Detailed view for Tb927.11.11660

Basic information

TDR Targets ID: 18474
Trypanosoma brucei, conserved protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.3518 | Length (AA): 362 | MW (Da): 39791 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF08704   tRNA methyltransferase complex GCD14 subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0031515   tRNA (m1A) methyltransferase complex  
GO:0016429   tRNA (adenine-N1-)-methyltransferase activity  
GO:0030488   tRNA methylation  

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
61 385 5ccb (A) 3 288 39.00 0 1 1.05277 0.14
61 396 5eqj (B) 6 376 30.00 0 1 0.9969 0.46
148 387 1o54 (A) 80 261 40.00 0 1 0.753471 -0.02
161 219 2ipx (A) 153 213 36.00 0.033 0.72 0.554543 -0.21
164 266 1uwv (A) 282 382 21.00 0 0.98 0.572156 -0.77

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 Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_127534)

Species Accession Gene Product
Arabidopsis thaliana AT5G14600   S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Babesia bovis BBOV_II005260   conserved hypothetical protein
Brugia malayi Bm1_15025   GCD14 protein
Candida albicans CaO19.7291   similar to S. cerevisiae GCD14 (YJL125C) tRNA(1-methyladenosine) methyltransferase subunit, translational repressor of GCN4
Caenorhabditis elegans CELE_W02A11.1   Protein W02A11.1
Cryptosporidium hominis Chro.50131   similar to CG14544 gene product
Cryptosporidium parvum cgd5_2470   GCD14 RNA methylase
Dictyostelium discoideum DDB_G0271512   tRNA (adenine-N(1)-)-methyltransferase catalytic subunit
Drosophila melanogaster Dmel_CG14544   CG14544 gene product from transcript CG14544-RA
Echinococcus granulosus EgrG_000079300   tRNA adenine N1 methyltransferase catalytic
Entamoeba histolytica EHI_039210   tRNA -methyltransferase catalytic subunit, putative
Entamoeba histolytica EHI_175220   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_000079300   tRNA (adenine N1) methyltransferase catalytic
Giardia lamblia GL50803_8691   tRNA methyltransferase subunit, putative
Homo sapiens ENSG00000166166   tRNA methyltransferase 61A
Leishmania braziliensis LbrM.28.2600   hypothetical protein, conserved
Leishmania donovani LdBPK_282570.1   tRNA methyltransferase complex GCD14 subunit, putative
Leishmania infantum LinJ.28.2570   hypothetical protein, conserved
Leishmania major LmjF.28.2400   hypothetical protein, conserved
Leishmania mexicana LmxM.28.2400   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06189   hypothetical protein
Mycobacterium leprae ML1313   POSSIBLE RNA METHYLTRANSFERASE
Mus musculus ENSMUSG00000060950   tRNA methyltransferase 61A
Mycobacterium tuberculosis Rv2118c   RNA methyltransferase
Mycobacterium ulcerans MUL_2340   RNA methyltransferase
Neospora caninum NCLIV_044810   tRNA (adenine-N(1)-)-methyltransferase catalytic subunit, putative
Oryza sativa 4335469   Os04g0319600
Oryza sativa 4335490   Os04g0326300
Plasmodium berghei PBANKA_1414200   tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRM61, putative
Plasmodium falciparum PF3D7_1315700   tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRM61, putative
Plasmodium knowlesi PKNH_1416400   tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRM61, putative
Plasmodium vivax PVX_122610   tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRM61, putative
Plasmodium yoelii PY06950   similar to CG14544 gene product, putative
Saccharomyces cerevisiae YJL125C   Gcd14p
Schistosoma japonicum Sjp_0205450   ko:K07442 tRNA (adenine-N1-)-methyltransferase [EC2.1.1.36], putative
Schistosoma mansoni Smp_194620   methyltransferase
Schmidtea mediterranea mk4.000453.02   Methyltransferase, putative
Trypanosoma brucei gambiense Tbg972.11.13080   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.11660   conserved protein
Trypanosoma congolense TcIL3000.11.12270   conserved protein
Trypanosoma cruzi TcCLB.507527.10   conserved protein
Toxoplasma gondii TGME49_306630   tRNA methyltransferase complex GCD14 subunit protein
Theileria parva TP02_0831   hypothetical protein, conserved

Essentiality

Tb927.11.11660 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.3530 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.3530 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.3530 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb11.01.3530 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_W02A11.1 Caenorhabditis elegans slow growth wormbase
YJL125C Saccharomyces cerevisiae inviable yeastgenome
TGME49_306630 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

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 Tb927.11.11660 (Trypanosoma brucei), conserved protein
Title for this comment
Comment