Detailed view for Rv0640

Basic information

TDR Targets ID: 7041
Mycobacterium tuberculosis, 50S ribosomal protein L11 RplK
Source Database / ID:  Tuberculist 

pI: 10.1815 | Length (AA): 142 | MW (Da): 15003 | Paralog Number: 0

Signal peptide: Y | 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

PF00298   Ribosomal protein L11, RNA binding domain
PF03946   Ribosomal protein L11, N-terminal domain

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
5 142 5dm6 (F) 2 139 64.00 0 1 1.68973 0.12
10 141 1mms (A) 8 139 67.00 0 1 1.77958 -0.9

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 20-40% percentile Dormant phase. hasan
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_127103)

Species Accession Gene Product
Arabidopsis thaliana AT4G35490   mitochondrial ribosomal protein L11
Arabidopsis thaliana AT1G32990   plastid ribosomal protein l11
Babesia bovis BBOV_IV009800   ribosomal protein L11, putative
Brugia malayi Bm1_57015   Ribosomal protein L11, N-terminal domain containing protein
Candida albicans CaO19.6231   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPL19 (YNL185C) large subunit protein (E. coli L11)
Candida albicans CaO19.13611   likely mitochondrial ribosomal protein similar to S. cerevisiae MRPL19 (YNL185C) large subunit protein (E. coli L11)
Caenorhabditis elegans CELE_B0303.15   Protein MRPL-11
Chlamydia trachomatis CT_319   50S ribosomal protein L11
Dictyostelium discoideum DidioMp20   ribosomal protein L11
Drosophila melanogaster Dmel_CG3351   mitochondrial ribosomal protein L11
Escherichia coli b3983   50S ribosomal subunit protein L11
Echinococcus granulosus EgrG_000151100   mitochondrial ribosomal protein l11
Echinococcus multilocularis EmuJ_000151100   mitochondrial ribosomal protein l11
Homo sapiens ENSG00000174547   mitochondrial ribosomal protein L11
Leishmania braziliensis LbrM.27.2400   ribosomal protein L11, putative
Leishmania donovani LdBPK_272140.1   ribosomal protein L11, putative
Leishmania infantum LinJ.27.2140   ribosomal protein L11, putative
Leishmania major LmjF.27.2220   ribosomal protein L11, putative
Leishmania mexicana LmxM.27.2220   ribosomal protein L11, putative
Loa Loa (eye worm) LOAG_05636   ribosomal protein L11 domain-containing protein
Mycobacterium leprae ML1905c   PROBABLE 50S RIBOSOMAL PROTEIN L11 RPLK
Mus musculus ENSMUSG00000024902   mitochondrial ribosomal protein L11
Mycobacterium tuberculosis Rv0640   50S ribosomal protein L11 RplK
Mycobacterium ulcerans MUL_0726   50S ribosomal protein L11
Neospora caninum NCLIV_008670   ribosomal protein L11, putative
Oryza sativa 4348843   Os10g0466200
Oryza sativa 4331442   Os03g0122200
Plasmodium berghei PBANKA_0937000   mitochondrial ribosomal protein L11 precursor, putative
Plasmodium falciparum PF3D7_1110600   mitochondrial ribosomal protein L11 precursor, putative
Plasmodium knowlesi PKNH_0908300   ribosomal protein L11, putative
Plasmodium vivax PVX_091180   50S ribosomal protein L11, putative
Plasmodium yoelii PY01745   putative ribosomal protein L11
Saccharomyces cerevisiae YNL185C   mitochondrial 54S ribosomal protein YmL19
Schistosoma japonicum Sjp_0081140   ko:K02867 large subunit ribosomal protein L11, putative
Schistosoma mansoni Smp_045190.2   50S robosomal protein L11
Schmidtea mediterranea mk4.005202.03   Probable 39S ribosomal protein L11, mitochondrial
Trypanosoma brucei gambiense Tbg.972.2.2910   ribosomal protein L11, putative
Trypanosoma brucei gambiense Tbg.972.2.2760   ribosomal protein L11, putative
Trypanosoma brucei Tb927.2.4740   mitochondrial ribosomal protein l11
Trypanosoma brucei Tb927.2.4890   mitochondrial ribosomal protein l11
Trypanosoma cruzi TcCLB.504741.160   ribosomal protein L11, putative
Trypanosoma cruzi TcCLB.511621.200   ribosomal protein L11, putative
Trypanosoma cruzi TcCLB.511621.70   ribosomal protein L11, putative
Trypanosoma cruzi TcCLB.509317.40   ribosomal protein L11, putative
Toxoplasma gondii TGME49_254380   ribosomal protein L11, putative
Treponema pallidum TP0237   50S ribosomal protein L11
Theileria parva TP01_0788   60S ribosomal protein L11, putative
Wolbachia endosymbiont of Brugia malayi Wbm0651   50S ribosomal protein L11

Essentiality

Rv0640 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu652 this record Mycobacterium tuberculosis essential nmpdr
Tb927.2.4740 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.2.4740 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.2.4740 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.2.4740 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b3983 Escherichia coli essential goodall
CELE_B0303.15 Caenorhabditis elegans embryonic lethal wormbase
CELE_B0303.15 Caenorhabditis elegans larval arrest wormbase
CELE_B0303.15 Caenorhabditis elegans slow growth wormbase
PBANKA_0937000 Plasmodium berghei Essential plasmo
TGME49_254380 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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 Rv0640 (Mycobacterium tuberculosis), 50S ribosomal protein L11 RplK
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