Detailed view for LdBPK_321310.1

Basic information

TDR Targets ID: 822379
Leishmania donovani, ubiquitin hydrolase, putative

Source Database / ID: 

pI: 9.0785 | Length (AA): 538 | MW (Da): 58767 | Paralog Number: 0

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

Pfam domains

PF00443   Ubiquitin carboxyl-terminal hydrolase

Gene Ontology

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

GO:0016579   protein deubiquitination  
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 5 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
119 241 2gfo (A) 774 883 25.00 0 0.19 0.394625 -0.33
121 538 3nhe (A) 266 600 21.00 0 1 0.653952 0.77
123 473 2hd5 (A) 215 468 29.00 0.15 1 0.469016 1.27
276 335 5ma4 (A) 168 231 35.00 0.18 0.06 0.358124 0.43
330 473 5gvi (A) 220 446 31.00 0.000039 0.7 0.382258 0.89

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_129274)

Species Accession Gene Product
Arabidopsis thaliana AT4G30890   ubiquitin carboxyl-terminal hydrolase 24
Candida albicans CaO19.8767   similar to pre-alpha-/beta-gliadin A-III
Candida albicans CaO19.1176   similar to pre-alpha-/beta-gliadin A-III
Candida albicans CaO19.6319   ubiquitin-specific protease
Dictyostelium discoideum DDB_G0275021   deubiquinating enzyme
Drosophila melanogaster Dmel_CG32479   CG32479 gene product from transcript CG32479-RA
Echinococcus granulosus EgrG_000175500   ubiquitin specific peptidase c family
Entamoeba histolytica EHI_131090   ubiquitin carboxyl-terminal hydrolase domain containing protein
Echinococcus multilocularis EmuJ_000175500   ubiquitin specific peptidase (c family) ubiquitin terminal hydrolase
Homo sapiens ENSG00000103194   ubiquitin specific peptidase 10
Leishmania braziliensis LbrM.32.1400   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania donovani LdBPK_321310.1   ubiquitin hydrolase, putative
Leishmania infantum LinJ.32.1310   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania major LmjF.32.1250   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania mexicana LmxM.31.1250   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Mus musculus ENSMUSG00000031826   ubiquitin specific peptidase 10
Oryza sativa 4344181   Os07g0661300
Saccharomyces cerevisiae YER151C   Ubp3p
Schistosoma japonicum Sjp_0037330   ko:K01072 ubiquitin thiolesterase [EC3.1.2.15], putative
Schistosoma mansoni Smp_005280   ubiquitin-specific peptidase 10 (C19 family)
Schmidtea mediterranea mk4.000560.04   Ubiquitin carboxyl-terminal hydrolase 10
Trypanosoma brucei gambiense Tbg972.11.16220   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma brucei Tb927.11.14480   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma cruzi TcCLB.506871.50   ubiquitin hydrolase, putative
Trypanosoma cruzi TcCLB.507507.40   ubiquitin hydrolase, putative
Trichomonas vaginalis TVAG_172970   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase
Trichomonas vaginalis TVAG_259940   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase

Essentiality

LdBPK_321310.1 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.6080 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.6080 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.6080 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.6080 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

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 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

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 10 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

No literature references available for this target.

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User comments

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Gene identifier LdBPK_321310.1 (Leishmania donovani), ubiquitin hydrolase, putative
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