Detailed view for Tb927.8.3240

Basic information

TDR Targets ID: 20175
Trypanosoma brucei, lathosterol oxidase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.5176 | Length (AA): 270 | MW (Da): 31499 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 4

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

PF04116   Fatty acid hydroxylase superfamily

Gene Ontology

Mouse over links to read term descriptions.
GO:0000248   C-5 sterol desaturase activity  
GO:0016021   integral to membrane  
GO:0005783   endoplasmic reticulum  
GO:0016491   oxidoreductase activity  
GO:0005506   iron ion binding  
GO:0055114   oxidation reduction  
GO:0008610   lipid biosynthetic process  
GO:0006633   fatty acid biosynthetic process  
GO:0006629   lipid metabolic process  

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
139 245 2xq1 (A) 348 449 32.00 0.31 0.04 0.0427963 3.37

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_129040)

Species Accession Gene Product
Arabidopsis thaliana AT3G02580   delta(7)-sterol-C5(6)-desaturase 1
Arabidopsis thaliana AT3G02590   putative Delta(7)-sterol-C5(6)-desaturase 2
Candida albicans CaO19.8387   similar to S. cerevisiae ERG3 (YLR056W) sterol C5, 6 desaturase in volved in ergosterol biosynthesis
Candida albicans CaO19.767   similar to S. cerevisiae ERG3 (YLR056W) sterol C5, 6 desaturase in volved in ergosterol biosynthesis
Dictyostelium discoideum DDB_G0279611   sterol desaturase family protein
Homo sapiens 6309   sterol-C5-desaturase
Leishmania braziliensis LbrM.23.1420   lathosterol oxidase-like protein
Leishmania donovani LdBPK_231560.1   lathosterol oxidase-like protein
Leishmania infantum LinJ.23.1560   lathosterol oxidase-like protein
Leishmania major LmjF.23.1300   lathosterol oxidase-like protein
Leishmania mexicana LmxM.23.1300   lathosterol oxidase-like protein
Mus musculus ENSMUSG00000032018   sterol-C5-desaturase (fungal ERG3, delta-5-desaturase) homolog (S. cerevisae)
Oryza sativa 4325687   Os01g0134500
Saccharomyces cerevisiae YLR056W   C-5 sterol desaturase
Trypanosoma brucei gambiense Tbg972.8.2980   lathosterol oxidase, putative
Trypanosoma brucei Tb927.8.3240   lathosterol oxidase, putative
Trypanosoma congolense TcIL3000_8_3280   lathosterol oxidase, putative
Trypanosoma cruzi TcCLB.473111.10   lathosterol oxidase, putative
Trypanosoma cruzi TcCLB.507853.10   lathosterol oxidase, putative

Essentiality

Tb927.8.3240 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.3240 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.3240 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.3240 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.3240 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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) 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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Gene identifier Tb927.8.3240 (Trypanosoma brucei), lathosterol oxidase, putative
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