Detailed view for TcCLB.506777.20

Basic information

TDR Targets ID: 30004
Trypanosoma cruzi, cytoplasmic translation machinery associated protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.5738 | Length (AA): 196 | MW (Da): 21922 | 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

PF01472   PUA domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
9 179 1iq8 (A) 419 582 13.00 0 1 0.88 0
22 183 2cx0 (A) 18 175 24.00 0.0000091 1 1.11 -0.63
6 192 3r90 (A) 1 184 46.00 0 1 1.54808 -1.03
42 73 3u9s (A) 541 571 48.00 0.81 0.26 0.473265 1.57
99 173 2apo (A) 248 317 36.00 0.62 1 0.725653 -0.52

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 epimastigote. Smircich P
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_127512)

Species Accession Gene Product
Arabidopsis thaliana AT1G09150   pseudouridine synthase and archaeosine transglycosylase domain-containing protein
Babesia bovis BBOV_II005020   cell cycle regulator protein, putative
Brugia malayi Bm1_36830   hypothetical protein
Candida albicans CaO19.2920   similar to S. cerevisiae YER007C-A
Candida albicans CaO19.10437   similar to S. cerevisiae YER007C-A
Caenorhabditis elegans CELE_C11D2.7   Protein C11D2.7
Cryptosporidium hominis Chro.30448   uncharacterized domain 2
Cryptosporidium parvum cgd3_3970   Yer007c-ap/MCT-1 like PUA RNA binding domain containing protein
Dictyostelium discoideum DDB_G0271910   hypothetical protein
Drosophila melanogaster Dmel_CG5941   CG5941 gene product from transcript CG5941-RA
Echinococcus granulosus EgrG_000827900   malignant t cell amplified sequence 1
Entamoeba histolytica EHI_016460   hypothetical protein
Echinococcus multilocularis EmuJ_000827900   malignant t cell amplified sequence 1
Giardia lamblia GL50803_13897   MCT-1 protein-like protein
Homo sapiens 28985   malignant T cell amplified sequence 1
Leishmania braziliensis LbrM.19.0140   hypothetical protein, conserved
Leishmania donovani LdBPK_110180.1   hypothetical protein, conserved
Leishmania infantum LinJ.11.0180   hypothetical protein, conserved
Leishmania major LmjF.11.0180   hypothetical protein, conserved
Leishmania mexicana LmxM.11.0180   hypothetical protein, conserved
Mus musculus ENSMUSG00000042814   malignant T cell amplified sequence 2
Mus musculus ENSMUSG00000000355   malignant T cell amplified sequence 1
Neospora caninum NCLIV_005020   PUA domain-containing, cell cycle regulator protein, putative
Oryza sativa 4327290   Os01g0314300
Plasmodium berghei PBANKA_1244000   cell cycle regulator protein, putative
Plasmodium falciparum PF3D7_0529500   cell cycle regulator protein, putative
Plasmodium knowlesi PKNH_1003300   cell cycle regulator protein, putative
Plasmodium vivax PVX_079780   cell cycle regulator protein, putative
Plasmodium yoelii PY02784   uncharacterized domain 2, putative
Saccharomyces cerevisiae YER007C-A   Tma20p
Schistosoma japonicum Sjp_0200630   ko:K07575 PUA domain protein, putative
Schmidtea mediterranea mk4.000618.03   Putative beta-1,4-galactosyltransferase
Trypanosoma brucei gambiense Tbg972.11.8040   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.7100   cytoplasmic translation machinery associated protein, putative
Trypanosoma congolense TcIL3000.11.7670   cytoplasmic translation machinery associated protein, putative
Trypanosoma cruzi TcCLB.506777.20   cytoplasmic translation machinery associated protein, putative
Trypanosoma cruzi TcCLB.511165.4   cytoplasmic translation machinery associated protein, putative
Toxoplasma gondii TGME49_221490   cell cycle regulator protein
Theileria parva TP04_0043   cell cycle regulator protein, putative
Trichomonas vaginalis TVAG_342970   ligatin translation initiation factor, putative
Trichomonas vaginalis TVAG_306110   mct-1 protein, putative

Essentiality

TcCLB.506777.20 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.4950 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.02.4950 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.4950 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.4950 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1244000 Plasmodium berghei Dispensable plasmo
TGME49_221490 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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
  • 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

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

  • Tcru007090AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tcru007090; Recombinant protein: full-length; Source: T cruzi; uncharacterized domain 2, putative ;

Bibliographic References

No literature references available for this target.

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User comments

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Gene identifier TcCLB.506777.20 (Trypanosoma cruzi), cytoplasmic translation machinery associated protein, putative
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