Detailed view for Tb927.10.6090

Basic information

TDR Targets ID: 20337
Trypanosoma brucei, tRNA pseudouridine synthase A, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.0612 | Length (AA): 688 | MW (Da): 76906 | Paralog Number: 1

Signal peptide: Y | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0016866   intramolecular transferase activity  
GO:0009982   pseudouridine synthase activity  
GO:0003723   RNA binding  
GO:0001522   pseudouridine synthesis  
GO:0009451   RNA modification  

Metabolic Pathways

Pyrimidine metabolism (KEGG)

Structural information

Modbase 3D models:

No model available for this protein in Modbase.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_128305)

Species Accession Gene Product
Arabidopsis thaliana AT2G39140   protein SUPPRESSOR OF VARIEGATION 1
Chlamydia trachomatis CT_723   pseudouridine synthase
Dictyostelium discoideum DDB_G0276449   hypothetical protein
Dictyostelium discoideum DDB_G0282961   hypothetical protein
Escherichia coli b4022   23S rRNA pseudouridine(2604) synthase
Escherichia coli b1269   23S rRNA pseudouridine(2605) synthase
Escherichia coli b2183   16S rRNA pseudouridine(516) synthase
Leishmania braziliensis LbrM.35.1850   tRNA pseudouridine synthase A, putative
Leishmania donovani LdBPK_361740.1   tRNA pseudouridine synthase A, putative
Leishmania infantum LinJ.36.1740   tRNA pseudouridine synthase A, putative
Leishmania major LmjF.36.1660   tRNA pseudouridine synthase A, putative
Leishmania mexicana LmxM.36.1660   tRNA pseudouridine synthase A, putative
Mycobacterium leprae ML1370   Hypothetical pseudouridine synthase (Uracil hydrolyase)
Mycobacterium tuberculosis Rv1711   Conserved hypothetical protein
Mycobacterium ulcerans MUL_3234   pseudouridylate synthase
Oryza sativa 4331652   Os03g0152700
Plasmodium berghei PBANKA_0315900   pseudouridine synthase, putative
Plasmodium falciparum PF3D7_0219500   pseudouridine synthase, putative
Plasmodium knowlesi PKNH_0401400   pseudouridine synthase, putative
Plasmodium vivax PVX_002580   pseudouridine synthetase, putative
Plasmodium yoelii PY04495   1st euk. member
Schmidtea mediterranea mk4.050120.00  
Trypanosoma brucei gambiense Tbg972.10.7460   tRNA pseudouridine synthase A, putative
Trypanosoma brucei Tb927.10.6090   tRNA pseudouridine synthase A, putative
Trypanosoma brucei Tb11.v5.0201   tRNA pseudouridine synthase A, putative
Trypanosoma congolense TcIL3000_10_5140   tRNA pseudouridine synthase A, putative
Trypanosoma cruzi TcCLB.503781.60   tRNA pseudouridine synthase A, putative
Trypanosoma cruzi TcCLB.507639.50   tRNA pseudouridine synthase A, putative
Treponema pallidum TP0459   hypothetical protein

Essentiality

Tb927.10.6090 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6090 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6090 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6090 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6090 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1269 Escherichia coli non-essential goodall
b2183 Escherichia coli non-essential goodall
b4022 Escherichia coli non-essential goodall
PBANKA_0315900 Plasmodium berghei Dispensable plasmo
Show/Hide essentiality data references
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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) increased (PATO:0000470) 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: increased cell proliferation (significant gain 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 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

2 literature references were collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier Tb927.10.6090 (Trypanosoma brucei), tRNA pseudouridine synthase A, putative
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