Detailed view for Smp_017890

Basic information

TDR Targets ID: 290462
Schistosoma mansoni, family C19 non-peptidase homologue (C19 family)
Source Database / ID:  GeneDB

pI: 7.1207 | Length (AA): 577 | MW (Da): 66471 | 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

PF00443   Ubiquitin carboxyl-terminal hydrolase
PF02148   Zn-finger in ubiquitin-hydrolases and other protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0036459   GO:thiol-dependent ubiquitinyl hydrolase activity  

GO:0016579   protein deubiquitination  
GO:0008270   zinc ion binding  
GO:0004221   ubiquitin thiolesterase activity  
GO:0006511   ubiquitin-dependent protein catabolic process  
GO:0006397   mRNA processing  
GO:0000245   spliceosome assembly  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 2 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
57 141 5g0f (A) 973 1058 22.00 0.0031 0.59 0.415414 -0.28
65 521 4msx (A) 31 444 38.00 0 1 1.02623 0.19

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_128768)

Species Accession Gene Product
Arabidopsis thaliana AT4G22350   ubiquitin C-terminal hydrolases superfamily protein
Arabidopsis thaliana AT4G22410   ubiquitin carboxyl-terminal hydrolase-like protein
Arabidopsis thaliana AT4G22285   ubiquitin carboxyl-terminal hydrolase-like protein
Babesia bovis BBOV_II005180   u4/u6.u5 tri-snRNP-associated 65 kDa protein, putative
Brugia malayi Bm1_04270   ubiquitin thiolesterase homolog
Candida albicans CaO19.7265   potential ubiquitin thiolesterase similar to S. pombe ubp10 (SPBC577.07) and to S. cerevisiae SAD1 (YFR005C) factor involved in
Caenorhabditis elegans CELE_F09D1.1   Protein USP-39
Cryptosporidium hominis Chro.50143   hypothetical protein
Cryptosporidium parvum cgd5_2350   SnRNP assembly defective 1 like ubiquitin C-terminal hydrolase with a UBP finger at the N-terminus
Dictyostelium discoideum DDB_G0278929   SAP DNA-binding domain-containing protein
Drosophila melanogaster Dmel_CG7288   CG7288 gene product from transcript CG7288-RA
Echinococcus granulosus EgrG_000627400   u4:u6.u5 tri snrnp associated protein 2
Entamoeba histolytica EHI_152110   ubiquitin carboxyl-terminal hydrolase domain containing protein
Echinococcus multilocularis EmuJ_000627400   u4:u6.u5 tri snrnp associated protein 2
Homo sapiens ENSG00000168883   ubiquitin specific peptidase 39
Loa Loa (eye worm) LOAG_04171   ubiquitin specific peptidase 39
Mus musculus ENSMUSG00000056305   ubiquitin specific peptidase 39
Neospora caninum NCLIV_001380   Ubiquitin carboxyl-terminal hydrolase (EC 3.1.2.15), related
Oryza sativa 4347019   Os09g0407900
Plasmodium berghei PBANKA_1415500   U4/U6.U5 tri-snRNP-associated protein 2, putative
Plasmodium falciparum PF3D7_1317000   U4/U6.U5 tri-snRNP-associated protein 2, putative
Plasmodium knowlesi PKNH_1417700   U4/U6.U5 tri-snRNP-associated protein 2, putative
Plasmodium vivax PVX_122670   U4/U6.U5 tri-snRNP-associated protein 2, putative
Plasmodium yoelii PY03410   Arabidopsis thaliana At4g22410/F7K2_7-related
Saccharomyces cerevisiae YFR005C   Sad1p
Schistosoma japonicum Sjp_0083630   ko:K01072 ubiquitin thiolesterase [EC3.1.2.15], putative
Schistosoma japonicum Sjp_0131530   U4/U6.U5 tri-snRNP-associated protein 2, putative
Schistosoma mansoni Smp_017890   family C19 non-peptidase homologue (C19 family)
Schmidtea mediterranea mk4.001482.02   U4/U6.U5 tri-snRNP-associated protein 2
Toxoplasma gondii TGME49_294360   ubiquitin specific protease 39 isoform 2, putative
Theileria parva TP02_0821   ubiquitin carboxyl-terminal hydrolase, putative
Trichomonas vaginalis TVAG_365420   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase

Essentiality

Smp_017890 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F09D1.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F09D1.1 Caenorhabditis elegans larval arrest wormbase
CELE_F09D1.1 Caenorhabditis elegans sterile wormbase
YFR005C Saccharomyces cerevisiae inviable yeastgenome
TGME49_294360 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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
0.0004 0.5 0.5
0.0003 0.5 0.5
0.0004 0.5 0.5
0.0004 0.5 0.5

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_017890 (Schistosoma mansoni), family C19 non-peptidase homologue (C19 family)
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