Detailed view for Smp_149220

Basic information

TDR Targets ID: 288346
Schistosoma mansoni, G/t mismatch-specific thymine DNA glycosylase
Source Database / ID:  GeneDB

pI: 8.2379 | Length (AA): 869 | MW (Da): 92044 | Paralog Number: 0

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

PF03167   Uracil DNA glycosylase superfamily

Gene Ontology

Mouse over links to read term descriptions.
GO:0019104   DNA N-glycosylase activity  
GO:0006281   DNA repair  

Metabolic Pathways

Base excision repair (KEGG)

Structural information

Modbase 3D models:

There are 5 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
87 297 2d07 (A) 115 330 42.00 0.33 1 0.754508 -0.53
95 260 3uo7 (B) 123 302 45.00 0 1 0.699224 -0.87
96 265 1mug (A) 2 164 33.00 0 1 0.603827 -1.02
649 705 2n72 (A) 2 66 35.00 0.88 0.08 0.309293 -0.47
669 805 4r61 (A) 9 159 9.00 0 0 0.254852 -0.88

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_130139)

Species Accession Gene Product
Candida albicans CaO19.7442   weak similarity to C terminus of S. pombe thp1 (SPCC965.05c) mismatch-specific thymine DNA glycosylase
Drosophila melanogaster Dmel_CG1981   CG1981 gene product from transcript CG1981-RC
Escherichia coli b3068   G/U mismatch-specific DNA glycosylase
Homo sapiens ENSG00000139372   thymine-DNA glycosylase
Mus musculus 545124   predicted gene 5806
Mus musculus ENSMUSG00000034674   thymine DNA glycosylase
Schistosoma japonicum Sjp_0031850   ko:K01249 DNA glycosylase [EC3.2.2.-], putative
Schistosoma mansoni Smp_149220   G/t mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.007181.01   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.050023.00   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.007157.01   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.023237.00   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.063123.00   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.026849.00   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.012805.03   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.004089.02   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.001764.02   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.008457.00   G/T mismatch-specific thymine DNA glycosylase
Schmidtea mediterranea mk4.001764.01  

Essentiality

Smp_149220 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b3068 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0075 0.3252 0.3252
0.0186 1 1
0.0271 0.3643 0.3969
0.013 0.5342 0.5342
0.0075 0.5047 0.5047
0.0271 0.3643 0.3969
0.0123 1 1

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_149220 (Schistosoma mansoni), G/t mismatch-specific thymine DNA glycosylase
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