Detailed view for LmjF.35.1900

Basic information

TDR Targets ID: 26380
Leishmania major, 60S ribosomal protein L5, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.6886 | Length (AA): 305 | MW (Da): 33985 | Paralog Number: 2

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

PF14204   Ribosomal L18 C-terminal region
PF17144   Ribosomal large subunit proteins 60S L5, and 50S L18

Gene Ontology

Mouse over links to read term descriptions.
GO:0005840   ribosome  
GO:0005622   intracellular  
GO:0008097   5S rRNA binding  
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
11 259 1vq8 (N) 1 182 34.00 0 1 0.66 1
48 148 1ily (A) 22 111 29.00 0 0.66 0.47 -0.28
11 260 1vq8 (N) 1 183 34.00 0 1 0.748972 1.15
187 301 5cwk (A) 43 169 29.00 0.14 0.69 0.600949 0.06

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_127090)

Species Accession Gene Product
Arabidopsis thaliana AT3G25520   60S ribosomal protein L5-1
Arabidopsis thaliana AT5G39740   60S ribosomal protein L5-2
Babesia bovis BBOV_III010590   ribosomal L18p/L5e family protein
Brugia malayi Bm1_32050   60S ribosomal protein L5
Candida albicans CaO19.6541   likely cytosolic ribosomal protein similar to S. cerevisiae RPL5 (YPL131W) large subunit protein L5
Candida albicans CaO19.13894   likely cytosolic ribosomal protein similar to S. cerevisiae RPL5 (YPL131W) large subunit protein L5
Candida albicans CaO19_6541   hypothetical protein
Caenorhabditis elegans CELE_F54C9.5   Protein RPL-5
Cryptosporidium hominis Chro.80056   ribosomal protein L5A
Cryptosporidium parvum cgd8_440   60S ribosomal protein L5
Dictyostelium discoideum DDB_G0278539   60S ribosomal protein L5
Drosophila melanogaster Dmel_CG17489   Ribosomal protein L5
Echinococcus granulosus EgrG_001099800   dnaj subfamily c
Echinococcus granulosus EgrG_000217700   ribosomal protein l5
Entamoeba histolytica EHI_006860   60S ribosomal protein L5, putative
Entamoeba histolytica EHI_068660   60S ribosomal protein L5, putative
Echinococcus multilocularis EmuJ_001099800   dnaj subfamily c
Echinococcus multilocularis EmuJ_000217700   ribosomal protein l5
Giardia lamblia GL50803_17395   Ribosomal protein L5
Homo sapiens ENSG00000122406   ribosomal protein L5
Leishmania braziliensis LbrM.34.1790   60S ribosomal protein L5, putative
Leishmania braziliensis LbrM.34.1800   60S ribosomal protein L5, putative
Leishmania donovani LdBPK_351870.1   60S ribosomal protein L5, putative
Leishmania infantum LinJ.35.1870   60S ribosomal protein L5, putative
Leishmania infantum LinJ.35.1880   60S ribosomal protein L5, putative
Leishmania major LmjF.35.1900   60S ribosomal protein L5, putative
Leishmania major LmjF.35.1880   60S ribosomal protein L5, putative
Leishmania major LmjF.35.1890   60S ribosomal protein L5, putative
Leishmania mexicana LmxM.34.1900   60S ribosomal protein L5, putative
Leishmania mexicana LmxM.34.1890   60S ribosomal protein L5, putative
Leishmania mexicana LmxM.34.1880   60S ribosomal protein L5, putative
Loa Loa (eye worm) LOAG_10343   60S ribosomal protein L5
Mus musculus ENSMUSG00000058558   ribosomal protein L5
Neospora caninum NCLIV_010200   hypothetical protein
Oryza sativa 4325100   Os01g0896800
Oryza sativa 9271934   Os01g0896620
Onchocerca volvulus OVOC3377   60S ribosomal protein L5 homolog
Plasmodium berghei PBANKA_1019500   60S ribosomal protein L5, putative
Plasmodium falciparum PF3D7_1424100   60S ribosomal protein L5, putative
Plasmodium knowlesi PKNH_1333800   60S ribosomal protein L5, putative
Plasmodium vivax PVX_085275   60S ribosomal protein L5, putative
Plasmodium yoelii PY06459   Ribosomal L18p/L5e family, putative
Saccharomyces cerevisiae YPL131W   ribosomal 60S subunit protein L5
Schistosoma japonicum Sjp_0302150   ko:K09521 DnaJ homolog, subfamily C, member 1, putative
Schistosoma japonicum Sjp_0037600   ko:K02932 large subunit ribosomal protein L5e, putative
Schistosoma japonicum Sjp_0037580   ko:K09521 DnaJ homolog, subfamily C, member 1, putative
Schistosoma mansoni Smp_173390   ribosomal protein L5
Schmidtea mediterranea mk4.002247.02   60S ribosomal protein L5
Schmidtea mediterranea mk4.005212.03   60S ribosomal protein L5
Schmidtea mediterranea mk4.005763.02   60S ribosomal protein L5
Trypanosoma brucei gambiense Tbg972.9.9370   60S ribosomal protein L5, putative
Trypanosoma brucei gambiense Tbg972.9.9390   60S ribosomal protein L5, putative
Trypanosoma brucei Tb927.9.15170   60S ribosomal protein L5, putative
Trypanosoma brucei Tb927.9.15110   60S ribosomal protein L5, putative
Trypanosoma congolense TcIL3000_9_6340   60S ribosomal protein L5, putative
Trypanosoma cruzi TcCLB.509671.80   60S ribosomal protein L5, putative
Trypanosoma cruzi TcCLB.510765.70   60S ribosomal protein L5, putative
Trypanosoma cruzi TcCLB.510765.60   60S ribosomal protein L5, putative
Toxoplasma gondii TGME49_320050   ribosomal protein RPL5
Theileria parva TP02_0082   60S ribosomal protein L5e, putative
Trichomonas vaginalis TVAG_064640   ribosomal protein L5, putative
Trichomonas vaginalis TVAG_454000   ribosomal protein L5, putative
Trichomonas vaginalis TVAG_113720   ribosomal protein L5, putative
Trichomonas vaginalis TVAG_490240   ribosomal protein L5, putative
Trichomonas vaginalis TVAG_466650   ribosomal protein L5, putative

Essentiality

LmjF.35.1900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.244.2730 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.244.2730 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.244.2730 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.244.2730 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F54C9.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_F54C9.5 Caenorhabditis elegans larval arrest wormbase
CELE_F54C9.5 Caenorhabditis elegans slow growth wormbase
CELE_F54C9.5 Caenorhabditis elegans sterile wormbase
YPL131W Saccharomyces cerevisiae inviable yeastgenome
TGME49_320050 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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 LmjF.35.1900 (Leishmania major), 60S ribosomal protein L5, putative
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