Detailed view for Smp_169750

Basic information

TDR Targets ID: 294479
Schistosoma mansoni, dicer-1
Source Database / ID:  GeneDB

pI: 7.4179 | Length (AA): 2174 | MW (Da): 248050 | 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

PF00636   Ribonuclease III domain
PF02170   PAZ domain
PF03368   Dicer dimerisation domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016891   endoribonuclease activity, producing 5'-phosphomonoesters  
GO:0005622   intracellular  
GO:0005515   protein binding  
GO:0004525   ribonuclease III activity  
GO:0003725   double-stranded RNA binding  
GO:0003723   RNA binding  
GO:0006396   RNA processing  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 9 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
164 1809 5amr (A) 53 1719 12.00 0 0.87 0.67843 1.01
566 722 2p6n (A) 410 561 13.00 0 0.06 0.214017 -0.75
1013 1417 4ngd (A) 756 1053 43.00 0 1 0.163093 0.94
1017 1417 4nha (A) 760 1053 46.00 0 1 -0.146747 1.62
1653 2104 5b16 (A) 966 1276 33.00 0.00000000019 1 -0.0105883 1.12
1887 2153 3c4b (A) 1646 1897 61.00 0 1 0.761315 -0.75
1892 2065 3o2r (A) 5 128 46.00 0.0000000000069 1 0.253537 -0.2
1944 2080 1u61 (A) 9 125 25.00 0 0.98 0.246317 -0.8
2103 2151 2l3c (A) 21 68 25.00 0.76 0.32 0.214339 0.51

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_128554)

Species Accession Gene Product
Arabidopsis thaliana AT3G43920   endoribonuclease Dicer-like 3
Arabidopsis thaliana AT3G03300   endoribonuclease Dicer-like 2
Arabidopsis thaliana AT1G01040   endoribonuclease Dicer-like 1
Arabidopsis thaliana AT5G20320   dicer-like protein 4
Brugia malayi Bm1_45410   Type III restriction enzyme, res subunit family protein
Caenorhabditis elegans CELE_K12H4.8   Protein DCR-1
Drosophila melanogaster Dmel_CG6493   Dicer-2
Drosophila melanogaster Dmel_CG4792   Dicer-1
Echinococcus granulosus EgrG_002007300   3'partial|endoribonuclease Dicer
Echinococcus granulosus EgrG_000085200   dicer 1
Echinococcus multilocularis EmuJ_000085200   dicer 1
Homo sapiens ENSG00000100697   dicer 1, ribonuclease type III
Loa Loa (eye worm) LOAG_02227   hypothetical protein
Mus musculus ENSMUSG00000041415   dicer 1, ribonuclease type III
Oryza sativa 4336362   Os04g0509300
Oryza sativa 4331440   Os03g0121800
Oryza sativa 4333337   Os03g0583900
Oryza sativa 4324864   Os01g0909200
Oryza sativa 4348944   Os10g0485600
Schistosoma japonicum Sjp_0069770   ko:K01165 Dicer-1 [EC:3.1.26.-], putative
Schistosoma japonicum Sjp_0313110   ko:K01165 Dicer1, Dcr-1 homolog [EC:3.1.26.-], putative
Schistosoma mansoni Smp_169750   dicer-1
Schmidtea mediterranea mk4.004816.00  
Schmidtea mediterranea mk4.001736.02  
Schmidtea mediterranea mk4.001736.03  
Schmidtea mediterranea mk4.001736.00   Endoribonuclease dcr-1
Schmidtea mediterranea mk4.001736.01   Endoribonuclease dcr-1

Essentiality

Smp_169750 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_K12H4.8 Caenorhabditis elegans larval lethal wormbase
CELE_K12H4.8 Caenorhabditis elegans slow growth wormbase
CELE_K12H4.8 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • 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
  • 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
  • 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.
  • 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)

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_169750 (Schistosoma mansoni), dicer-1
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