Detailed view for TcCLB.506413.70

Basic information

TDR Targets ID: 43436
Trypanosoma cruzi, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.8569 | Length (AA): 407 | MW (Da): 45487 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF04427   Brix domain

Gene Ontology

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

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
63 316 5wxl (A) 19 251 34.00 0 1 0.928879 0
73 141 2cxh (A) 15 77 19.00 0.063 0.22 0.288333 -0.02
259 373 4wjk (B) 285 392 29.00 0.17 0.27 0.250155 1.12
346 407 5hmo (A) 796 862 21.00 0.15 0 0.374134 -0.97

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 metacyclic. Smircich P
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile epimastigote. 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_127909)

Species Accession Gene Product
Arabidopsis thaliana AT3G23620   ribosome production factor 2-like protein
Babesia bovis BBOV_I002810   Brix domain containing protein
Brugia malayi Bm1_03295   Brix domain containing protein 1 homolog
Candida albicans CaO19.11036   brix domain protein similar to S. cerevisiae RPF2 (YKR081C) nucleolar protein involved in 60S ribosomal subunit biogenesis
Candida albicans CaO19.3553   brix domain protein similar to S. cerevisiae RPF2 (YKR081C) nucleolar protein involved in 60S ribosomal subunit biogenesis
Caenorhabditis elegans CELE_Y54E10A.10   Protein Y54E10A.10
Cryptosporidium hominis Chro.80539   hypothetical protein
Cryptosporidium parvum cgd8_4680   conserved protein; Py hit 23481194
Dictyostelium discoideum DDB_G0292216   brix domain-containing protein
Drosophila melanogaster Dmel_CG7993   Novel nucleolar protein 3
Echinococcus granulosus EgrG_000581200   ribosome production factor 2
Entamoeba histolytica EHI_029200   ribosome biogenesis protein, putative
Echinococcus multilocularis EmuJ_000581200   ribosome production factor 2
Giardia lamblia GL50803_6835   Brix domain containing protein
Homo sapiens 84154   ribosome production factor 2 homolog (S. cerevisiae)
Leishmania braziliensis LbrM.26.0030   brix domain containing-like protein
Leishmania donovani LdBPK_260020.1   brix domain containing-like protein
Leishmania infantum LinJ.26.0020   brix domain containing-like protein
Leishmania major LmjF.26.0010   brix domain containing-like protein
Leishmania mexicana LmxM.26.0010a  
Leishmania mexicana LmxM.26.0010   brix domain containing-like protein
Loa Loa (eye worm) LOAG_10304   brix domain-containing protein 1
Mus musculus ENSMUSG00000038510   ribosome production factor 2 homolog (S. cerevisiae)
Neospora caninum NCLIV_032490   brix domain-containing protein, putative
Oryza sativa 4323989   Os01g0513800
Onchocerca volvulus OVOC109   Ribosome production factor 2 homolog
Plasmodium berghei PBANKA_0512500   nucleolar preribosomal assembly protein, putative
Plasmodium falciparum PF3D7_1028400   nucleolar preribosomal assembly protein, putative
Plasmodium knowlesi PKNH_0612800   BRIX domain, putative
Plasmodium vivax PVX_111300   brix domain containing protein
Plasmodium yoelii PY05510   hypothetical protein
Saccharomyces cerevisiae YKR081C   Rpf2p
Schistosoma japonicum Sjp_0009340   Brix domain-containing protein 1, putative
Schistosoma mansoni Smp_028340   brix domain containing protein
Schmidtea mediterranea mk4.000172.22   Ribosome production factor 2 homolog
Trypanosoma brucei gambiense Tbg972.7.150   ribosome biogenesis protein, putative
Trypanosoma brucei Tb927.7.270   Ribosome production factor 2 homolog
Trypanosoma congolense TcIL3000_7_70   ribosome biogenesis protein, putative
Trypanosoma cruzi TcCLB.506413.70   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.511237.100   hypothetical protein, conserved
Toxoplasma gondii TGME49_232520   brix domain-containing protein
Theileria parva TP01_0566   hypothetical protein, conserved
Trichomonas vaginalis TVAG_093310   brix domain containing protein, putative
Trichomonas vaginalis TVAG_467320   brix domain containing protein, putative

Essentiality

TcCLB.506413.70 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.270 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.270 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.270 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.270 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y54E10A.10 Caenorhabditis elegans slow growth wormbase
YKR081C Saccharomyces cerevisiae inviable yeastgenome
TGME49_232520 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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

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 TcCLB.506413.70 (Trypanosoma cruzi), hypothetical protein, conserved
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