Detailed view for Tb927.10.10170

Basic information

TDR Targets ID: 19085
Trypanosoma brucei, pre-mRNA splicing factor 46, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.2362 | Length (AA): 444 | MW (Da): 48744 | 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

PF00400   WD domain, G-beta repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 3 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
4 373 1c5k (A) 54 430 13.00 0 1 0.861133 0.6
129 441 4yvd (A) 192 490 44.00 0 1 1.24635 -0.93
196 259 5gxi (A) 653 717 30.00 0 0.83 0.584944 -1.18

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 Procyclic, Bloodstream Form. 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_128222)

Species Accession Gene Product
Arabidopsis thaliana AT4G15900   protein pleiotropic regulatory locus 1
Arabidopsis thaliana AT3G16650   protein pleiotropic regulator PRL2
Babesia bovis BBOV_III007650   WD domain, G-beta repeat containing protein
Brugia malayi Bm1_28715   Pre-mRNA splicing protein prp5
Candida albicans CaO19.5413   WD40 repeat protein similar to S. cerevisiae PRP46 (YPL151C) spliceosome subcomplex Cwc/Ntc component
Candida albicans CaO19.12868   WD40 repeat protein similar to S. cerevisiae PRP46 (YPL151C) spliceosome subcomplex Cwc/Ntc component
Caenorhabditis elegans CELE_D1054.15   Protein PLRG-1, isoform B
Cryptosporidium hominis Chro.70442   pleiotropic regulator 1
Cryptosporidium parvum cgd7_3960   pleiotropic regulator 1
Dictyostelium discoideum DDB_G0279507   WD40 repeat-containing protein
Drosophila melanogaster Dmel_CG1796   Transport and Golgi organization 4
Echinococcus granulosus EgrG_000570200   pleiotropic regulator 1
Entamoeba histolytica EHI_153530   pre-mRNA-splicing factor PRP46, putative
Echinococcus multilocularis EmuJ_000008500   pleiotropic regulator 1
Echinococcus multilocularis EmuJ_000570200   pleiotropic regulator 1
Homo sapiens ENSG00000171566   pleiotropic regulator 1
Leishmania braziliensis LbrM.35.5070   hypothetical protein, conserved
Leishmania donovani LdBPK_365050.1   WD domain, G-beta repeat, putative
Leishmania infantum LinJ.36.5050   hypothetical protein, conserved
Leishmania major LmjF.36.4820   hypothetical protein, conserved
Leishmania mexicana LmxM.36.4820   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06522   hypothetical protein
Loa Loa (eye worm) LOAG_06521   hypothetical protein
Mus musculus ENSMUSG00000027998   pleiotropic regulator 1, PRL1 homolog (Arabidopsis)
Neospora caninum NCLIV_061820   Testis cDNA clone: QtsA-14439, similar to human pleiotropic regulator 1 (PRL1homolog, Arabidopsis)(PLRG1),, related
Oryza sativa 4332781   Os03g0339100
Onchocerca volvulus OVOC10181  
Onchocerca volvulus OVOC11498  
Onchocerca volvulus OVOC5149  
Plasmodium berghei PBANKA_0401000   pre-mRNA-splicing factor PRP46, putative
Plasmodium falciparum PF3D7_0302000   pre-mRNA-splicing factor PRP46, putative
Plasmodium knowlesi PKNH_0840700   pre-mRNA-splicing factor PRP46, putative
Plasmodium vivax PVX_119245   splicing regulatory protein, putative
Plasmodium yoelii PY07385   Plasmodium vivax PV1H14040_P
Saccharomyces cerevisiae YPL151C   Prp46p
Schistosoma japonicum Sjp_0072620   Pleiotropic regulator 1, putative
Schistosoma mansoni Smp_104870   hypothetical protein
Trypanosoma brucei gambiense Tbg972.10.12420   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.10170   pre-mRNA splicing factor 46, putative
Trypanosoma congolense TcIL3000_10_8240   predicted WD40 repeat protein
Trypanosoma cruzi TcCLB.508307.44   pre-mRNA splicing factor 46, putative
Toxoplasma gondii TGME49_218420   WD domain, G-beta repeat-containing protein
Theileria parva TP04_0666   hypothetical protein, conserved
Trichomonas vaginalis TVAG_122280   WD-repeat protein, putative

Essentiality

Tb927.10.10170 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.10170 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.10170 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.10170 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.10170 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_D1054.15 Caenorhabditis elegans embryonic lethal wormbase
CELE_D1054.15 Caenorhabditis elegans larval arrest wormbase
CELE_D1054.15 Caenorhabditis elegans larval lethal wormbase
CELE_D1054.15 Caenorhabditis elegans sterile wormbase
YPL151C Saccharomyces cerevisiae inviable yeastgenome
TGME49_218420 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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

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) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in procyclic forms . 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 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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User comments

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Gene identifier Tb927.10.10170 (Trypanosoma brucei), pre-mRNA splicing factor 46, putative
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