Detailed view for Tb927.9.10850

Basic information

TDR Targets ID: 10381
Trypanosoma brucei, Splicing factor 3B subunit 10 (SF3b10), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6393 | Length (AA): 89 | MW (Da): 10420 | 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

PF07189   Splicing factor 3B subunit 10 (SF3b10)

Gene Ontology

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

Metabolic Pathways

Spliceosome (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
20 82 5ife (B) 15 77 38.00 0 0.4 1.16237 -0.4
32 82 5hy7 (D) 27 77 24.00 0 0.17 0.952534 -1.28

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 Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_128788)

Species Accession Gene Product
Arabidopsis thaliana AT3G23325   Splicing factor 3B subunit 5/RDS3 complex subunit 10
Arabidopsis thaliana AT4G14342   splicing factor 3B subunit 5/RDS3 complex subunit 10
Babesia bovis BBOV_III004720   splicing factor 3B subunit 10 (SF3b10), putative
Brugia malayi Bm1_45125   splicing factor 3B subunit 5
Cryptosporidium parvum cgd4_890   hypothetical protein
Dictyostelium discoideum DDB_G0271312   splicing factor 3B subunit 10 family protein
Drosophila melanogaster Dmel_CG11985   CG11985 gene product from transcript CG11985-RA
Echinococcus granulosus EgrG_000191400   Probable splicing factor 3B subunit 5
Entamoeba histolytica EHI_190450   splicing factor 3B subunit 10, putative
Echinococcus multilocularis EmuJ_000191400   Probable splicing factor 3B subunit 5
Homo sapiens ENSG00000169976   splicing factor 3b, subunit 5, 10kDa
Leishmania braziliensis LbrM.34.4080   hypothetical protein, conserved
Leishmania donovani LdBPK_354150.1   Splicing factor 3B subunit 10 (SF3b10), putative
Leishmania infantum LinJ.35.4150   hypothetical protein, conserved
Leishmania major LmjF.35.4090   hypothetical protein, conserved
Leishmania mexicana LmxM.34.4090   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03253   splicing factor 3B subunit 5
Mus musculus 66125   splicing factor 3b, subunit 5
Neospora caninum NCLIV_057720   hypothetical protein
Oryza sativa 9272211   Os08g0278966
Oryza sativa 4345702   Os08g0444100
Onchocerca volvulus OVOC13493  
Plasmodium berghei PBANKA_1132100   splicing factor 3B subunit 5, putative
Plasmodium falciparum PF3D7_1355800   splicing factor 3B subunit 5, putative
Plasmodium knowlesi PKNH_1115700   splicing factor 3B subunit 5, putative
Plasmodium vivax PVX_114770   splicing factor, putative
Plasmodium yoelii PY06774   hypothetical protein
Saccharomyces cerevisiae YNL138W-A   Ysf3p
Schistosoma japonicum Sjp_0021640   Probable splicing factor 3B subunit 5, putative
Schistosoma mansoni Smp_135740   hypothetical protein
Schmidtea mediterranea mk4.000302.17  
Trypanosoma brucei gambiense Tbg972.9.6380   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.10850   Splicing factor 3B subunit 10 (SF3b10), putative
Trypanosoma congolense TcIL3000_9_4410   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508461.174   Splicing factor 3B subunit 10 (SF3b10), putative
Toxoplasma gondii TGME49_314830   pre-mRNA splicing factor subunit, putative
Theileria parva TP02_0480   hypothetical protein, conserved
Trichomonas vaginalis TVAG_235200   conserved hypothetical protein

Essentiality

Tb927.9.10850 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.2205 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.2205 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.2205 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.2205 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
YNL138W-A Saccharomyces cerevisiae inviable yeastgenome
TGME49_314830 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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.
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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) 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 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 Tb927.9.10850 (Trypanosoma brucei), Splicing factor 3B subunit 10 (SF3b10), putative
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