Detailed view for Tb927.5.2700

Basic information

TDR Targets ID: 19676
Trypanosoma brucei, otubain cysteine peptidase, Clan CA, family C65, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.5684 | Length (AA): 268 | MW (Da): 30443 | Paralog Number: 0

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

Druggability Group : DG4

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

PF10275   Peptidase C65 Otubain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016579   protein deubiquitination  
GO:0016787   hydrolase activity  

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
6 268 4ddg (A) 150 1271 29.00 0 1 1.34644 -0.46
7 268 4ldt (A) 21 273 30.00 0 1 1.37171 -0.65
10 268 4ddg (A) 1028 1271 33.00 0 1 1.30582 -0.37
66 267 3von (A) 78 270 33.00 0 1 1.11083 -0.79

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

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_128982)

Species Accession Gene Product
Arabidopsis thaliana AT1G28120   ubiquitin thioesterase otubain-like protein
Caenorhabditis elegans CELE_C25D7.8   Protein OTUB-1
Drosophila melanogaster Dmel_CG4968   CG4968 gene product from transcript CG4968-RA
Echinococcus granulosus EgrG_000540000   Ubiquitin thioesterase otubain protein
Echinococcus multilocularis EmuJ_000540000   Ubiquitin thioesterase otubain protein
Homo sapiens ENSG00000167770   OTU deubiquitinase, ubiquitin aldehyde binding 1
Homo sapiens ENSG00000089723   OTU deubiquitinase, ubiquitin aldehyde binding 2
Leishmania braziliensis LbrM.17.1540   otubain, putative,otubain cysteine peptidase, Clan CA, family C65, putative
Leishmania donovani LdBPK_171520.1   otubain cysteine peptidase, Clan CA, family C65, putative
Leishmania infantum LinJ.17.1520   otubain, putative,otubain cysteine peptidase, Clan CA, family C65, putative
Leishmania major LmjF.17.1400   otubain, putative,otubain cysteine peptidase, Clan CA, family C65, putative
Leishmania mexicana LmxM.17.1400   otubain, putative,otubain cysteine peptidase, Clan CA, family C65, putative
Loa Loa (eye worm) LOAG_04168   hypothetical protein
Mus musculus ENSMUSG00000024767   OTU domain, ubiquitin aldehyde binding 1
Mus musculus ENSMUSG00000021203   OTU domain, ubiquitin aldehyde binding 2
Neospora caninum NCLIV_026530   ubiquitin thiolesterase protein, putative
Oryza sativa 4346169   Os08g0537800
Schistosoma japonicum Sjp_0303940   ko:K09602 ubiquitin thioesterase protein OTUB1, putative
Schistosoma mansoni Smp_097810.2   otubain-1 (C65 family)
Schmidtea mediterranea mk4.008804.00  
Schmidtea mediterranea mk4.020692.00   Ubiquitin thioesterase otubain-like
Trypanosoma brucei gambiense Tbg972.5.3790   otubain, putative,otubain cysteine peptidase, Clan CA, family C65, putative
Trypanosoma brucei Tb927.5.2700   otubain cysteine peptidase, Clan CA, family C65, putative
Trypanosoma congolense TcIL3000_5_2790   otubain cysteine peptidase, Clan CA, family C65, putative
Trypanosoma cruzi TcCLB.507047.110   otubain cysteine peptidase, Clan CA, family C65, putative
Trypanosoma cruzi TcCLB.509179.150   otubain cysteine peptidase, Clan CA, family C65, putative
Toxoplasma gondii TGME49_260510   ubiquitin thioesterase otubain-like family protein

Essentiality

Tb927.5.2700 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.2700 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.5.2700 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.2700 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.5.2700 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_260510 Toxoplasma gondii Probably non-essential sidik
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.
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 3 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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
Species Known druggable target Linked compounds Reference
Leishmania major otubain, putative,otubain cysteine peptidase, Clan CA, family C65, putative Compounds References
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

  • Tbru015642AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tbru015642; Recombinant protein: full-length; Source: T brucei; otubain cysteine peptidase, Clan CA, family C65, putative ;

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier Tb927.5.2700 (Trypanosoma brucei), otubain cysteine peptidase, Clan CA, family C65, putative
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