Detailed view for Smp_169690

Basic information

TDR Targets ID: 293942
Schistosoma mansoni, coatomer epsilon subunit
Source Database / ID:  GeneDB

pI: 4.763 | Length (AA): 298 | MW (Da): 33274 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | 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

PF04733   Coatomer epsilon subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0006890   retrograde vesicle-mediated transport, Golgi to ER  
GO:0030126   COPI vesicle coat  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0005198   structural molecule activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 3 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
5 295 3mkr (A) 17 307 40.00 0 1 1.53711 -0.7
200 268 1hh8 (A) 33 101 17.00 0.098 0.47 0.509144 -0.7
218 296 2pl2 (A) 122 202 15.00 0.00029 0.81 0.579701 -1.13

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_129348)

Species Accession Gene Product
Arabidopsis thaliana AT2G34840   coatomer subunit epsilon-2
Arabidopsis thaliana AT1G30630   coatomer subunit epsilon-1
Brugia malayi Bm1_28015   Coatomer epsilon subunit family protein
Caenorhabditis elegans CELE_F45G2.4   Protein F45G2.4
Dictyostelium discoideum DDB_G0267950   coatomer protein complex epsilon subunit
Drosophila melanogaster Dmel_CG9543   Coat Protein (coatomer) epsilon
Echinococcus granulosus EgrG_000981700   coatomer subunit epsilon
Echinococcus multilocularis EmuJ_000981700   coatomer subunit epsilon
Homo sapiens ENSG00000105669   coatomer protein complex, subunit epsilon
Leishmania braziliensis LbrM.32.1900   coatomer epsilon subunit, putative
Leishmania donovani LdBPK_321810.1   coatomer subunit epsilon
Leishmania infantum LinJ.32.1810   coatomer epsilon subunit, putative
Leishmania major LmjF.32.1730   coatomer epsilon subunit, putative
Leishmania mexicana LmxM.31.1730   coatomer epsilon subunit, putative
Loa Loa (eye worm) LOAG_02765   coatomer protein complex
Mus musculus 59042   coatomer protein complex, subunit epsilon
Neospora caninum NCLIV_018950   coatomer epsilon subunit, putative
Oryza sativa 4336967   Os04g0612600
Oryza sativa 4337189   Os04g0644700
Schistosoma japonicum Sjp_0032240   Coatomer subunit epsilon, putative
Schistosoma mansoni Smp_169690   coatomer epsilon subunit
Schmidtea mediterranea mk4.012276.01   Coatomer subunit epsilon
Trypanosoma brucei gambiense Tbg972.11.16710   coatomer epsilon subunit, putative
Trypanosoma brucei Tb927.11.14900   coatomer subunit epsilon
Trypanosoma congolense TcIL3000.11.15170   coatomer subunit epsilon
Trypanosoma cruzi TcCLB.504217.10   coatomer subunit epsilon
Trypanosoma cruzi TcCLB.506221.50   coatomer subunit epsilon
Toxoplasma gondii TGME49_244390   coatomer epsilon subunit protein
Trichomonas vaginalis TVAG_329300   coatomer epsilon subunit, putative
Trichomonas vaginalis TVAG_182190   conserved hypothetical protein

Essentiality

Smp_169690 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.6530 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.6530 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.6530 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.6530 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F45G2.4 Caenorhabditis elegans larval lethal wormbase
CELE_F45G2.4 Caenorhabditis elegans slow growth wormbase
TGME49_244390 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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
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

No literature references available for this target.

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

User comments

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Gene identifier Smp_169690 (Schistosoma mansoni), coatomer epsilon subunit
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