Detailed view for Smp_171170

Basic information

TDR Targets ID: 291512
Schistosoma mansoni, DEAD box ATP-dependent RNA helicase
Source Database / ID:  GeneDB

pI: 5.6415 | Length (AA): 1574 | MW (Da): 174216 | 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

PF00270   DEAD/DEAH box helicase
PF00271   Helicase conserved C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0035098   ESC/E(Z) complex  
GO:0016571   histone methylation  
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0004386   helicase activity  
GO:0003676   nucleic acid binding  

Metabolic Pathways

RNA transport (KEGG)

Structural information

Modbase 3D models:

There are 13 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
91 274 1h6u (A) 86 250 25.00 0.000023 1 0.2625 0.12
165 243 3oja (A) 31 111 24.00 0 0.31 0.353891 -0.84
191 225 1wwl (A) 277 311 46.00 0 0.64 0.490936 0.29
715 994 5u69 (A) 112 400 21.00 0 1 0.293491 0.12
751 823 6f9n (B) 290 363 33.00 0.36 0.17 0.158379 0.96
758 873 6f3t (A) 636 739 22.00 0.000011 0.93 0.269298 -0.25
762 1117 6g6m (A) 22 315 19.00 0.000017 0.92 0.199775 0.76
1115 1545 4d25 (A) 140 559 27.00 0 1 0.570425 -0.39
1123 1571 4ljy (A) 212 673 23.00 0 1 0.51786 -0.25
1154 1553 3eiq (A) 24 400 38.00 0 1 0.65373 -0.42
1164 1379 2oxc (A) 64 266 55.00 0 1 0.88723 -1.69
1408 1552 2hjv (A) 225 367 32.00 0 1 0.594822 -1.23
1409 1556 5gi4 (A) 231 376 30.00 0 1 0.576628 -1.05

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_132244)

Species Accession Gene Product
Brugia malayi Bm1_37275   DEAD/DEAH box helicase family protein
Caenorhabditis elegans CELE_T06A10.1   Protein MEL-46, isoform B
Dictyostelium discoideum DDB_G0277527   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG6539   Gemin3
Echinococcus granulosus EgrG_000789600   DEAD box ATP dependent RNA helicase
Echinococcus granulosus EgrG_000789550   ATP dependent RNA helicase DDX20
Echinococcus multilocularis EmuJ_000789550   ATP dependent RNA helicase DDX20
Echinococcus multilocularis EmuJ_000789600   DEAD box ATP dependent RNA helicase
Homo sapiens ENSG00000064703   DEAD (Asp-Glu-Ala-Asp) box polypeptide 20
Loa Loa (eye worm) LOAG_10054   DEAD/DEAH box helicase
Loa Loa (eye worm) LOAG_15446   hypothetical protein
Mus musculus ENSMUSG00000027905   DEAD (Asp-Glu-Ala-Asp) box polypeptide 20
Schistosoma japonicum Sjp_0211570   IPR001680,WD-40 repeat;IPR011046,WD40-like,domain-containing
Schistosoma japonicum Sjp_0116360   Leucine-rich repeat and WD repeat-containing protein 1, putative
Schistosoma mansoni Smp_171170   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.001353.07  
Schmidtea mediterranea mk4.000330.00   Probable ATP-dependent RNA helicase DDX20
Schmidtea mediterranea mk4.001353.06   Putative dead box ATP-dependent RNA helicase

Essentiality

Smp_171170 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_T06A10.1 Caenorhabditis elegans slow growth wormbase
Show/Hide essentiality data references
  • 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
  • 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
  • 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.
  • 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

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_171170 (Schistosoma mansoni), DEAD box ATP-dependent RNA helicase
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