Detailed view for TcCLB.503453.40

Basic information

TDR Targets ID: 34124
Trypanosoma cruzi, 60S ribosomal protein L30, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.3442 | Length (AA): 105 | MW (Da): 11563 | Paralog Number: 3

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

PF01248   Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

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
4 105 1xbi (A) 6 107 25.00 0 1 1.31 -1.07
5 105 1nmu (B) 3 103 50.00 0 1 1.61 -1.46
6 105 1nmu (B) 4 103 51.00 0 1 1.72278 -1.8
7 103 3vi6 (A) 9 105 61.00 0 1 1.81311 -1.88

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 60-80% percentile epimastigote. Smircich P
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_127005)

Species Accession Gene Product
Arabidopsis thaliana AT1G36240   putative 60S ribosomal protein L30-1
Arabidopsis thaliana AT1G77940   60S ribosomal protein L30-2
Arabidopsis thaliana AT3G18740   ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein
Babesia bovis BBOV_III006680   ribosomal protein L7Ae containing protein
Brugia malayi Bm1_33220   60S ribosomal protein L30
Caenorhabditis elegans CELE_Y106G6H.3   Protein RPL-30, isoform C
Cryptosporidium parvum cgd3_3890   60S ribosomal protein L30, pelota RNA binding domain containing protein
Dictyostelium discoideum DDB_G0270380   S60 ribosomal protein L30
Drosophila melanogaster Dmel_CG10652   Ribosomal protein L30
Echinococcus granulosus EgrG_000590000   ribosomal protein L30
Entamoeba histolytica EHI_065740   60S ribosomal protein L30, putative
Entamoeba histolytica EHI_192800   60S ribosomal protein L30, putative
Echinococcus multilocularis EmuJ_000590000   ribosomal protein L30
Giardia lamblia GL50803_14321   Ribosomal protein L30
Homo sapiens ENSG00000156482   ribosomal protein L30
Leishmania braziliensis LbrM.34.0280   60S ribosomal protein L30
Leishmania donovani LdBPK_350240.1   60S ribosomal protein L30
Leishmania infantum LinJ.35.0240   60S ribosomal protein L30
Leishmania major LmjF.35.0240   60S ribosomal protein L30
Leishmania mexicana LmxM.34.0240   60S ribosomal protein L30
Loa Loa (eye worm) LOAG_05816   60S ribosomal protein L30
Mus musculus 625281   predicted gene 6570
Mus musculus ENSMUSG00000058600   ribosomal protein L30
Neospora caninum NCLIV_032220   50S ribosomal protein L30e, related
Oryza sativa 4327587   Os01g0812800
Oryza sativa 4324441   Os01g0276000
Oryza sativa 4339162   Os05g0490100
Plasmodium berghei PBANKA_0503600   60S ribosomal protein L30e, putative
Plasmodium falciparum PF3D7_1019400   60S ribosomal protein L30e, putative
Plasmodium knowlesi PKNH_0603600   60S ribosomal protein L30e, putative
Plasmodium vivax PVX_001835   60S ribosomal protein L30, putative
Plasmodium yoelii PY05200   60S ribosomal protein L30
Saccharomyces cerevisiae YGL030W   ribosomal 60S subunit protein L30
Schistosoma japonicum Sjp_0066600   ko:K02908 large subunit ribosomal protein L30e, putative
Schistosoma japonicum Sjp_0219710   60S ribosomal protein L30, putative
Schistosoma mansoni Smp_044580   60S ribosomal protein L30
Schmidtea mediterranea mk4.001188.00   60S ribosomal protein L30
Trypanosoma brucei gambiense Tbg972.10.5110   60S ribosomal protein L30, putative
Trypanosoma brucei gambiense Tbg972.10.5120   60S ribosomal protein L30, putative
Trypanosoma brucei Tb927.10.4120   60S ribosomal protein L30
Trypanosoma brucei Tb927.10.4110   60S ribosomal protein L30
Trypanosoma congolense TcIL3000_10_3440   60S ribosomal protein L30, putative
Trypanosoma congolense TcIL3000_10_3430   60S ribosomal protein L30
Trypanosoma cruzi TcCLB.503453.40   60S ribosomal protein L30, putative
Trypanosoma cruzi TcCLB.503453.30   60S ribosomal protein L30, putative
Trypanosoma cruzi TcCLB.506959.120   60S ribosomal protein L30, putative
Trypanosoma cruzi TcCLB.506959.130   60S ribosomal protein L30, putative
Toxoplasma gondii TGME49_232230   ribosomal protein RPL30
Theileria parva TP02_0305   60S ribosomal protein L30, putative
Trichomonas vaginalis TVAG_474670   ribosomal protein L30, putative
Trichomonas vaginalis TVAG_213810   ribosomal protein L30, putative
Trichomonas vaginalis TVAG_212240   60S ribosomal protein L30, putative
Trichomonas vaginalis TVAG_331690   60S ribosomal protein L30, putative
Trichomonas vaginalis TVAG_192910   60S ribosomal protein L30, putative
Trichomonas vaginalis TVAG_494060   ribosomal protein L30, putative
Trichomonas vaginalis TVAG_072050   60S ribosomal protein L30, putative
Trichomonas vaginalis TVAG_005920   60S ribosomal protein L30, putative

Essentiality

TcCLB.503453.40 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.4110 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.4110 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.4110 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.4110 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y106G6H.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y106G6H.3 Caenorhabditis elegans larval arrest wormbase
CELE_Y106G6H.3 Caenorhabditis elegans larval lethal wormbase
CELE_Y106G6H.3 Caenorhabditis elegans slow growth wormbase
CELE_Y106G6H.3 Caenorhabditis elegans sterile wormbase
YGL030W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0503600 Plasmodium berghei Essential plasmo
TGME49_232230 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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 TcCLB.503453.40 (Trypanosoma cruzi), 60S ribosomal protein L30, putative
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