Detailed view for Smp_179010

Basic information

TDR Targets ID: 294015
Schistosoma mansoni, exonuclease
Source Database / ID:  GeneDB

pI: 5.0056 | Length (AA): 254 | MW (Da): 27876 | 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

PF01138   3' exoribonuclease family, domain 1
PF03725   3' exoribonuclease family, domain 2

Gene Ontology

Mouse over links to read term descriptions.
GO:0003723   RNA binding  
GO:0000175   3'-5'-exoribonuclease activity  
GO:0006396   RNA processing  

Metabolic Pathways

RNA degradation (KEGG)

Structural information

Modbase 3D models:

There are 4 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
1 251 2po1 (B) 25 274 25.00 0 1 1.39309 -0.73
1 254 5k36 (A) 25 291 22.00 0.00000000025 1 1.2719 -0.2
2 88 3hkm (C) 7 90 39.00 0.88 0.92 0.69142 0.05
2 251 3b4t (A) 5 243 20.00 0 1 1.21365 -0.21

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129701)

Species Accession Gene Product
Arabidopsis thaliana AT3G07750   3'-5'-exoribonuclease family protein
Babesia bovis BBOV_IV008760   conserved hypothetical protein
Brugia malayi Bm1_13250   3' exoribonuclease family, domain 1 containing protein
Caenorhabditis elegans CELE_F31D4.1   Protein EXOS-7
Cryptosporidium hominis Chro.80046   hypothetical protein
Cryptosporidium parvum cgd8_340   exoribonuclease PH, putative
Dictyostelium discoideum DDB_G0280251   hypothetical protein
Drosophila melanogaster Dmel_CG8395   CG8395 gene product from transcript CG8395-RA
Echinococcus granulosus EgrG_000775450   exosome complex exonuclease RRP42
Entamoeba histolytica EHI_188080   3 exoribonuclease family protein
Echinococcus multilocularis EmuJ_000775450   exosome complex exonuclease RRP42
Homo sapiens ENSG00000075914   exosome component 7
Loa Loa (eye worm) LOAG_02842   3' exoribonuclease
Mus musculus ENSMUSG00000025785   exosome component 7
Neospora caninum NCLIV_022160   exosome complex exonuclease, putative
Oryza sativa 4352037   Os12g0403800
Plasmodium berghei PBANKA_1353500   exosome complex component RRP42, putative
Plasmodium falciparum PF3D7_1340100   exosome complex component RRP42, putative
Plasmodium knowlesi PKNH_1261300   exosome complex component RRP42, putative
Plasmodium vivax PVX_082925   exosome complex component RRP42, putative
Plasmodium yoelii PY02553   3' exoribonuclease family, domain 1, putative
Schistosoma japonicum Sjp_0021850   ko:K01149 exosome component 7 [EC:3.1.13.-], putative
Schistosoma mansoni Smp_179010   exonuclease
Schmidtea mediterranea mk4.002713.08  
Schmidtea mediterranea mk4.002250.02  
Schmidtea mediterranea mk4.020584.02  
Toxoplasma gondii TGME49_202750   3' exoribonuclease family, domain 1 domain-containing protein
Theileria parva TP01_0898   hypothetical protein
Trichomonas vaginalis TVAG_027130   exosome complex exonuclease rrp42, putative

Essentiality

Smp_179010 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F31D4.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F31D4.1 Caenorhabditis elegans larval arrest wormbase
CELE_F31D4.1 Caenorhabditis elegans slow growth wormbase
PBANKA_1353500 Plasmodium berghei Essential plasmo
TGME49_202750 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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_179010 (Schistosoma mansoni), exonuclease
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