Detailed view for Tb927.9.14470

Basic information

TDR Targets ID: 13774
Trypanosoma brucei, ubiquitin carboxyl-terminal hydrolase, putative

Source Database / ID:  TriTrypDB  GeneDB

pI: 6.9289 | Length (AA): 1161 | MW (Da): 132384 | Paralog Number: 0

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

Pfam domains

PF00443   Ubiquitin carboxyl-terminal hydrolase
PF12436   ICP0-binding domain of Ubiquitin-specific protease 7
PF14533   Ubiquitin-specific protease C-terminal

Gene Ontology

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

GO:0016579   protein deubiquitination  
GO:0004221   ubiquitin thiolesterase activity  
GO:0004197   cysteine-type endopeptidase activity  
GO:0006511   ubiquitin-dependent protein catabolic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
1 506 2f1z (B) 85 553 27.00 0.00000018 1 0.599531 0.88
120 501 2f1z (A) 181 548 42.00 0 1 0.708227 -0.16
139 507 4m5x (A) 209 554 38.00 0 1 0.719129 -0.5
143 886 5j7t (A) 213 881 26.00 0 1 0.803527 0.69
513 1145 5c56 (A) 560 1083 21.00 0 1 0.47892 1.38
1043 1092 1xub (A) 1 49 33.00 0.3 0.75 0.386266 0.35

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 60-80% 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_127773)

Species Accession Gene Product
Arabidopsis thaliana AT3G11910   ubiquitin carboxyl-terminal hydrolase 13
Arabidopsis thaliana AT5G06600   ubiquitin carboxyl-terminal hydrolase 12
Babesia bovis BBOV_IV001730   ubiquitin carboxyl-terminal hydrolase, putative
Brugia malayi Bm1_38125   Ubiquitin carboxyl-terminal hydrolase family protein
Candida albicans CaO19.1777   putative ubiquitin-specific protease
Candida albicans CaO19.9344   putative ubiquitin-specific protease
Caenorhabditis elegans CELE_H19N07.2   Protein MATH-33, isoform C
Cryptosporidium hominis Chro.80181   ubiquitin carboxyl-terminal hydrolase
Cryptosporidium parvum cgd8_1530   ubiquitin carboxyl terminal hydrolase domain that is fused to a MATH domain
Dictyostelium discoideum DDB_G0276443   peptidase C19 family protein
Drosophila melanogaster Dmel_CG1490   Ubiquitin-specific protease 7
Echinococcus granulosus EgrG_001005800   ubiquitin carboxyl terminal hydrolase 7
Echinococcus granulosus EgrG_000875300   ubiquitin carboxyl terminal hydrolase 7
Echinococcus multilocularis EmuJ_001005800   ubiquitin carboxyl terminal hydrolase 7
Echinococcus multilocularis EmuJ_000875300   ubiquitin carboxyl terminal hydrolase 7
Homo sapiens ENSG00000187555   ubiquitin specific peptidase 7 (herpes virus-associated)
Leishmania braziliensis LbrM.34.1640   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania donovani LdBPK_351730.1   ubiquitin hydrolase, putative
Leishmania infantum LinJ.35.1730   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania major LmjF.35.1740   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania mexicana LmxM.34.1740   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Loa Loa (eye worm) LOAG_11307   hypothetical protein
Loa Loa (eye worm) LOAG_03615   ubiquitin carboxyl-terminal hydrolase
Mus musculus ENSMUSG00000022710   ubiquitin specific peptidase 7
Neospora caninum NCLIV_041690   Ubiquitin carboxyl-terminal hydrolase (EC 3.1.2.15), related
Oryza sativa 4324616   Os01g0771400
Oryza sativa 4352242   Os12g0489100
Oryza sativa 4342469   Os07g0163800
Oryza sativa 9270404   Os11g0573000
Plasmodium berghei PBANKA_0210600   ubiquitin carboxyl-terminal hydrolase, putative
Plasmodium falciparum PF3D7_0726500   ubiquitin carboxyl-terminal hydrolase, putative
Plasmodium knowlesi PKNH_0211100   ubiquitin carboxyl-terminal hydrolase, putative
Plasmodium vivax PVX_081630   ubiquitin carboxyl-terminal hydrolase family 2, putative
Plasmodium yoelii PY01440   Ubiquitin carboxyl-terminal hydrolase family 2, putative
Saccharomyces cerevisiae YMR304W   Ubp15p
Schistosoma japonicum Sjp_0030710   ko:K01072 ubiquitin thiolesterase [EC3.1.2.15], putative
Schistosoma japonicum Sjp_0311690   Ubiquitin carboxyl-terminal hydrolase 7, putative
Schistosoma mansoni Smp_089180   ubiquitin-specific peptidase 7 (C19 family)
Schmidtea mediterranea mk4.005337.00   Ubiquitin carboxyl-terminal hydrolase 7
Schmidtea mediterranea mk4.053550.00   Ubiquitin carboxyl-terminal hydrolase 7
Schmidtea mediterranea mk4.001874.04   Ubiquitin carboxyl-terminal hydrolase 7
Schmidtea mediterranea mk4.001402.00  
Schmidtea mediterranea mk4.008594.01   Ubiquitin carboxyl-terminal hydrolase 7
Schmidtea mediterranea mk4.000689.05   Ubiquitin carboxyl-terminal hydrolase 7
Schmidtea mediterranea mk4.000521.11  
Schmidtea mediterranea mk4.005489.05  
Schmidtea mediterranea mk4.005489.04   Ubiquitin carboxyl-terminal hydrolase 7
Trypanosoma brucei gambiense Tbg972.9.9090   ubiquitin carboxyl-terminal hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Trypanosoma brucei Tb927.9.14470 this record   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma congolense TcIL3000_0_31970   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma cruzi TcCLB.510761.70   ubiquitin hydrolase, putative
Toxoplasma gondii TGME49_289330   ubiquitin carboxyl-terminal hydrolase family 2 protein
Theileria parva TP03_0493   hypothetical protein
Theileria parva TP03_0494   ubiquitin carboxyl-terminal hydrolase, putative
Trichomonas vaginalis TVAG_464680   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_043710   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_475320   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_014330   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_422470   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_378280   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase

Essentiality

Tb927.9.14470 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.4910 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.4910 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.4910 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.4910 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_H19N07.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_H19N07.2 Caenorhabditis elegans larval lethal wormbase
CELE_H19N07.2 Caenorhabditis elegans slow growth wormbase
PBANKA_0210600 Plasmodium berghei Essential plasmo
TGME49_289330 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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 6 days). References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) 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 procyclic forms . 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 log in using your TDR Targets username and password and send them to us using the corresponding form in this page (only visible to registered users) or contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Druggability index (range: 0 to 1): 0.2


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 ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative Compounds References
Homo sapiens ubiquitin specific peptidase 7 (herpes virus-associated) 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

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

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User comments

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Gene identifier Tb927.9.14470 (Trypanosoma brucei), ubiquitin carboxyl-terminal hydrolase, putative
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