Detailed view for Tb927.9.5150

Basic information

TDR Targets ID: 16198
Trypanosoma brucei, ribosomal protein S6, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.9819 | Length (AA): 126 | MW (Da): 13572 | 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

PF01248   Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

Gene Ontology

Mouse over links to read term descriptions.
GO:1990904   GO:ribonucleoprotein complex  

GO:0005840   ribosome  
GO:0005730   nucleolus  
GO:0003735   structural constituent of ribosome  
GO:0003723   RNA binding  
GO:0042254   ribosome biogenesis and assembly  
GO:0006412   translation  

Metabolic Pathways

Ribosome biogenesis in eukaryotes (KEGG)
Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 3 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
3 126 2ozb (A) 4 127 57.00 0 1 1.84173 -1.96
6 126 4nut (A) 5 125 64.00 0 1 1.90122 -2.24
7 126 5ewr (A) 25 144 54.00 0 1 1.82298 -2.4

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_127322)

Species Accession Gene Product
Arabidopsis thaliana AT4G22380   ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein
Arabidopsis thaliana AT4G12600   ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein
Babesia bovis BBOV_III009740   ribosomal protein L7A, putative
Brugia malayi Bm1_42550   NHP2/L7aE family protein YEL026W homolog
Candida albicans CaO19.5885   similar to highly conserved 15.5 kd RNA binding protein/S. cerevisiae SNU13 (YEL026W) that binds to both spliceosomal U4 snRNA a
Candida albicans CaO19.13306   similar to highly conserved 15.5 kd RNA binding protein/S. cerevisiae SNU13 (YEL026W) that binds to both spliceosomal U4 snRNA a
Caenorhabditis elegans CELE_M28.5   Protein M28.5
Cryptosporidium hominis Chro.60440   ribosomal protein L7A
Cryptosporidium parvum cgd6_3850   HOI-POLLOI protein; U4/U6.U5 snRNP component; Snu13p; pelota RNA binding domain containing protein
Dictyostelium discoideum DDB_G0282243   U4/U6 small nuclear ribonucleoprotein
Drosophila melanogaster Dmel_CG3949   hoi-polloi
Echinococcus granulosus EgrG_001075100   NHP2 non histone chromosome protein 2 1
Entamoeba histolytica EHI_053440   13 kDa ribonucleoprotein-associated protein, putative
Entamoeba histolytica EHI_104600   13 kDa ribonucleoprotein-associated protein, putative
Echinococcus multilocularis EmuJ_001075100   NHP2 non histone chromosome protein 2 1
Giardia lamblia GL50803_2825   Ribosomal protein L7Ae
Giardia lamblia GL50803_11287   Ribosomal protein L7Ae
Homo sapiens ENSG00000100138   NHP2 non-histone chromosome protein 2-like 1 (S. cerevisiae)
Leishmania braziliensis LbrM.15.1470   ribosomal protein S6, putative,NPH2/RS6-like protein
Leishmania donovani LdBPK_151530.1   ribosomal protein S6, putative
Leishmania infantum LinJ.15.1530   ribosomal protein S6, putative,NPH2/RS6-like protein
Leishmania major LmjF.15.1470   ribosomal protein S6, putative,NPH2/RS6-like protein
Leishmania mexicana LmxM.15.1470   ribosomal protein S6, putative,NPH2/RS6-like protein
Loa Loa (eye worm) LOAG_03139   hypothetical protein
Mus musculus 100862468   NHP2-like protein 1-like
Mus musculus 102641864   NHP2-like protein 1-like
Mus musculus ENSMUSG00000063480   NHP2 non-histone chromosome protein 2-like 1 (S. cerevisiae)
Neospora caninum NCLIV_050630   H/ACA ribonucleoprotein complex subunit 2-like protein, related
Oryza sativa 4332209   Os03g0241200
Oryza sativa 4348007   Os10g0124000
Plasmodium berghei PBANKA_0924400   splicing factor, putative
Plasmodium falciparum PF3D7_1123900   splicing factor, putative
Plasmodium knowlesi PKNH_0921700   high mobility group-like protein NHP2, putative
Plasmodium vivax PVX_091810   ribosomal protein L7A, putative
Plasmodium yoelii PY03136   nhp2-like protein 1-related
Saccharomyces cerevisiae YEL026W   RNA binding protein SNU13
Schistosoma japonicum Sjp_0041070   ko:K02936 large subunit ribosomal protein L7Ae, putative
Schistosoma mansoni Smp_104660   ribosomal protein l7ae
Schmidtea mediterranea mk4.001604.02   Ribosomal protein l7ae, putative
Trypanosoma brucei gambiense Tbg972.9.2720   ribosomal protein S6, putative,NHP2/RS6-like protein
Trypanosoma brucei Tb927.9.5150   ribosomal protein S6, putative
Trypanosoma congolense TcIL3000_9_1680   ribosomal protein S6, putative
Trypanosoma cruzi TcCLB.509943.30   ribosomal protein S6, putative
Trypanosoma cruzi TcCLB.508277.120   ribosomal protein S6, putative
Toxoplasma gondii TGME49_236580   Prp31-15.5k-U4 Snrna Complex family protein
Theileria parva TP04_0892   NHP2/L7Ae family protein, putative
Trichomonas vaginalis TVAG_282030   ribosomal protein l7ae, putative

Essentiality

Tb927.9.5150 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.3670 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.160.3670 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.160.3670 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.160.3670 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_M28.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_M28.5 Caenorhabditis elegans larval arrest wormbase
CELE_M28.5 Caenorhabditis elegans larval lethal wormbase
YEL026W Saccharomyces cerevisiae inviable yeastgenome
TGME49_236580 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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 3 days). References: 21363968
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) 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 Tb927.9.5150 (Trypanosoma brucei), ribosomal protein S6, putative
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