Detailed view for LmjF.34.0440

Basic information

TDR Targets ID: 26984
Leishmania major, ribosomal protein S25
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.8319 | Length (AA): 121 | MW (Da): 13147 | 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

PF03297   S25 ribosomal protein

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

Ribosome (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
44 89 4mgr (A) 18 69 26.00 0.83 0.69 0.602565 -0.7

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_126998)

Species Accession Gene Product
Arabidopsis thaliana AT4G34555   40S ribosomal protein S25-3
Arabidopsis thaliana AT4G39200   40S ribosomal protein S25-4
Arabidopsis thaliana AT2G21580   40S ribosomal protein S25-2
Babesia bovis BBOV_IV010200   ribosomal protein S25, putative
Brugia malayi Bm1_52440   40S ribosomal protein S25
Candida albicans CaO19.6663   likely cytosolic ribosomal protein similar to S. cerevisiae RPS25A (YGR027C) small subunit protein S25
Caenorhabditis elegans CELE_K02B2.5   Protein RPS-25
Cryptosporidium hominis Chro.20119   hypothetical protein
Cryptosporidium parvum cgd2_1070   40S ribosomal protein S25
Dictyostelium discoideum DDB_G0271148   40S ribosomal protein S25
Drosophila melanogaster Dmel_CG6684   Ribosomal protein S25
Entamoeba histolytica EHI_074800   ribosomal protein S25, putative
Entamoeba histolytica EHI_177470   ribosomal protein S25, putative
Entamoeba histolytica EHI_189150   ribosomal protein S25, putative
Giardia lamblia GL50803_13268   Hypothetical protein
Homo sapiens 6230   ribosomal protein S25
Leishmania braziliensis LbrM.20.0410   ribosomal protein S25
Leishmania braziliensis LbrM.25.1160   ribosomal protein S25
Leishmania donovani LdBPK_251220.1   ribosomal protein S25
Leishmania donovani LdBPK_340460.1   ribosomal protein S25
Leishmania infantum LinJ.34.0460   ribosomal protein S25
Leishmania infantum LinJ.25.1220   ribosomal protein S25
Leishmania major LmjF.34.0440   ribosomal protein S25
Leishmania major LmjF.25.1190   ribosomal protein S25
Leishmania mexicana LmxM.25.1190   ribosomal protein S25
Leishmania mexicana LmxM.33.0440   ribosomal protein S25
Loa Loa (eye worm) LOAG_03099   hypothetical protein
Mus musculus ENSMUSG00000009927   ribosomal protein S25
Mus musculus 243302   predicted gene 4963
Mus musculus 629595   predicted gene 6988
Mus musculus 102638785   40S ribosomal protein S25-like
Neospora caninum NCLIV_031510   hypothetical protein
Oryza sativa 4349810   Os11g0153800
Oryza sativa 4347899   Os09g0568800
Oryza sativa 4346314   Os08g0559200
Plasmodium berghei PBANKA_1022000   40S ribosomal protein S25, putative
Plasmodium falciparum PF3D7_1421200   40S ribosomal protein S25
Plasmodium knowlesi PKNH_1336700   40S ribosomal protein S25, putative
Plasmodium vivax PVX_085420   40S ribosomal protein S25, putative
Saccharomyces cerevisiae YLR333C   ribosomal 40S subunit protein S25B
Saccharomyces cerevisiae YGR027C   ribosomal 40S subunit protein S25A
Schistosoma japonicum Sjp_0033940   hypothetical protein
Schistosoma japonicum Sjp_0206050   ko:K02975 small subunit ribosomal protein S25e, putative
Schistosoma mansoni Smp_017450   hypothetical protein
Schmidtea mediterranea mk4.000089.13   Adenylate kinase isoenzyme 1
Trypanosoma brucei gambiense Tbg972.10.3540   ribosomal protein S25, putative
Trypanosoma brucei gambiense Tbg972.3.1120   ribosomal protein S25, putative
Trypanosoma brucei Tb927.3.1370   40S ribosomal protein S25, putative
Trypanosoma brucei Tb927.10.2840   ribosomal protein S25, putative
Trypanosoma congolense TcIL3000_10_2450   40S ribosomal protein S25, putative
Trypanosoma congolense TcIL3000_3_580   ribosomal protein S25, putative
Trypanosoma cruzi TcCLB.509233.190   ribosomal protein S25, putative
Trypanosoma cruzi TcCLB.504105.94   ribosomal protein S25, putative
Toxoplasma gondii TGME49_231140   ribosomal protein RPS25
Theileria parva TP01_0653   40S ribosomal protein S25, putative
Trichomonas vaginalis TVAG_226630   conserved hypothetical protein
Trichomonas vaginalis TVAG_426530   conserved hypothetical protein
Trichomonas vaginalis TVAG_111510   conserved hypothetical protein
Trichomonas vaginalis TVAG_198370   conserved hypothetical protein

Essentiality

LmjF.34.0440 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.1370 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.1370 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.1370 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.1370 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.2840 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.2840 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.2840 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.2840 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_K02B2.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_K02B2.5 Caenorhabditis elegans slow growth wormbase
TGME49_231140 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
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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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User comments

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Gene identifier LmjF.34.0440 (Leishmania major), ribosomal protein S25
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