Detailed view for Bm1_17230

Basic information

TDR Targets ID: 233958
Brugia malayi, Ubiquitin carboxyl-terminal hydrolase family protein
Source Database / ID:  GenBank

pI: 6.0814 | Length (AA): 1137 | MW (Da): 128607 | 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
PF06337   DUSP domain

Gene Ontology

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

GO:0016579   protein deubiquitination  
GO:0004843   ubiquitin-specific protease activity  
GO:0005509   calcium ion binding  
GO:0004221   ubiquitin thiolesterase 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 8 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
123 239 5g4p (A) 6 124 33.00 0.00000000099 0.99 0.478502 -0.36
131 281 5g4p (A) 14 185 28.00 0 1 0.389406 -0.32
136 288 2r2i (A) 9 177 25.00 0 1 0.415165 -0.46
141 212 2wcb (A) 4 85 21.00 0 0.46 0.286925 -1.23
294 531 3jyu (A) 13 227 27.00 0.0023 1 0.101923 1.28
557 742 2y6e (D) 300 778 48.00 0 1 0.704188 -0.2
560 668 2ayn (A) 105 219 32.00 0.000057 0.77 0.381466 -0.78
1104 1134 3i3t (A) 508 538 39.00 0.74 0.19 0.312265 0.69

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_131366)

Species Accession Gene Product
Brugia malayi Bm1_17230   Ubiquitin carboxyl-terminal hydrolase family protein
Caenorhabditis elegans CELE_ZK328.1   Protein CYK-3, isoform B
Drosophila melanogaster Dmel_CG8334   CG8334 gene product from transcript CG8334-RB
Echinococcus granulosus EgrG_000915300   ubiquitin carboxyl terminal hydrolase 4
Entamoeba histolytica EHI_119600   ubiquitin carboxyl-terminal hydrolase domain containing protein
Echinococcus multilocularis EmuJ_000915300   ubiquitin carboxyl terminal hydrolase 4
Homo sapiens ENSG00000275954   TBC1 domain family, member 3F
Homo sapiens ENSG00000274512   TBC1 domain family, member 3L
Homo sapiens 84669   ubiquitin specific peptidase 32
Homo sapiens ENSG00000274419   TBC1 domain family member-like
Homo sapiens 102723859   TBC1 domain family member-like
Homo sapiens ENSG00000129204   ubiquitin specific peptidase 6
Homo sapiens ENSG00000274611   TBC1 domain family, member 3
Homo sapiens ENSG00000274933   TBC1 domain family member-like
Homo sapiens ENSG00000278299   TBC1 domain family, member 3C
Homo sapiens 100510707   TBC1 domain family, member 3J
Homo sapiens ENSG00000274808   TBC1 domain family, member 3B
Homo sapiens ENSG00000260287   TBC1 domain family member-like
Homo sapiens 101060351   TBC1 domain family, member 3K
Homo sapiens ENSG00000274226   TBC1 domain family, member 3H
Loa Loa (eye worm) LOAG_07846   ubiquitin carboxyl-terminal hydrolase
Mus musculus ENSMUSG00000000804   ubiquitin specific peptidase 32
Schmidtea mediterranea mk4.022087.00   Ubiquitin carboxyl-terminal hydrolase 32
Schmidtea mediterranea mk4.002275.08   Ubiquitin carboxyl-terminal hydrolase 6
Schmidtea mediterranea mk4.002275.06  
Schmidtea mediterranea mk4.002275.07  
Schmidtea mediterranea mk4.010463.00  
Schmidtea mediterranea mk4.002275.04   Ubiquitin carboxyl-terminal hydrolase 6

Essentiality

Bm1_17230 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_ZK328.1 Caenorhabditis elegans embryonic arrest wormbase
CELE_ZK328.1 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

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
Species Target Length Identity Alignment span Linked Drugs Reference
Bos taurus Calmodulin 149 aa 17.9% 140 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0004 0.5 0.5
0.0004 0.5 0.5
0.0003 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.

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Gene identifier Bm1_17230 (Brugia malayi), Ubiquitin carboxyl-terminal hydrolase family protein
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