Detailed view for Tb927.10.5300

Basic information

TDR Targets ID: 12082
Trypanosoma brucei, eukaryotic translation initiation factor 6 (eIF-6), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7999 | Length (AA): 248 | MW (Da): 26925 | 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

PF01912   eIF-6 family

Gene Ontology

Mouse over links to read term descriptions.
GO:0043022   ribosome binding  
GO:0042256   mature ribosome assembly  

Metabolic Pathways

Ribosome biogenesis in eukaryotes (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
1 224 1g62 (A) 1 224 62.00 0 1 1.78143 -1.63

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
NA% 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_127488)

Species Accession Gene Product
Arabidopsis thaliana AT3G55620   eukaryotic translation initiation factor 6A
Arabidopsis thaliana AT2G39820   translation initiation factor eIF-6
Babesia bovis BBOV_III005890   translation initiation factor eIF-6 family protein
Brugia malayi Bm1_48455   Eukaryotic translation initiation factor 6
Candida albicans CaO19.1815   similar to S. cerevisiae 60S ribosomal factor TIF6 (YPR016C) ribosmal maturation factor that resembles a translation initiation
Candida albicans CaO19.9378   similar to S. cerevisiae 60S ribosomal factor TIF6 (YPR016C) ribosmal maturation factor that resembles a translation initiation
Caenorhabditis elegans CELE_C47B2.5   Protein EIF-6
Cryptosporidium hominis Chro.40357   eukaryotic translation initiation factor 6-like protein
Cryptosporidium parvum cgd4_3130   putative eIF6, translation initiation factor 6
Dictyostelium discoideum DDB_G0276493   eukaryotic translation initiation factor 6
Drosophila melanogaster Dmel_CG17611   CG17611 gene product from transcript CG17611-RA
Echinococcus granulosus EgrG_000473400   eukaryotic translation initiation factor 6
Entamoeba histolytica EHI_006170   eukaryotic translation initiation factor 6, putative
Echinococcus multilocularis EmuJ_000473400   eukaryotic translation initiation factor 6
Giardia lamblia GL50803_14606   Translation initiation factor 6
Homo sapiens ENSG00000242372   eukaryotic translation initiation factor 6
Leishmania braziliensis LbrM.35.1010   eukaryotic translation initiation factor 6 (eIF-6), putative
Leishmania donovani LdBPK_360950.1   Eukaryotic translation initiation factor 6 (eIF- 6), putative
Leishmania infantum LinJ.36.0950   eukaryotic translation initiation factor 6 (eIF-6), putative
Leishmania major LmjF.36.0890   eukaryotic translation initiation factor 6 (eIF-6), putative
Leishmania mexicana LmxM.36.0890   eukaryotic translation initiation factor 6 (eIF-6), putative
Loa Loa (eye worm) LOAG_01814   eukaryotic translation initiation factor 6
Mus musculus ENSMUSG00000027613   eukaryotic translation initiation factor 6
Neospora caninum NCLIV_010860   eukaryotic translation initiation factor 6, putative
Oryza sativa 4326910   Os01g0280500
Oryza sativa 4344055   Os07g0639800
Plasmodium berghei PBANKA_1347600   eukaryotic translation initiation factor 6, putative
Plasmodium falciparum PF3D7_1332800   eukaryotic translation initiation factor 6, putative
Plasmodium knowlesi PKNH_1267800   eukaryotic translation initiation factor 6, putative
Plasmodium vivax PVX_082570   eukaryotic translation initiation factor 6, putative
Plasmodium yoelii PY01848   eukaryotic translation initiation factor 6-like protein
Saccharomyces cerevisiae YPR016C   translation initiation factor 6
Schistosoma japonicum Sjp_0086340   ko:K03264 translation initiation factor eIF-6, putative
Schistosoma mansoni Smp_080740   translation initiation factor
Schmidtea mediterranea mk4.000950.05   Eukaryotic translation initiation factor 6
Trypanosoma brucei gambiense Tbg972.10.6460   eukaryotic translation initiation factor 6 (eIF-6), putative
Trypanosoma brucei Tb927.10.5300   eukaryotic translation initiation factor 6 (eIF-6), putative
Trypanosoma congolense TcIL3000_10_4450   eukaryotic translation initiation factor 6, putative
Trypanosoma cruzi TcCLB.506679.70   eukaryotic translation initiation factor 6 (eIF-6), putative
Toxoplasma gondii TGME49_318700   eukaryotic initiation factor-6, putative
Theileria parva TP02_0333   translation initiation factor 6, putative
Trichomonas vaginalis TVAG_009780   translation initiation factor, putative
Trichomonas vaginalis TVAG_226920   translation initiation factor, putative

Essentiality

Tb927.10.5300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.5300 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.5300 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.5300 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.5300 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C47B2.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_C47B2.5 Caenorhabditis elegans larval arrest wormbase
CELE_C47B2.5 Caenorhabditis elegans larval lethal wormbase
CELE_C47B2.5 Caenorhabditis elegans slow growth wormbase
CELE_C47B2.5 Caenorhabditis elegans sterile wormbase
YPR016C Saccharomyces cerevisiae inviable yeastgenome
TGME49_318700 Toxoplasma gondii Probably 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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

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 3 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in procyclic forms . References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) 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 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.

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Gene identifier Tb927.10.5300 (Trypanosoma brucei), eukaryotic translation initiation factor 6 (eIF-6), putative
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