Detailed view for LmjF.36.4650

Basic information

TDR Targets ID: 23965
Leishmania major, 60S acidic ribosomal protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.2306 | Length (AA): 227 | MW (Da): 25299 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | 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

PF00466   Ribosomal protein L10

Gene Ontology

Mouse over links to read term descriptions.
GO:0000027   ribosomal large subunit assembly and maintenance  
GO:0005622   intracellular  
GO:0042254   ribosome biogenesis and assembly  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 4 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
19 141 1zav (A) 3 127 15.00 0 0.89 0.63 -0.89
5 227 4nwb (A) 5 245 33.00 0 1 1.35958 -0.42
19 129 1zav (A) 3 115 17.00 0 1 0.673087 -0.79
21 225 3jsy (A) 11 215 17.00 0 1 1.20528 -0.39

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 amastigotes. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_127990)

Species Accession Gene Product
Arabidopsis thaliana AT1G25260   ribosomal protein L10 family protein
Babesia bovis BBOV_I004380   conserved hypothetical protein
Brugia malayi Bm1_12395   ribosomal protein L10 domain containing protein
Candida albicans CaO19.12996   similar to S. cerevisiae MRT4 (YKL009W) involved in rRNA processing and mRNA turnover
Candida albicans CaO19.5550   similar to S. cerevisiae MRT4 (YKL009W) involved in rRNA processing and mRNA turnover
Caenorhabditis elegans CELE_F10E7.5   Protein F10E7.5
Cryptosporidium hominis Chro.70189   hypothetical protein
Cryptosporidium parvum cgd7_1600   ribosomal protein of the PO/L10 family
Dictyostelium discoideum DDB_G0276411   mRNA turnover protein 4
Drosophila melanogaster Dmel_CG1381   Ribosomal protein LP0-like
Echinococcus granulosus EgrG_000438800   mrna turnover protein 4
Entamoeba histolytica EHI_159790   60S acidic ribosomal protein PO, putative
Entamoeba histolytica EHI_102940   60S acidic ribosomal protein PO, putative
Echinococcus multilocularis EmuJ_000438800   mrna turnover protein 4
Giardia lamblia GL50803_13412   Acidic ribosomal protein P0
Homo sapiens ENSG00000053372   mRNA turnover 4 homolog (S. cerevisiae)
Leishmania braziliensis LbrM.35.4900   60S acidic ribosomal protein, putative
Leishmania donovani LdBPK_364880.1   60S acidic ribosomal protein, putative
Leishmania infantum LinJ.36.4880   60S acidic ribosomal protein, putative
Leishmania major LmjF.36.4650   60S acidic ribosomal protein, putative
Leishmania mexicana LmxM.36.4650   60S acidic ribosomal protein, putative
Loa Loa (eye worm) LOAG_02906   ribosomal protein L10 domain-containing protein
Mus musculus 668455   predicted gene 9178
Mus musculus 434693   predicted gene 5633
Mus musculus ENSMUSG00000028741   MRT4, mRNA turnover 4, homolog (S. cerevisiae)
Neospora caninum NCLIV_028630   hypothetical protein, conserved
Oryza sativa 9270809   Os12g0105325
Oryza sativa 4349548   Os11g0105400
Onchocerca volvulus OVOC3440   mRNA turnover protein 4 homolog
Plasmodium berghei PBANKA_1143500   ribosome biogenesis protein MRT4, putative
Plasmodium falciparum PF3D7_1367600   ribosome biogenesis protein MRT4, putative
Plasmodium knowlesi PKNH_1103600   ribosome biogenesis protein MRT4, putative
Plasmodium vivax PVX_115340   ribosome biogenesis protein MRT4, putative
Plasmodium yoelii PY03082   Ribosomal protein L10, putative
Saccharomyces cerevisiae YKL009W   Mrt4p
Schistosoma japonicum Sjp_0004660   expressed protein
Schistosoma japonicum Sjp_0200820   mRNA turnover protein 4 homolog, putative
Schistosoma mansoni Smp_134420   mRNA turnover protein 4 mrt4
Schmidtea mediterranea mk4.005841.00  
Trypanosoma brucei gambiense Tbg972.10.12210   60S acidic ribosomal protein, putative
Trypanosoma brucei Tb927.10.10010   mRNA turnover protein 4 homolog, putative
Trypanosoma congolense TcIL3000_10_8350   60S acidic ribosomal protein, putative
Trypanosoma cruzi TcCLB.508307.170   60S acidic ribosomal protein, putative
Toxoplasma gondii TGME49_255320   mRNA turnover 4 (MRT4) family protein
Theileria parva TP01_1023   hypothetical protein, conserved
Trichomonas vaginalis TVAG_447370   mRNA turnover protein 4 mrt4, putative

Essentiality

LmjF.36.4650 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.10010 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.10010 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.10010 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.10010 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F10E7.5 Caenorhabditis elegans slow growth wormbase
TGME49_255320 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

  • Lmaj006032AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj006032; Recombinant protein: full-length; Source: L major; 60S acidic ribosomal protein putative ;

Bibliographic References

No literature references available for this target.

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Gene identifier LmjF.36.4650 (Leishmania major), 60S acidic ribosomal protein, putative
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