Detailed view for Tb927.10.4740

Basic information

TDR Targets ID: 11884
Trypanosoma brucei, nucleolar RNA-binding protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 11.1016 | Length (AA): 63 | MW (Da): 7406 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF04135   Nucleolar RNA-binding protein, Nop10p family

Gene Ontology

Mouse over links to read term descriptions.
GO:0030515   snoRNA binding  
GO:0042254   ribosome biogenesis and assembly  
GO:0001522   pseudouridine synthesis  

Metabolic Pathways

Ribosome biogenesis in eukaryotes (KEGG)

Structural information

Modbase 3D models:

There are 2 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
1 47 3u28 (B) 1 48 70.00 0 0.6 1.43583 0.37
9 63 1iuy (A) 9 63 27.00 0.61 0.07 1.18182 -0.45

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
NA% percentile Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Procyclic. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_127952)

Species Accession Gene Product
Arabidopsis thaliana AT2G20490   nucleolar RNA binding protein NOP10
Babesia bovis BBOV_IV010540   ribosome biogeneisis subunit NOP10, putative
Brugia malayi Bm1_09685   NOLA3 protein
Caenorhabditis elegans CELE_C25A1.6   Protein NOLA-3
Cryptosporidium parvum cgd1_530   hypothetical protein
Dictyostelium discoideum DDB_G0288347   H/ACA RNP complex subunit 3
Drosophila melanogaster Dmel_CG7637   CG7637 gene product from transcript CG7637-RA
Echinococcus granulosus EgrG_000535600   H:ACA ribonucleoprotein complex subunit 3
Entamoeba histolytica EHI_131470   ribosome biogenesis protein Nop10, putative
Echinococcus multilocularis EmuJ_000535600   H:ACA ribonucleoprotein complex subunit 3
Giardia lamblia GL50803_8242   Ribosome biogenesis protein Nop10
Homo sapiens ENSG00000182117   NOP10 ribonucleoprotein
Leishmania braziliensis LbrM.35.0430   nuclear protein family a (nop10p), putative
Leishmania donovani LdBPK_360370.1   nuclear protein family a (nop10p), putative
Leishmania infantum LinJ.36.0370   nuclear protein family a (nop10p), putative
Leishmania major LmjF.36.0340   nuclear protein family a (nop10p), putative
Leishmania mexicana LmxM.36.0340   nuclear protein family a (nop10p), putative
Loa Loa (eye worm) LOAG_06322   hypothetical protein
Mus musculus 102635936   predicted gene, 33146
Mus musculus 66181   NOP10 ribonucleoprotein
Oryza sativa 9269830   Os02g0618250
Onchocerca volvulus OVOC1672  
Plasmodium berghei PBANKA_1011900   H/ACA ribonucleoprotein complex subunit 3, putative
Plasmodium falciparum PF3D7_1433000   H/ACA ribonucleoprotein complex subunit 3, putative
Plasmodium knowlesi PKNH_0419600   H/ACA ribonucleoprotein complex subunit 3, putative
Plasmodium vivax PVX_084895   H/ACA ribonucleoprotein complex subunit 3, putative
Plasmodium yoelii PY05263   protein Saccharomyces cerevisiae YHR072w-a
Saccharomyces cerevisiae YHR072W-A   Nop10p
Schistosoma japonicum Sjp_0105390   IPR007264,Nucleolar RNA-binding protein Nop10p;IPR005135,Endonuclease/exonuclease/phosphatase,domain-containing
Schistosoma mansoni Smp_093320   ribosome biogenesis protein Nop10
Schmidtea mediterranea mk4.000060.10   Putative H/ACA ribonucleoprotein complex subunit 3
Trypanosoma brucei gambiense Tbg972.10.5760   nucleolar RNA-binding protein, putative
Trypanosoma brucei Tb927.10.4740   nucleolar RNA-binding protein, putative
Trypanosoma cruzi TcCLB.510289.6   nucleolar RNA-binding protein, putative
Trypanosoma cruzi TcCLB.503891.54   nucleolar RNA-binding protein, putative
Toxoplasma gondii TGME49_278270   nucleolar protein, structural component of H/ACA snoRNPs, putative
Theileria parva TP01_0673   hypothetical protein
Trichomonas vaginalis TVAG_282120   ribosome biogenesis protein nop10, putative
Trichomonas vaginalis TVAG_318880   ribosome biogenesis protein nop10, putative

Essentiality

Tb927.10.4740 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.4740 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.4740 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.4740 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.4740 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C25A1.6 Caenorhabditis elegans slow growth wormbase
CELE_C25A1.6 Caenorhabditis elegans sterile wormbase
YHR072W-A Saccharomyces cerevisiae inviable yeastgenome
TGME49_278270 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.
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 3 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in procyclic forms . References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

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Gene identifier Tb927.10.4740 (Trypanosoma brucei), nucleolar RNA-binding protein, putative
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