Detailed view for LdBPK_210460.1

Basic information

TDR Targets ID: 822896
Leishmania donovani, Peptidase C19, ubiquitin carboxyl-terminal hydrolase, putative

Source Database / ID: 

pI: 8.0438 | Length (AA): 721 | MW (Da): 78345 | 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 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
5 173 1ddl (C) 20 187 13.00 0 0.05 0.228697 0.56
196 241 1eys (H) 35 98 48.00 0.2 0.4 0.3853 0.8
255 718 5k16 (A) 34 367 40.00 0 1 0.537051 0.98
256 285 5j7t (A) 211 239 48.00 0 0.39 0.455909 0.41
258 718 5cvm (A) 33 363 40.00 0 1 0.52589 1.05
261 636 2hd5 (A) 215 494 29.00 0.0000000015 1 0.516998 1.06

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_128027)

Species Accession Gene Product
Arabidopsis thaliana AT2G22310   ubiquitin carboxyl-terminal hydrolase 4
Arabidopsis thaliana AT4G39910   ubiquitin-specific protease 3
Brugia malayi Bm1_16930   ubiquitin carboxyl-terminal hydrolase 46
Candida albicans CaO19.9575   ubiquitin carboxyl-terminal hydrolase
Candida albicans CaO19.2026   ubiquitin carboxyl-terminal hydrolase
Caenorhabditis elegans CELE_R10E11.3   Protein USP-46, isoform A
Dictyostelium discoideum DDB_G0290453   peptidase C19 family protein
Drosophila melanogaster Dmel_CG7023   Ubiquitin-specific protease 12/46 ortholog
Echinococcus granulosus EgrG_001076800   set and mynd domain containing protein
Echinococcus granulosus EgrG_000915600   ubiquitin carboxyl terminal hydrolase 12
Echinococcus multilocularis EmuJ_000915600   ubiquitin carboxyl terminal hydrolase 12
Echinococcus multilocularis EmuJ_001076800   set and mynd domain containing protein
Homo sapiens ENSG00000152484   ubiquitin specific peptidase 12
Homo sapiens ENSG00000109189   ubiquitin specific peptidase 46
Leishmania braziliensis LbrM.21.0460   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania donovani LdBPK_210460.1   Peptidase C19, ubiquitin carboxyl-terminal hydrolase, putative
Leishmania infantum LinJ.21.0460   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania major LmjF.21.0400   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Leishmania mexicana LmxM.21.0400   ubiquitin hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Loa Loa (eye worm) LOAG_08169   ubiquitin carboxyl-terminal hydrolase 46
Mus musculus ENSMUSG00000029640   ubiquitin specific peptidase 12
Mus musculus 69727   ubiquitin specific peptidase 46
Oryza sativa 4336009   Os04g0452400
Oryza sativa 4331901   Os03g0190800
Oryza sativa 4329740   Os02g0573400
Saccharomyces cerevisiae YBL067C   Ubp13p
Saccharomyces cerevisiae YER098W   Ubp9p
Schistosoma japonicum Sjp_0202330   SET and MYND domain-containing protein 4, putative
Schistosoma japonicum Sjp_0106640   ko:K01072 ubiquitin thiolesterase [EC3.1.2.15], putative
Schistosoma mansoni Smp_000710   ubiquitin-specific peptidase 46 (C19 family)
Schmidtea mediterranea mk4.007842.04  
Schmidtea mediterranea mk4.001889.03   Ubiquitin carboxyl-terminal hydrolase
Schmidtea mediterranea mk4.010148.00  
Trypanosoma brucei gambiense Tbg972.10.2680   ubiquitin carboxyl-terminal hydrolase, putative,cysteine peptidase, Clan CA, family C19, putative
Trypanosoma brucei Tb11.v5.0701   ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma brucei Tb927.10.2210   Peptidase C19, ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma congolense TcIL3000_10_1820   Peptidase C19, ubiquitin carboxyl-terminal hydrolase, putative
Trypanosoma cruzi TcCLB.511367.260   Peptidase C19, ubiquitin carboxyl-terminal hydrolase, putative
Theileria parva TP02_0111   hypothetical protein
Trichomonas vaginalis TVAG_268770   Clan CA, family C19, ubiquitin hydrolase-like cysteine peptidase

Essentiality

LdBPK_210460.1 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.2210 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.2210 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.2210 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.2210 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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
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_210460.1 (Leishmania donovani), Peptidase C19, ubiquitin carboxyl-terminal hydrolase, putative
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