Detailed view for Rv0682

Basic information

TDR Targets ID: 7083
Mycobacterium tuberculosis, 30S ribosomal protein S12 RpsL
Source Database / ID:  Tuberculist 

pI: 11.9278 | Length (AA): 124 | MW (Da): 13849 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF00164   Ribosomal protein S12/S23

Gene Ontology

Mouse over links to read term descriptions.
GO:0015935   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 2 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
2 123 2vqe (L) 5 126 74.00 0 1 1.83707 -0.21
19 99 4kzy (X) 36 124 38.00 0.000000017 1 1.09943 -0.64

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 Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. hasan
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_127680)

Species Accession Gene Product
Arabidopsis thaliana ArthMp085   ribosomal protein S12
Arabidopsis thaliana ArthCp001   ribosomal protein S12
Arabidopsis thaliana AT2G07675   ribosomal protein S12
Arabidopsis thaliana ArthCp047   ribosomal protein S12
Babesia bovis BBOV_IV007080   ribosomal protein S12, putative
Babesia bovis BBOV_V000340   rps12
Brugia malayi Bm1_51850   40S ribosomal protein S23
Candida albicans CaO19.2438   likely mitochondrial ribosomal protein similar to S. cerevisiae YNR036C and to Reclinomonas americana mitochondrial ribosomal pr
Candida albicans CaO19.9974   likely mitochondrial ribosomal protein similar to S. cerevisiae YNR036C and to Reclinomonas americana mitochondrial ribosomal pr
Caenorhabditis elegans CELE_T03D8.2   Protein MRPS-12
Chlamydia trachomatis CT_439   30S ribosomal protein S12
Dictyostelium discoideum DidioMp22   ribosomal protein S12
Drosophila melanogaster Dmel_CG7925   technical knockout
Escherichia coli b3342   30S ribosomal subunit protein S12
Echinococcus granulosus EgrG_000498300   mitochondrial ribosomal protein S12
Echinococcus multilocularis EmuJ_000498300   mitochondrial ribosomal protein S12
Homo sapiens ENSG00000128626   mitochondrial ribosomal protein S12
Loa Loa (eye worm) LOAG_06218   hypothetical protein
Mycobacterium leprae ML1880c   PROBABLE 30S RIBOSOMAL PROTEIN S12 RPSL
Mus musculus ENSMUSG00000045948   mitochondrial ribosomal protein S12
Mycobacterium tuberculosis Rv0682   30S ribosomal protein S12 RpsL
Mycobacterium ulcerans MUL_0763   30S ribosomal protein S12
Neospora caninum NCLIV_060840   ribosomal protein S12, putative
Oryza sativa 9268225   Os04g0234750
Oryza sativa 3131385   ribosomal protein S12
Oryza sativa 3131499   ribosomal protein S12
Oryza sativa 6450201   ribosomal protein S12
Plasmodium berghei PBANKA_0613400   mitochondrial ribosomal protein S12 precursor, putative
Plasmodium berghei PBANKA_API00300   apicoplast ribosomal protein S12
Plasmodium falciparum PF3D7_API02700   apicoplast ribosomal protein S12
Plasmodium falciparum PF3D7_0412100   mitochondrial ribosomal protein S12 precursor, putative
Plasmodium knowlesi PKNH_0310300   ribosomal protein, putative
Plasmodium knowlesi PKNH_API03600   apicoplast ribosomal protein S12, putative
Plasmodium vivax PVX_000640   30S ribosomal protein S12, putative
Plasmodium yoelii PY05324   ribosomal protein S12, putative
Saccharomyces cerevisiae YNR036C   putative mitochondrial 37S ribosomal protein MRPS12
Schistosoma japonicum Sjp_0104710   ko:K02950 small subunit ribosomal protein S12, putative
Schistosoma mansoni Smp_095590   30S ribosomal protein S12
Schmidtea mediterranea mk4.001771.02   28S ribosomal protein S12, mitochondrial
Toxoplasma gondii TGME49_302055   ribosomal protein S12
Toxoplasma gondii TGME49_219770   30S ribosomal protein S12, putative
Treponema pallidum TP0243   30S ribosomal protein S12
Theileria parva TP01_0505   40S ribosomal protein S12, putative
Wolbachia endosymbiont of Brugia malayi Wbm0346   30S ribosomal protein S12

Essentiality

Rv0682 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu694 this record Mycobacterium tuberculosis essential nmpdr
b3342 Escherichia coli essential goodall
CELE_T03D8.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_T03D8.2 Caenorhabditis elegans larval arrest wormbase
CELE_T03D8.2 Caenorhabditis elegans sterile wormbase
PBANKA_0613400 Plasmodium berghei Essential plasmo
TGME49_219770 Toxoplasma gondii Probably essential sidik
TGME49_302055 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
response to drug (GO:0042493) decreased sensitivity toward (PATO:0001550) inferred from gain-of-function mutant phenotype (ECO:0000042) Mycobacterium tuberculosis 322370   347521   561927   570798  
Annotator: crowther@u.washington.edu. Comment: 2007-12-03. References: 7934937
response to drug (GO:0042493) decreased sensitivity toward (PATO:0001550) inferred from gain-of-function mutant phenotype (ECO:0000042) Mycobacterium smegmatis 322370   347521   561927   570798  
Annotator: crowther@u.washington.edu. Comment: 2007-12-03. References: 11557484

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

Compound Source Reference
Curated by TDRTargets References
Curated by TDRTargets References
Curated by TDRTargets References
Curated by TDRTargets References

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Mycobacterium leprae PROBABLE 30S RIBOSOMAL PROTEIN S12 RPSL Compounds References
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.

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Gene identifier Rv0682 (Mycobacterium tuberculosis), 30S ribosomal protein S12 RpsL
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