Detailed view for Smp_150780.2

Basic information

TDR Targets ID: 289423
Schistosoma mansoni, queuine tRNA-ribosyltransferase
Source Database / ID:  GeneDB

pI: 7.139 | Length (AA): 1157 | MW (Da): 130463 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF00096   Zinc finger, C2H2 type
PF01702   Queuine tRNA-ribosyltransferase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016763   transferase activity, transferring pentosyl groups  
GO:0005622   intracellular  
GO:0003676   nucleic acid binding  
GO:0008479   queuine tRNA-ribosyltransferase activity  
GO:0008270   zinc ion binding  
GO:0008616   queuosine biosynthetic process  
GO:0006400   tRNA modification  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
492 530 2ep1 (A) 2 40 36.00 0.0000000045 0.64 0.530508 -0.82
499 529 1va1 (A) 533 565 52.00 0.004 0.54 0.580593 -0.49
505 688 5und (A) 353 497 29.00 0.000000022 1 0.136732 1.42
526 558 2emh (A) 8 40 52.00 0.0026 0.97 0.667222 -0.32
978 1153 6h45 (A) 18 189 65.00 0 1 0.873918 -0.01
981 1145 2ash (A) 3 164 49.00 0 1 0.74731 -0.75

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_139987)

Species Accession Gene Product
Schistosoma japonicum Sjp_0067810   Zinc finger protein 341, putative
Schistosoma japonicum Sjp_0067820   ko:K00773 queuine tRNA-ribosyltransferase [EC2.4.2.29], putative
Schistosoma mansoni Smp_150780.1   queuine tRNA-ribosyltransferase
Schistosoma mansoni Smp_150780.2   queuine tRNA-ribosyltransferase
Schmidtea mediterranea mk4.009220.00  
Trypanosoma brucei gambiense Tbg972.9.1240   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.2780   hypothetical protein, conserved
Trypanosoma congolense TcIL3000_9_820   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506145.24   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508347.24   hypothetical protein, conserved

Essentiality

Smp_150780.2 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.1470 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.160.1470 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.160.1470 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.160.1470 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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_150780.2 (Schistosoma mansoni), queuine tRNA-ribosyltransferase
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