Detailed view for Tb927.9.9410

Basic information

TDR Targets ID: 18995
Trypanosoma brucei, inositol phosphorylceramide synthase
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.4086 | Length (AA): 337 | MW (Da): 37965 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 5

Druggability Group : DG4

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

PF14360   PAP2 superfamily C-terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0047493   ceramide cholinephosphotransferase activity  
GO:0006686   sphingomyelin biosynthetic process  
GO:0016020   membrane  

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
211 244 3tx3 (A) 36 88 38.00 0.095 0.07 0.14689 2.21

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
Mid 40-60% 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_134360)

Species Accession Gene Product
Homo sapiens ENSG00000164023   sphingomyelin synthase 2
Mus musculus ENSMUSG00000050931   sphingomyelin synthase 2
Trypanosoma brucei gambiense Tbg972.9.5360   phosphatidylcholine:ceramide cholinephosphotransferase 2, putative
Trypanosoma brucei gambiense Tbg972.9.5370   phosphatidylcholine:ceramide cholinephosphotransferase 2, putative
Trypanosoma brucei gambiense Tbg972.9.5320   phosphatidylcholine:ceramide cholinephosphotransferase 2, putative
Trypanosoma brucei Tb927.9.9410   inositol phosphorylceramide synthase
Theileria parva TP04_0631   hypothetical protein
Trichomonas vaginalis TVAG_123040   sphingomyelin synthetase, putative
Trichomonas vaginalis TVAG_032140   sphingomyelin synthetase, putative

Essentiality

Tb927.9.9410 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.1030 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.1030 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.1030 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb09.211.1030 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
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.
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 procyclic forms . 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
Species Known druggable target Linked compounds Reference
Homo sapiens sphingomyelin synthase 2 Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Trypanosoma cruzi sphingomyelin/ceramide phosphorylethanolamine synthase, bifunctional 335 aa 48.6% 317 aa Compounds References
Trypanosoma cruzi sphingomyelin/ceramide phosphorylethanolamine synthase, bifunctional 335 aa 47.6% 317 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0791 1 1
0.1018 0.757 1
0.1058 1 1
0.0289 0.2523 0.5
0.1018 0.757 1
0.0289 1 0.5
0.1018 0.757 1
0.0277 0.7706 0.5
0.072 0.8002 1
0.1018 0.757 1
0.1018 0.757 1
0.0799 0.905 1
0.1019 1 1
0.1018 0.757 1
0.0793 1 1
0.1018 0.757 1
0.1018 0.757 1
0.0238 0.2921 1
0.1019 1 1
0.072 0.8002 1
0.1046 1 1

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.

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

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Gene identifier Tb927.9.9410 (Trypanosoma brucei), inositol phosphorylceramide synthase
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