Detailed view for Rv0716

Basic information

TDR Targets ID: 7037
Mycobacterium tuberculosis, 50S ribosomal protein L5 RplE
Source Database / ID:  Tuberculist 

pI: 10.7498 | Length (AA): 187 | MW (Da): 21019 | 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

PF00281   Ribosomal protein L5
PF00673   ribosomal L5P family C-terminus

Gene Ontology

Mouse over links to read term descriptions.
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
7 186 1mji (A) 3 182 58.00 0 1 1.70287 -0.97
10 186 1iq4 (A) 3 179 57.00 0 1 1.73152 -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 60-80% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 0-20% 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_126688)

Species Accession Gene Product
Arabidopsis thaliana AT2G42740   60S ribosomal protein L16A
Arabidopsis thaliana AT5G45775   60S ribosomal protein L11-2
Arabidopsis thaliana AT4G18730   60S ribosomal protein L11-2
Arabidopsis thaliana AT3G58700   60S ribosomal protein L11-2
Arabidopsis thaliana AT4G01310   50S ribosomal protein L5
Babesia bovis BBOV_IV005460   60S ribosomal protein L11, putative
Brugia malayi Bm1_04440   60S ribosomal protein L11
Candida albicans CaO19.2214   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPL7 (YDR237W) large subunit protein L7 (E. coli L5)
Candida albicans CaO19.9759   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPL7 (YDR237W) large subunit protein L7 (E. coli L5)
Candida albicans CaO19.2232   likely cytosolic ribosomal protein similar to S. cerevisiae RPL11A (YPR102C) and RPL11B (YGR085C) large subunit protein L11
Candida albicans CaO19.9774   likely cytosolic ribosomal protein similar to S. cerevisiae RPL11A (YPR102C) and RPL11B (YGR085C) large subunit protein L11
Caenorhabditis elegans CELE_F07D10.1   Protein RPL-11.2
Caenorhabditis elegans CELE_T22F3.4   Protein RPL-11.1
Cryptosporidium hominis Chro.60255   ribosomal protein L11
Cryptosporidium parvum cgd6_2170   60S ribosomal protein L11
Chlamydia trachomatis CT_516   50S ribosomal protein L5
Dictyostelium discoideum DDB_G0279189   S60 ribosomal protein L11
Drosophila melanogaster Dmel_CG7726   Ribosomal protein L11
Escherichia coli b3308   50S ribosomal subunit protein L5
Echinococcus granulosus EgrG_000177700   ribosomal protein L11
Entamoeba histolytica EHI_038580   ribosomal protein L11, putative
Entamoeba histolytica EHI_199970   ribosomal protein L11, putative
Entamoeba histolytica EHI_124300   ribosomal protein L11, putative
Entamoeba histolytica EHI_040660   ribosomal protein L11, putative
Echinococcus multilocularis EmuJ_000177700   ribosomal protein L11
Giardia lamblia GL50803_5593   Ribosomal protein L11
Homo sapiens ENSG00000142676   ribosomal protein L11
Leishmania braziliensis LbrM.22.0030   60S ribosomal protein L11 (L5, L16)
Leishmania braziliensis LbrM.04.0520   60S ribosomal protein L11 (L5, L16)
Leishmania donovani LdBPK_220004.1   60S ribosomal protein L11 (L5, L16)
Leishmania infantum LinJ.04.0460   60S ribosomal protein L11 (L5, L16)
Leishmania major LmjF.22.0030   60S ribosomal protein L11 (L5, L16)
Leishmania major LmjF.04.0470   60S ribosomal protein L11 (L5, L16)
Leishmania mexicana LmxM.04.0470   60S ribosomal protein L11 (L5, L16)
Loa Loa (eye worm) LOAG_03308   60S ribosomal protein L11
Mycobacterium leprae ML1847c   PROBABLE 50S RIBOSOMAL PROTEIN L5 RPLE
Mus musculus ENSMUSG00000059291   ribosomal protein L11
Mus musculus 100041864   predicted gene 3552
Mus musculus 102641328   60S ribosomal protein L11-like
Mus musculus 328825   predicted gene 5093
