Detailed view for Tb927.8.5530

Basic information

TDR Targets ID: 12946
Trypanosoma brucei, COP9 signalosome complex subunit 5, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.995 | Length (AA): 395 | MW (Da): 43748 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF01398   JAB1/Mov34/MPN/PAD-1 ubiquitin protease

Gene Ontology

Mouse over links to read term descriptions.
GO:0008150   biological_process  
GO:0005575   cellular_component  
GO:0003674   molecular_function  
GO:0008180   signalosome  
GO:0005515   protein binding  
GO:0004222   metalloendopeptidase 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
2 276 5joh (A) 19 236 35.00 0 1 0.755903 0.28
7 387 4d10 (E) 24 329 34.00 0 0.98 1.03416 0.74
9 276 5joh (A) 26 236 40.00 0 1 0.736481 0.63
280 387 4dvy (P) 560 662 13.00 0.87 0.01 0.342018 -0.22

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_128438)

Species Accession Gene Product
Arabidopsis thaliana AT1G22920   COP9 signalosome complex subunit 5a
Arabidopsis thaliana AT1G71230   COP9 signalosome complex subunit 5b
Brugia malayi Bm1_46585   COP9 signalosome complex subunit 5
Candida albicans CaO19.3371   similar to hypothetical protein, PFC0260w
Candida albicans CaO19.10880   similar to Arabidopsis AJH1 (At1g22920) and to S. cerevisiae RRI1 (YDL216C) subunit of the COP9 signalosome
Candida albicans CaO19.3372   similar to Arabidopsis AJH1/CSN5B (At1g22920) and to S. cerevisiae RRI1 (YDL216C) subunit of the COP9 signalosome
Candida albicans CaO19.10879   similar to hypothetical protein, PFC0260w
Caenorhabditis elegans CELE_B0547.1   Protein CSN-5
Dictyostelium discoideum DDB_G0284597   COP9 signalosome complex subunit 5
Drosophila melanogaster Dmel_CG14884   COP9 complex homolog subunit 5
Echinococcus granulosus EgrG_000831400   COP9 signalosome complex subunit 5
Entamoeba histolytica EHI_050500   Mov34/MPN/PAD-1 family protein
Echinococcus multilocularis EmuJ_000831400   COP9 signalosome complex subunit 5
Homo sapiens ENSG00000121022   COP9 signalosome subunit 5
Leishmania braziliensis LbrM.16.0860   metallopeptidase, putative,metallo-peptidase, Clan MP, Family M67
Leishmania donovani LdBPK_160850.1   COP9 signalosome complex subunit 5, putative
Leishmania infantum LinJ.16.0850   metallopeptidase, putative,metallo-peptidase, Clan MP, Family M67
Leishmania major LmjF.16.0850   metallopeptidase, putative,metallo-peptidase, Clan MP, Family M67
Leishmania mexicana LmxM.16.0850   metallopeptidase, putative,metallo-peptidase, Clan MP, Family M67
Loa Loa (eye worm) LOAG_01443   COP9 signalosome complex subunit 5
Mus musculus ENSMUSG00000025917   COP9 (constitutive photomorphogenic) homolog, subunit 5 (Arabidopsis thaliana)
Neospora caninum NCLIV_053280   Mov34/MPN/PAD-1 family proteasome regulatory subunit, probable, related
Oryza sativa 4337249   Os04g0654700
Saccharomyces cerevisiae YDL216C   Rri1p
Schistosoma mansoni Smp_131660   Jab1/MPN domain metalloenzyme (M67 family)
Schmidtea mediterranea mk4.000552.01   COP9 signalosome complex subunit 5
Schmidtea mediterranea mk4.000552.00   COP9 signalosome complex subunit 5
Schmidtea mediterranea mk4.004543.00   COP9 signalosome complex subunit 5
Trypanosoma brucei gambiense Tbg972.8.5500   Mov34/MPN/PAD-1 metallopeptidase, putative,metallopeptidase, putative
Trypanosoma brucei Tb927.8.5530   COP9 signalosome complex subunit 5, putative
Trypanosoma congolense TcIL3000_8_5340   COP9 signalosome complex subunit 5, putative
Trypanosoma cruzi TcCLB.507083.60   COP9 signalosome complex subunit 5, putative
Trypanosoma cruzi TcCLB.509901.140   COP9 signalosome complex subunit 5, putative
Trypanosoma cruzi TcCLB.511649.60   COP9 signalosome complex subunit 5, putative
Toxoplasma gondii TGME49_308590   Mov34/MPN/PAD-1 family protein
Trichomonas vaginalis TVAG_472140   Clan MP, family M67, Poh1-like metallopeptidase
Trichomonas vaginalis TVAG_454400   Clan MP, family M67, Poh1-like metallopeptidase

Essentiality

Tb927.8.5530 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.5530 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.5530 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.5530 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.5530 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_B0547.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_B0547.1 Caenorhabditis elegans larval arrest wormbase
CELE_B0547.1 Caenorhabditis elegans sterile wormbase
TGME49_308590 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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 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
Non orthologous druggable targets
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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Tb927.8.5530 (Trypanosoma brucei), COP9 signalosome complex subunit 5, putative
Title for this comment
Comment