Detailed view for Rv1643

Basic information

TDR Targets ID: 980596
Mycobacterium tuberculosis, 50S ribosomal protein L20 RplT
Source Database / ID:  Tuberculist 

pI: 11.6531 | Length (AA): 129 | MW (Da): 14527 | 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

PF00453  

Gene Ontology

Mouse over links to read term descriptions.
GO:0005840   ribosome  
GO:0005622   intracellular  
GO:0003735   structural constituent of ribosome  
GO:0019843   rRNA binding  
GO:0006412   translation  

Metabolic Pathways

Ribosome (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
2 117 4wfa (N) 2 117 50.00 0 1 1.52332 -0.33
2 116 5dm6 (N) 2 116 46.00 0 1 1.48857 -0.46
21 118 2ghj (A) 19 116 57.00 0 1 1.47409 -0.72

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_128492)

Species Accession Gene Product
Arabidopsis thaliana ArthCp045   50S ribosomal protein L20
Arabidopsis thaliana AT1G16740   ribosomal protein L20
Babesia bovis BBOV_III005560   ribosomal protein L20, putative
Chlamydia trachomatis CT_835   50S ribosomal protein L20
Dictyostelium discoideum DDB_G0273295   hypothetical protein
Dictyostelium discoideum DDB_G0273771   hypothetical protein
Drosophila melanogaster Dmel_CG11258   mitochondrial ribosomal protein L20
Escherichia coli b1716   50S ribosomal subunit protein L20
Echinococcus granulosus EgrG_000098900   50S ribosomal protein L20
Echinococcus multilocularis EmuJ_000098900   50S ribosomal protein L20
Homo sapiens ENSG00000242485   mitochondrial ribosomal protein L20
Mycobacterium leprae ML1396   Probable 50S ribosomal protein L20 RplT
Mus musculus ENSMUSG00000029066   mitochondrial ribosomal protein L20
Mycobacterium tuberculosis Rv1643   50S ribosomal protein L20 RplT
Mycobacterium ulcerans MUL_1629   50S ribosomal protein L20
Neospora caninum NCLIV_000250   ribosomal protein L20, putative
Oryza sativa 3131425   50S ribosomal protein L20
Oryza sativa 4324162   Os01g0734100
Oryza sativa 4339398   Os05g0528200
Onchocerca volvulus OVOC8531  
Onchocerca volvulus OVOC8538  
Plasmodium berghei PBANKA_1302100   50S ribosomal protein L20, putative
Plasmodium falciparum PF3D7_1474100   mitochondrial ribosomal protein L20 precursor, putative
Plasmodium knowlesi PKNH_1244400   ribosomal protein L20, putative
Plasmodium vivax PVX_118585   50S ribosomal protein L20, putative
Plasmodium yoelii PY02256   ribosomal protein L20
Schistosoma japonicum Sjp_0212900   ko:K02887 large subunit ribosomal protein L20, putative
Schistosoma mansoni Smp_004980   50S ribosomal protein L20
Schmidtea mediterranea mk4.039025.02  
Schmidtea mediterranea mk4.002298.02   39S ribosomal protein L20, mitochondrial
Toxoplasma gondii TGME49_293310   ribosomal protein L20, putative
Treponema pallidum TP0848   50S ribosomal protein L20
Theileria parva TP02_0392   60S ribosomal protein L20, putative
Wolbachia endosymbiont of Brugia malayi Wbm0657   50S ribosomal protein L20

Essentiality

Rv1643 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b1716 Escherichia coli essential goodall
TGME49_293310 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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)

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier Rv1643 (Mycobacterium tuberculosis), 50S ribosomal protein L20 RplT
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