Mycobacterium tuberculosis Rv0716   50S ribosomal protein L5 RplE
Mycobacterium ulcerans MUL_0806   50S ribosomal protein L5
Neospora caninum NCLIV_053950   hypothetical protein
Oryza sativa 4341262   Os06g0550000
Oryza sativa 4327087   Os01g0205500
Oryza sativa 4331459   Os03g0125000
Oryza sativa 4328826   Os02g0235600
Oryza sativa 4338077   Os05g0207300
Onchocerca volvulus OVOC2085   60S ribosomal protein L11 homolog
Plasmodium berghei PBANKA_0617100   60S ribosomal protein L11a, putative
Plasmodium falciparum PF3D7_0719600   60S ribosomal protein L11a, putative
Plasmodium knowlesi PKNH_0315000   60S ribosomal protein L11a, putative
Plasmodium vivax PVX_096340   60S ribosomal protein L11, putative
Plasmodium yoelii PY02461   ribosomal protein L11-like
Saccharomyces cerevisiae YPR102C   ribosomal 60S subunit protein L11A
Saccharomyces cerevisiae YGR085C   ribosomal 60S subunit protein L11B
Saccharomyces cerevisiae YDR237W   mitochondrial 54S ribosomal protein YmL7/YmL5
Schistosoma japonicum Sjp_0203190   ko:K02868 large subunit ribosomal protein L11e, putative
Schistosoma mansoni Smp_050940.2   60S ribosomal protein L11
Schistosoma mansoni Smp_050940.1   60S ribosomal protein L11
Schmidtea mediterranea mk4.011602.01   60S ribosomal protein L11
Schmidtea mediterranea mk4.091311.02  
Schmidtea mediterranea mk4.005970.03  
Trypanosoma brucei gambiense Tbg972.9.4150   60S ribosomal protein L11, putative
Trypanosoma brucei gambiense Tbg972.9.4140   60S ribosomal protein L11, putative
Trypanosoma brucei Tb927.9.7590   60S ribosomal protein L11, putative
Trypanosoma congolense TcIL3000_0_18940   60S ribosomal protein L11, putative
Trypanosoma congolense TcIL3000_0_18950   60S ribosomal protein L11, putative
Trypanosoma cruzi TcCLB.508197.10   60S ribosomal protein L11, putative
Trypanosoma cruzi TcCLB.508197.39   60S ribosomal protein L11, putative
Toxoplasma gondii TGME49_309820   ribosomal protein RPL11
Treponema pallidum TP0201   50S ribosomal protein L5
Theileria parva TP01_0352   60S ribosomal protein L11a, putative
Trichomonas vaginalis TVAG_343970   50S ribosomal protein L5p, putative
Trichomonas vaginalis TVAG_092870   60S ribosomal protein L11, putative
Trichomonas vaginalis TVAG_044560   50S ribosomal protein L5p, putative
Trichomonas vaginalis TVAG_046840   50S ribosomal protein L5p, putative
Trichomonas vaginalis TVAG_194850   60S ribosomal protein L11, putative
Trichomonas vaginalis TVAG_271230   60S ribosomal protein L11, putative
Wolbachia endosymbiont of Brugia malayi Wbm0329   50S ribosomal protein L5

Essentiality

Rv0716 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu728 this record Mycobacterium tuberculosis essential nmpdr
b3308 Escherichia coli essential goodall
CELE_T22F3.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_T22F3.4 Caenorhabditis elegans larval arrest wormbase
CELE_T22F3.4 Caenorhabditis elegans slow growth wormbase
CELE_T22F3.4 Caenorhabditis elegans sterile wormbase
CELE_F07D10.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F07D10.1 Caenorhabditis elegans larval arrest wormbase
CELE_F07D10.1 Caenorhabditis elegans larval lethal wormbase
CELE_F07D10.1 Caenorhabditis elegans slow growth wormbase
CELE_F07D10.1 Caenorhabditis elegans sterile wormbase
TGME49_309820 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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

No literature references available for this target.

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Gene identifier Rv0716 (Mycobacterium tuberculosis), 50S ribosomal protein L5 RplE
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