Detailed view for Smp_045950.3

Basic information

TDR Targets ID: 295864
Schistosoma mansoni, transformer-2-related
Source Database / ID:  GeneDB

pI: 11.1861 | Length (AA): 175 | MW (Da): 20052 | Paralog Number: 3

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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Gene Ontology

Mouse over links to read term descriptions.
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
2 151 4lmz (A) 14 175 21.00 0.0000013 1 1.09524 -0.34
58 158 2rra (A) 104 201 63.00 0 1 1.38984 -1.28
72 151 5tbx (A) 4 83 46.00 0 1 1.15384 -1.51

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_127745)

Species Accession Gene Product
Arabidopsis thaliana AT1G07350   serine/arginine rich-like protein SR45a
Brugia malayi Bm1_44470   transformer-2a3
Caenorhabditis elegans CELE_C18D11.4   Protein RSP-8, isoform B
Cryptosporidium hominis Chro.50251   hypothetical protein
Cryptosporidium parvum cgd5_1330   SPAC25G10.01-like RRM domain containing protein
Dictyostelium discoideum DDB_G0292698   RNA recognition motif-containing protein RRM
Dictyostelium discoideum DDB_G0278349   RNA recognition motif-containing protein RRM
Drosophila melanogaster Dmel_CG10128   transformer 2
Echinococcus granulosus EgrG_000925900   transformer 2 protein beta
Echinococcus granulosus EgrG_000709100   transformer 2 protein
Entamoeba histolytica EHI_183240   RNA recognition motif domain containing protein
Echinococcus multilocularis EmuJ_000925900   transformer 2 protein beta
Echinococcus multilocularis EmuJ_000709100   transformer 2 protein
Homo sapiens 6434   transformer 2 beta homolog (Drosophila)
Homo sapiens ENSG00000164548   transformer 2 alpha homolog (Drosophila)
Loa Loa (eye worm) LOAG_01228   RNA recognition domain-containing protein domain-containing protein
Loa Loa (eye worm) LOAG_06479   transformer-2b6
Mus musculus ENSMUSG00000029817   transformer 2 alpha homolog (Drosophila)
Mus musculus 20462   transformer 2 beta homolog (Drosophila)
Neospora caninum NCLIV_028940   Transformer-2-like protein, related
Oryza sativa 4345455   Os08g0385900
Plasmodium berghei PBANKA_1200800   RNA-binding protein, putative
Plasmodium falciparum PF3D7_1002400   RNA-binding protein, putative
Plasmodium knowlesi PKNH_0801200   RNA-binding protein, putative
Plasmodium vivax PVX_094315   RNA-binding protein, putative
Plasmodium yoelii PY03461   hypothetical protein
Schistosoma japonicum Sjp_0203200   Splicing factor, arginine/serine-rich 10, putative
Schistosoma japonicum Sjp_0205950   Splicing factor, arginine/serine-rich 10, putative
Schistosoma mansoni Smp_050920   transformer-2-related
Schistosoma mansoni Smp_045950.2   transformer-2-related
Schistosoma mansoni Smp_045950.1   transformer-2-related
Schistosoma mansoni Smp_045950.3   transformer-2-related
Schmidtea mediterranea mk4.009261.00   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.003606.04   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.004310.02   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.003856.01  
Schmidtea mediterranea mk4.007539.01   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.007539.05   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.000267.13   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.005950.02   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.004251.00   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.005164.00   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.004074.00  
Schmidtea mediterranea mk4.000529.00   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.000556.02   Transformer-2 sex-determining protein
Schmidtea mediterranea mk4.008444.00   Transformer-2 sex-determining protein
Trichomonas vaginalis TVAG_314000   RNA-binding protein, putative
Trichomonas vaginalis TVAG_021720   polyadenylate-binding protein, putative
Trichomonas vaginalis TVAG_475440   RNA recognition motif (rrm) domain containing protein, putative
Trichomonas vaginalis TVAG_312100   FUS-interacting serine-arginine-rich protein, putative
Trichomonas vaginalis TVAG_211580   RNA binding motif protein, putative
Trichomonas vaginalis TVAG_430980   nucleolar phosphoprotein, putative

Essentiality

Smp_045950.3 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C18D11.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_C18D11.4 Caenorhabditis elegans larval arrest wormbase
CELE_C18D11.4 Caenorhabditis elegans larval lethal wormbase
CELE_C18D11.4 Caenorhabditis elegans slow growth wormbase
CELE_C18D11.4 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.

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User comments

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Gene identifier Smp_045950.3 (Schistosoma mansoni), transformer-2-related
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