Detailed view for Tb927.9.11300

Basic information

TDR Targets ID: 19924
Trypanosoma brucei, Mitochondrial ribosomal protein S17
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.3432 | Length (AA): 307 | MW (Da): 35602 | 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

PF00366   Ribosomal protein S17

Gene Ontology

Mouse over links to read term descriptions.
GO:0000314   organellar small ribosomal subunit  
GO:0022627   cytosolic small ribosomal subunit  
GO:0005840   ribosome  
GO:0005622   intracellular  
GO:0003735   structural constituent of ribosome  
GO:0006412   translation  

Metabolic Pathways

Ribosome (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
90 169 1qd7 (I) 5 84 33.00 0.000000000019 0.68 0.447586 1.78
95 176 1i94 (Q) 7 92 32.00 0 0.74 0.480701 1.1
127 222 1lc0 (A) 100 197 31.00 0.21 0.02 0.265504 2.23
172 292 5cwn (A) 91 206 16.00 0.79 0.26 0.579137 -0.92
184 287 5cwj (A) 2 104 16.00 0.5 0.16 0.587762 -1.26

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_128969)

Species Accession Gene Product
Arabidopsis thaliana AT1G49400   protein EMBRYO DEFECTIVE 1129
Arabidopsis thaliana AT3G18880   Nucleic acid-binding, OB-fold-like protein
Arabidopsis thaliana AT1G79850   30S ribosomal protein S17
Candida albicans CaO19.4176   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPS17 (YMR188C) small subunit protein S17
Candida albicans CaO19.11652   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPS17 (YMR188C) small subunit protein S17
Chlamydia trachomatis CT_519   30S ribosomal protein S17
Dictyostelium discoideum DDB_G0277195   ribosomal protein S17, mitochondrial
Escherichia coli b3311   30S ribosomal subunit protein S17
Leishmania braziliensis LbrM.34.3830   30S Ribosomal protein S17-like protein
Leishmania donovani LdBPK_353890.1   30S Ribosomal protein S17-like protein
Leishmania infantum LinJ.35.3890   30S Ribosomal protein S17-like protein
Leishmania major LmjF.35.3850   30S Ribosomal protein S17-like protein
Leishmania mexicana LmxM.34.3850   30S Ribosomal protein S17-like protein
Mycobacterium leprae ML1854c   PROBABLE 30S RIBOSOMAL PROTEIN S17 RPSQ
Mycobacterium tuberculosis Rv0710   30S ribosomal protein S17 RpsQ
Mycobacterium ulcerans MUL_0799   30S ribosomal protein S17
Oryza sativa 4337506   Os04g0691600
Oryza sativa 4345370   Os08g0359600
Saccharomyces cerevisiae YMR188C   mitochondrial 37S ribosomal protein MRPS17
Trypanosoma brucei gambiense Tbg972.9.6740   30S Ribosomal protein S17, putative
Trypanosoma brucei Tb927.9.11300   Mitochondrial ribosomal protein S17
Trypanosoma cruzi TcCLB.508461.420   30S Ribosomal protein S17, putative
Treponema pallidum TP0198   30S ribosomal protein S17
Wolbachia endosymbiont of Brugia malayi Wbm0332   30S ribosomal protein S17

Essentiality

Tb927.9.11300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.2580 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.211.2580 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.2580 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.211.2580 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b3311 Escherichia coli essential goodall
Show/Hide essentiality data references
  • 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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 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 Tb927.9.11300 (Trypanosoma brucei), Mitochondrial ribosomal protein S17
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