Detailed view for Tbg972.8.7370

Basic information

TDR Targets ID: 546987
Trypanosoma brucei gambiense, farnesyltransferase, putative,squalene synthase, putative
Source Database / ID: 

pI: 6.1556 | Length (AA): 456 | MW (Da): 51521 | Paralog Number: 0

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

Druggability Group : DG

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

PF00494   Squalene/phytoene synthase

Gene Ontology

Mouse over links to read term descriptions.
GO:0051996   GO:squalene synthase activity  

GO:0016765   transferase activity, transferring alkyl or aryl (other than methyl) groups  
GO:0016740   transferase activity  
GO:0004310   farnesyl-diphosphate farnesyltransferase activity  
GO:0009058   biosynthetic process  
GO:0006696   ergosterol biosynthetic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
28 414 3wca (A) 28 366 66.00 0 1 1.60728 -1.55

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129470)

Species Accession Gene Product
Arabidopsis thaliana AT4G34640   Squalene synthase 1
Arabidopsis thaliana AT4G34650   squalene synthase 2
Candida albicans CaO19.11099   squalene synthase similar to S. cerevisiae ERG9 (YHR190W) involved in ergosterol biosynthesis
Candida albicans CaO19.3616   squalene synthase similar to S. cerevisiae ERG9 (YHR190W) involved in ergosterol biosynthesis
Dictyostelium discoideum DDB_G0292072   farnesyl-diphosphate farnesyltransferase
Homo sapiens ENSG00000079459   farnesyl-diphosphate farnesyltransferase 1
Leishmania braziliensis LbrM.31.3310   squalene synthase, putative
Leishmania donovani LdBPK_313050.1   farnesyltransferase, putative
Leishmania infantum LinJ.31.3050   squalene synthase, putative
Leishmania major LmjF.31.2940   squalene synthase, putative
Leishmania mexicana LmxM.30.2940   farnesyltransferase, putative
Mus musculus ENSMUSG00000021273   farnesyl diphosphate farnesyl transferase 1
Oryza sativa 4342663   Os07g0200700
Oryza sativa 4334492   Os03g0805100
Saccharomyces cerevisiae YHR190W   bifunctional farnesyl-diphosphate farnesyltransferase/squalene synthase
Trypanosoma brucei gambiense Tbg972.8.7370   farnesyltransferase, putative,squalene synthase, putative
Trypanosoma brucei Tb927.8.7120   squalene synthase, putative
Trypanosoma congolense TcIL3000_0_37460   squalene synthase, putative
Trypanosoma congolense TcIL3000_8_7210   squalene synthase, putative
Trypanosoma congolense TcIL3000_0_23140   squalene synthase, putative
Trypanosoma cruzi TcCLB.507897.20   squalene synthase, putative
Trypanosoma cruzi TcCLB.508369.20   squalene synthase, putative

Essentiality

Tbg972.8.7370 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.7120 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.7120 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.7120 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.7120 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
YHR190W Saccharomyces cerevisiae inviable yeastgenome
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
  • 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
  • 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
  • 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.
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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
Species Known druggable target Linked compounds Reference
Saccharomyces cerevisiae bifunctional farnesyl-diphosphate farnesyltransferase/squalene synthase Compounds References
Trypanosoma cruzi squalene synthase, putative Compounds References
Leishmania major squalene synthase, putative Compounds References
Trypanosoma cruzi squalene synthase, putative Compounds References
Rattus norvegicus Squalene synthetase Compounds References
Homo sapiens farnesyl-diphosphate farnesyltransferase 1 Compounds References
Bos taurus Squalene synthetase Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Staphylococcus aureus Dehydrosqualene synthase 287 aa 21.5% 237 aa Compounds References
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

No literature references available for this target.

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User comments

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Gene identifier Tbg972.8.7370 (Trypanosoma brucei gambiense), farnesyltransferase, putative,squalene synthase, putative
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