Detailed view for Tb927.11.2130

Basic information

TDR Targets ID: 20703
Trypanosoma brucei, proteasome regulatory non-ATP-ase subunit 3
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4291 | Length (AA): 334 | MW (Da): 38168 | Paralog Number: 0

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

Druggability Group : DG4

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

PF01399   PCI domain
PF08375   Proteasome regulatory subunit C-terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0005838   proteasome regulatory particle  
GO:0000502   proteasome complex  
GO:0030234   enzyme regulator activity  
GO:0004175   endopeptidase activity  
GO:0042176   regulation of protein catabolic process  
GO:0006511   ubiquitin-dependent protein catabolic process  

Metabolic Pathways

Proteasome (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
20 364 4d10 (C) 51 403 14.00 0.0000000011 0.96 1.01213 0.28
93 352 5ubp (B) 160 454 14.00 0 1 0.706266 0.03
143 333 3t5x (A) 205 391 21.00 0 1 0.747899 -0.82
171 281 3fpk (A) 63 178 31.00 0.82 0.13 0.319894 1.35

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 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_128135)

Species Accession Gene Product
Arabidopsis thaliana AT1G75990   probable 26S proteasome non-ATPase regulatory subunit 3b
Arabidopsis thaliana AT1G20200   probable 26S proteasome non-ATPase regulatory subunit 3a
Babesia bovis BBOV_II001520   26S proteasome non-ATPase regulatory subunit 3
Brugia malayi Bm1_23175   Probable 26S proteasome non-ATPase regulatory subunit 3
Candida albicans CaO19.3054   similar to S. cerevisiae RPN3 (YER021W) subunit of the 19S regulatory particle of the 26S proteasome
Candida albicans CaO19.10572   similar to S. cerevisiae RPN3 (YER021W) subunit of the 19S regulatory particle of the 26S proteasome
Caenorhabditis elegans CELE_C30C11.2   Protein RPN-3
Cryptosporidium hominis Chro.80466   PCI domain
Cryptosporidium parvum cgd8_4060   26S proteasomal subunit S3; PINT domain containing protein
Dictyostelium discoideum DDB_G0288621   26S proteasome non-ATPase regulatory subunit 3
Drosophila melanogaster Dmel_CG42641   Regulatory particle non-ATPase 3
Echinococcus granulosus EgrG_000395500   26S proteasome regulatory subunit S3
Entamoeba histolytica EHI_179970   proteasome regulatory subunit, putative
Echinococcus multilocularis EmuJ_000395500   26S proteasome regulatory subunit S3
Homo sapiens ENSG00000108344   proteasome (prosome, macropain) 26S subunit, non-ATPase, 3
Leishmania braziliensis LbrM.27.1600   proteasome regulatory non-ATP-ase subunit 3, putative
Leishmania donovani LdBPK_271370.1   proteasome regulatory non-ATP-ase subunit 3, putative
Leishmania infantum LinJ.27.1370   proteasome regulatory non-ATP-ase subunit 3, putative
Leishmania major LmjF.27.1460   proteasome regulatory non-ATP-ase subunit 3, putative
Leishmania mexicana LmxM.27.1460   proteasome regulatory non-ATP-ase subunit 3, putative
Loa Loa (eye worm) LOAG_05880   RPN-3 protein
Mus musculus ENSMUSG00000017221   proteasome (prosome, macropain) 26S subunit, non-ATPase, 3
Neospora caninum NCLIV_043400   Proteasome subunit p58, related
Oryza sativa 4346252   Os08g0550100
Oryza sativa 4347735   Os09g0541900
Plasmodium berghei PBANKA_1351800   26S proteasome regulatory subunit RPN3, putative
Plasmodium falciparum PF3D7_1338100   26S proteasome regulatory subunit RPN3, putative
Plasmodium knowlesi PKNH_1263200   26S proteasome regulatory subunit RPN3, putative
Plasmodium yoelii PY02721   PCI domain, putative
Saccharomyces cerevisiae YER021W   proteasome regulatory particle lid subunit RPN3
Schistosoma japonicum Sjp_0020800   ko:K03033 26S proteasome regulatory subunit N3, putative
Schistosoma mansoni Smp_085310.2   26S proteasome regulatory subunit S3
Schistosoma mansoni Smp_085310.1   26S proteasome regulatory subunit S3
Schmidtea mediterranea mk4.021377.00   26S proteasome non-ATPase regulatory subunit 3
Schmidtea mediterranea mk4.001444.02   26S proteasome non-ATPase regulatory subunit 3
Schmidtea mediterranea mk4.003948.04   26S proteasome non-ATPase regulatory subunit 3
Schmidtea mediterranea mk4.001444.00   26S proteasome non-ATPase regulatory subunit 3
Schmidtea mediterranea mk4.002747.05   26S proteasome non-ATPase regulatory subunit 3
Schmidtea mediterranea mk4.006849.01   26S proteasome non-ATPase regulatory subunit 3
Trypanosoma brucei gambiense Tbg972.11.2330   proteasome regulatory non-ATP-ase subunit 3, putative
Trypanosoma brucei Tb927.11.2130   proteasome regulatory non-ATP-ase subunit 3
Trypanosoma congolense TcIL3000.11.1850   proteasome regulatory non-ATP-ase subunit 3, putative
Trypanosoma cruzi TcCLB.508355.150   proteasome regulatory non-ATPase subunit 3, putative
Toxoplasma gondii TGME49_292220   PCI domain-containing protein
Theileria parva TP04_0438   proteasome regulatory component, putative
Trichomonas vaginalis TVAG_076170   26S proteasome regulatory subunit S3, putative

Essentiality

Tb927.11.2130 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.18.0013 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.18.0013 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.18.0013 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.18.0013 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C30C11.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_C30C11.2 Caenorhabditis elegans larval arrest wormbase
CELE_C30C11.2 Caenorhabditis elegans larval lethal wormbase
CELE_C30C11.2 Caenorhabditis elegans slow growth wormbase
CELE_C30C11.2 Caenorhabditis elegans sterile wormbase
YER021W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1351800 Plasmodium berghei Essential plasmo
TGME49_292220 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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 3 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss 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
Species Known druggable target Linked compounds Reference
Homo sapiens proteasome (prosome, macropain) 26S subunit, non-ATPase, 3 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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Gene identifier Tb927.11.2130 (Trypanosoma brucei), proteasome regulatory non-ATP-ase subunit 3
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