Detailed view for Tb927.10.9410

Basic information

TDR Targets ID: 20483
Trypanosoma brucei, Selenophosphate synthetase 2
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.337 | Length (AA): 393 | MW (Da): 42984 | Paralog Number: 0

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

Druggability Group : DG3

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

PF00586   AIR synthase related protein, N-terminal domain
PF02769   AIR synthase related protein, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016260   selenocysteine biosynthetic process  
GO:0004756   selenide, water dikinase activity  
GO:0005524   ATP binding  
GO:0003824   catalytic activity  

Metabolic Pathways

Selenoamino acid metabolism (KEGG)
Global map (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
19 386 3fd5 (B) 6 377 45.00 0 1 1.50189 -0.53

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 60-80% 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_128344)

Species Accession Gene Product
Brugia malayi Bm1_37305   selenium donor protein
Caenorhabditis elegans CELE_Y45F10A.4   Protein SELD-1
Dictyostelium discoideum DDB_G0282367   selenide water dikinase
Drosophila melanogaster Dmel_CG8553   Selenide,water dikinase
Escherichia coli b1764   selenophosphate synthase
Echinococcus granulosus EgrG_001082900   selenide water dikinase
Echinococcus multilocularis EmuJ_001082900  
Homo sapiens ENSG00000179918   selenophosphate synthetase 2
Homo sapiens ENSG00000086475   selenophosphate synthetase 1
Leishmania braziliensis LbrM.35.5670   selenophosphate synthetase, putative
Leishmania donovani LdBPK_365650.1   selenophosphate synthetase, putative
Leishmania infantum LinJ.36.5650   selenophosphate synthetase, putative
Leishmania major LmjF.36.5410   selenophosphate synthetase, putative
Leishmania mexicana LmxM.36.5410   selenophosphate synthetase, putative
Loa Loa (eye worm) LOAG_01464   selenium donor protein
Mus musculus ENSMUSG00000026662   selenophosphate synthetase 1
Mus musculus 20768   selenophosphate synthetase 2
Neospora caninum NCLIV_019590   Selenophosphate synthase (EC 2.7.9.3), related
Plasmodium berghei PBANKA_0811600   selenide water dikinase, putative
Plasmodium falciparum PF3D7_0910400   selenide water dikinase, putative
Plasmodium knowlesi PKNH_0708400   selenide water dikinase, putative
Plasmodium vivax PVX_098960   selenophosphate synthetase, putative
Plasmodium yoelii PY05530   selenophosphate synthetase
Schistosoma japonicum Sjp_0303300   ko:K01008 selenide,water dikinase [EC2.7.9.3], putative
Schistosoma japonicum Sjp_0077310   Selenide, water dikinase, putative
Schistosoma mansoni Smp_095650   selinide water dikinase
Schmidtea mediterranea mk4.009858.03   Probable selenide, water dikinase
Schmidtea mediterranea mk4.009858.01   Probable selenide, water dikinase
Schmidtea mediterranea mk4.004975.02   Probable selenide, water dikinase
Schmidtea mediterranea mk4.032231.00   Probable selenide, water dikinase
Trypanosoma brucei gambiense Tbg972.10.11500   selenophosphate synthetase, putative
Trypanosoma brucei Tb927.10.9410   Selenophosphate synthetase 2
Trypanosoma congolense TcIL3000_10_8170   selenophosphate synthetase, putative
Trypanosoma cruzi TcCLB.508717.36   selenophosphate synthetase, putative
Trypanosoma cruzi TcCLB.504079.6   selenophosphate synthetase, putative
Toxoplasma gondii TGME49_280560   selenide, water dikinase

Essentiality

Tb927.10.9410 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.9410 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.9410 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.9410 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.9410 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1764 Escherichia coli non-essential goodall
TGME49_280560 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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) 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 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

  • Tbru020330AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tbru020330; Recombinant protein: full-length; Source: T brucei; selenophosphate synthetase, putative ;

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier Tb927.10.9410 (Trypanosoma brucei), Selenophosphate synthetase 2
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