Helicase conserved C-terminal domain containing protein
Candida albicans CaO19.518   nuclear protein 1
Candida albicans CaO19.8149   nuclear protein 1
Caenorhabditis elegans CELE_Y48G8AL.5   Protein Y48G8AL.5
Cryptosporidium hominis Chro.50016   FLJ20303 protein
Cryptosporidium parvum cgd5_3560   CNcl1p/MJ0026/YebU-like. SUN family methylase
Dictyostelium discoideum DDB_G0295715   NOL1/NOP2/Sun family protein
Drosophila melanogaster Dmel_CG6133   NOP2-Sun domain family, member 2 ortholog
Echinococcus granulosus EgrG_000210000   tRNA cytosine34 C5 methyltransferase
Entamoeba histolytica EHI_103830   tRNA (cytosine-5-)-methyltransferase, putative
Entamoeba histolytica EHI_098500   tRNA (cytosine-5-)-methyltransferase, putative
Echinococcus multilocularis EmuJ_000210000   tRNA (cytosine(34) C(5)) methyltransferase
Giardia lamblia GL50803_17199   Sun/nucleolar protein family protein
Homo sapiens ENSG00000037474   NOP2/Sun RNA methyltransferase family, member 2
Leishmania braziliensis LbrM.35.2410   hypothetical protein, conserved
Leishmania braziliensis LbrM.29.2510   hypothetical protein, conserved
Leishmania donovani LdBPK_292650.1   NOL1/NOP2/sun family, putative
Leishmania donovani LdBPK_362300.1   NOL1/NOP2/sun family, putative
Leishmania infantum LinJ.36.2300   hypothetical protein, conserved
Leishmania infantum LinJ.29.2650   hypothetical protein, conserved
Leishmania major LmjF.29.2540   hypothetical protein, conserved
Leishmania major LmjF.36.2170   hypothetical protein, conserved
Leishmania mexicana LmxM.36.2170   hypothetical protein, conserved
Leishmania mexicana LmxM.08_29.2540   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_15436   hypothetical protein
Loa Loa (eye worm) LOAG_03250   hypothetical protein
Loa Loa (eye worm) LOAG_10108   hypothetical protein
Loa Loa (eye worm) LOAG_10109   hypothetical protein
Mus musculus ENSMUSG00000021595   NOL1/NOP2/Sun domain family member 2
Neospora caninum NCLIV_028690   Multisite-specific tRNA m(5)C methyltransferase (EC 2.1.1.-), related
Neospora caninum NCLIV_001440   NOL1/NOP2/sun family methyltransferase, related
Oryza sativa 4345871   Os08g0484400
Oryza sativa 4347343   Os09g0471900
Onchocerca volvulus OVOC13429  
Plasmodium berghei PBANKA_0801900   methyltransferase, putative
Plasmodium falciparum PF3D7_0704200   tRNA m5C-methyltransferase, putative
Plasmodium knowlesi PKNH_0102400   NOL1/NOP2/sun family methyltransferase
Plasmodium vivax PVX_087750   hypothetical protein, conserved
Plasmodium yoelii PY01948   similar to yeast ncl1-related
Saccharomyces cerevisiae YBL024W   Ncl1p
Schistosoma japonicum Sjp_0050480   ko:K00558 DNA (cytosine-5-)-methyltransferase [EC2.1.1.37], putative
Schistosoma mansoni Smp_175950   methyltransferase ncl1
Trypanosoma brucei gambiense Tbg972.10.8190   hypothetical protein, conserved,member of the NOL1/NOP2/sun family of proteins
Trypanosoma brucei gambiense Tbg972.3.3390   hypothetical protein, conserved
Trypanosoma brucei Tb927.3.3230   NOL1/NOP2/sun family, putative
Trypanosoma brucei Tb927.10.6680   member of the NOL1/NOP2/sun family of proteins
Trypanosoma congolense TcIL3000_3_2120   NOL1/NOP2/sun family, putative
Trypanosoma congolense TcIL3000_10_5740   member of the NOL1/NOP2/sun family of proteins
Trypanosoma cruzi TcCLB.510321.20   NOL1/NOP2/sun family, putative
Trypanosoma cruzi TcCLB.510187.240   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508153.370   NOL1/NOP2/sun family, putative
Trypanosoma cruzi TcCLB.506699.3   NOL1/NOP2/sun family, putative
Toxoplasma gondii TGME49_294440   NOL1/NOP2/sun family protein
Toxoplasma gondii TGME49_255250   tRNA (cytosine(34)-C(5))-methyltransferase, putative
Theileria parva TP01_0076   hypothetical protein, conserved
Trichomonas vaginalis TVAG_079770   tRNA and rRNA cytosine-C5-methylase, putative
Trichomonas vaginalis TVAG_380890   ribosomal RNA small subunit methyltransferase B, putative
Trichomonas vaginalis TVAG_427320   ribosomal RNA small subunit methyltransferase B, putative

Essentiality

TGME49_255250 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6680 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6680 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6680 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6680 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.3.3230 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.3230 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.3230 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.3230 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_294440 Toxoplasma gondii Essentiality uncertain sidik
TGME49_255250 this record Toxoplasma gondii Essentiality uncertain sidik
TGME49_294440 Toxoplasma gondii Probably non-essential sidik
TGME49_255250 this record Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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
  • 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.

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

2 literature references were collected for this gene.

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_255250 (Toxoplasma gondii), tRNA (cytosine(34)-C(5))-methyltransferase, putative
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