Detailed view for Smp_171160

Basic information

TDR Targets ID: 288676
Schistosoma mansoni, sin3b
Source Database / ID:  GeneDB

pI: 6.9162 | Length (AA): 1396 | MW (Da): 158607 | 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

PF02671   Paired amphipathic helix repeat
PF08295   Sin3 family co-repressor
PF16879   C-terminal domain of Sin3a protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0006355   regulation of transcription, DNA-dependent  
GO:0005634   nucleus  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
3 73 2rmr (A) 119 189 65.00 0 1 0.95596 -1.8
4 80 2czy (A) 31 107 57.00 0.000000000021 1 0.864258 -1.64
215 303 2l9s (B) 292 384 54.00 0.000000033 1 0.770854 -1.32
221 302 1e91 (A) 1 83 51.00 0.000000062 1 0.800839 -1.67

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_127846)

Species Accession Gene Product
Arabidopsis thaliana AT3G01320   paired amphipathic helix protein Sin3-like 1
Arabidopsis thaliana AT1G10450   paired amphipathic helix protein Sin3-like 6
Arabidopsis thaliana AT1G59890   paired amphipathic helix protein Sin3-like 5
Arabidopsis thaliana AT1G24190   paired amphipathic helix protein Sin3-like 3
Arabidopsis thaliana AT1G70060   paired amphipathic helix protein Sin3-like 4
Arabidopsis thaliana AT5G15020   paired amphipathic helix protein Sin3-like 2
Brugia malayi Bm1_49995   Paired amphipathic helix repeat family protein
Candida albicans CaO19.13432   similar to C terminus of S. cerevisiae SIN3 (YOL004W) histone deacetylase complex DNA binding protein component
Candida albicans CaO19.6011   similar to C terminus of S. cerevisiae SIN3 (YOL004W) histone deacetylase complex DNA binding protein component
Caenorhabditis elegans CELE_F02E9.4   Protein SIN-3, isoform B
Cryptosporidium hominis Chro.50148   transcriptional regulatory-like protein
Cryptosporidium parvum cgd5_2310   Sin3 like paired amphipathic helix containing protein
Dictyostelium discoideum DDB_G0281045   paired amphipathic helix containing protein
Drosophila melanogaster Dmel_CG8815   CG8815 gene product from transcript CG8815-RC
Echinococcus granulosus EgrG_000795100   paired amphipathic helix protein sin3b
Echinococcus multilocularis EmuJ_000795100   paired amphipathic helix protein sin3b
Homo sapiens ENSG00000127511   SIN3 transcription regulator family member B
Homo sapiens ENSG00000169375   SIN3 transcription regulator family member A
Loa Loa (eye worm) LOAG_02581   hypothetical protein
Mus musculus ENSMUSG00000031622   transcriptional regulator, SIN3B (yeast)
Mus musculus ENSMUSG00000042557   transcriptional regulator, SIN3A (yeast)
Oryza sativa 9271261   Os05g0100401
Oryza sativa 4326133   Os01g0109700
Saccharomyces cerevisiae YOL004W   Sin3p
Schistosoma japonicum Sjp_0063100   Paired amphipathic helix protein Sin3a, putative
Schistosoma mansoni Smp_171160   sin3b
Schmidtea mediterranea mk4.002934.02  
Schmidtea mediterranea mk4.001109.08  
Schmidtea mediterranea mk4.002934.01  
Schmidtea mediterranea mk4.014287.00  
Schmidtea mediterranea mk4.014287.01  

Essentiality

Smp_171160 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F02E9.4 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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
  • 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.

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_171160 (Schistosoma mansoni), sin3b
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