Detailed view for LmjF.33.3150

Basic information

TDR Targets ID: 21142
Leishmania major, 40S ribosomal protein S13, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 11.6104 | Length (AA): 151 | MW (Da): 17446 | Paralog Number: 1

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

PF00312   Ribosomal protein S15
PF08069   Ribosomal S13/S15 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 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
65 148 1g1x (B) 1 86 18.00 0 0.3 0.79 -1.06
2 151 4kzy (N) 2 151 64.00 0 1 1.76438 -0.39
63 132 2vqe (O) 4 73 21.00 0 0.37 0.764076 -0.68
65 140 2vqe (O) 2 79 20.00 0.00000003 0.24 0.715311 -0.76

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, 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_127089)

Species Accession Gene Product
Arabidopsis thaliana AT4G00100   40S ribosomal protein S13-2
Arabidopsis thaliana AT3G60770   40S ribosomal protein S13-1
Babesia bovis BBOV_I003470   40S ribosomal protein S13, putative
Brugia malayi Bm1_18940   40S ribosomal protein S13
Caenorhabditis elegans CELE_C16A3.9   Protein RPS-13
Cryptosporidium hominis Chro.50159   40S ribosomal protein S13
Cryptosporidium parvum cgd5_2210   40S ribosomal protein S13
Dictyostelium discoideum DDB_G0284533   40S ribosomal protein S13
Drosophila melanogaster Dmel_CG13389   Ribosomal protein S13
Echinococcus granulosus EgrG_000856900   40S ribosomal protein S13
Entamoeba histolytica EHI_035460   40S ribosomal protein S13, putative
Entamoeba histolytica EHI_112880   40S ribosomal protein S13, putative
Echinococcus multilocularis EmuJ_000856900   40S ribosomal protein S13
Giardia lamblia GL50803_16652   Ribosomal protein S13
Homo sapiens ENSG00000110700   ribosomal protein S13
Leishmania braziliensis LbrM.19.0710   40S ribosomal protein S13, putative
Leishmania braziliensis LbrM.33.3420   40S ribosomal protein S13, putative
Leishmania donovani LdBPK_333300.1   40S ribosomal protein S13, putative
Leishmania infantum LinJ.19.0390   40S ribosomal protein S13, putative
Leishmania infantum LinJ.33.3300   40S ribosomal protein S13, putative
Leishmania major LmjF.33.3150   40S ribosomal protein S13, putative
Leishmania major LmjF.19.0390   40S ribosomal protein S13, putative
Leishmania mexicana LmxM.19.0390   40S ribosomal protein S13, putative
Leishmania mexicana LmxM.32.3150   40S ribosomal protein S13, putative
Loa Loa (eye worm) LOAG_02817   ribosomal protein S13
Mus musculus ENSMUSG00000090862   ribosomal protein S13
Mus musculus 102642137   40S ribosomal protein S13-like
Mus musculus 100043695   predicted gene 15483
Neospora caninum NCLIV_036280   30S ribosomal protein S15P/S13e, related
Oryza sativa 4344524   Os08g0117300
Oryza sativa 4344523   Os08g0117200
Plasmodium berghei PBANKA_1135100   40S ribosomal protein S15, putative
Plasmodium falciparum PF3D7_1358800   40S ribosomal protein S15
Plasmodium knowlesi PKNH_1112500   40S ribosomal protein S15, putative
Plasmodium vivax PVX_114910   40S ribosomal protein S15, putative
Plasmodium yoelii PY03929   ribosomal protein S15, putative
Saccharomyces cerevisiae YDR064W   ribosomal 40S subunit protein S13
Schistosoma japonicum Sjp_0213300   ko:K02953 small subunit ribosomal protein S13e, putative
Schistosoma mansoni Smp_096750   hypothetical protein
Schmidtea mediterranea mk4.008065.00  
Schmidtea mediterranea mk4.004692.00  
Trypanosoma brucei gambiense Tbg.972.2.4160   40S ribosomal protein S13, putative
Trypanosoma brucei gambiense Tbg972.10.18410   40S ribosomal protein S13, putative
Trypanosoma brucei Tb927.10.15120   40S ribosomal protein S13, putative
Trypanosoma brucei Tb927.2.5910   40S ribosomal protein S13, putative
Trypanosoma congolense TcIL3000_10_12920   40S ribosomal protein S13, putative
Trypanosoma congolense TcIL3000_0_44580   40S ribosomal protein S13, putative
Trypanosoma congolense TcIL3000_2_1570   40S ribosomal protein S13, putative
Trypanosoma cruzi TcCLB.510973.30   40S ribosomal protein S13, putative
Trypanosoma cruzi TcCLB.510029.70   40S ribosomal protein S13, putative
Trypanosoma cruzi TcCLB.511189.30   40S ribosomal protein S13, putative
Trypanosoma cruzi TcCLB.511291.90   40S ribosomal protein S13, putative
Toxoplasma gondii TGME49_270380   ribosomal protein RPS13
Theileria parva TP01_0502   40S ribosomal protein S13, putative
Trichomonas vaginalis TVAG_076150   ribosomal protein S15p/S13e, putative
Trichomonas vaginalis TVAG_259930   30S ribosomal protein S15p/S13e, putative
Trichomonas vaginalis TVAG_066760   ribosomal protein S15p/S13e, putative
Trichomonas vaginalis TVAG_151780   30S ribosomal protein S15p/S13e, putative
Trichomonas vaginalis TVAG_138940   30S ribosomal protein S15p/S13e, putative
Trichomonas vaginalis TVAG_324920   ribosomal protein S15p/S13e, putative
Trichomonas vaginalis TVAG_459150   ribosomal protein S15p/S13e, putative

Essentiality

LmjF.33.3150 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.5910 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.2.5910 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.2.5910 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.2.5910 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.15120 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.15120 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.15120 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.15120 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C16A3.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_C16A3.9 Caenorhabditis elegans larval arrest wormbase
CELE_C16A3.9 Caenorhabditis elegans slow growth wormbase
CELE_C16A3.9 Caenorhabditis elegans sterile wormbase
YDR064W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1135100 Plasmodium berghei Essential plasmo
TGME49_270380 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • 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
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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 LmjF.33.3150 (Leishmania major), 40S ribosomal protein S13, putative
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