Detailed view for Tb927.9.9940

Basic information

TDR Targets ID: 19196
Trypanosoma brucei, PACRGB
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.7554 | Length (AA): 312 | MW (Da): 35354 | Paralog Number: 1

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

Druggability Group : DG1

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

PF10274   Parkin co-regulated protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0005488   binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
227 295 4ts6 (A) 852 938 28.00 0.32 0.03 0.148654 0.92

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_129548)

Species Accession Gene Product
Caenorhabditis elegans CELE_E04F6.2   Protein E04F6.2
Drosophila melanogaster Dmel_CG15120   CG15120 gene product from transcript CG15120-RA
Echinococcus granulosus EgrG_000684600   Parkin co regulated protein
Echinococcus granulosus EgrG_000378100   parkin coregulated gene protein
Echinococcus multilocularis EmuJ_000684600   Parkin co regulated protein
Echinococcus multilocularis EmuJ_000378100   parkin coregulated gene protein
Giardia lamblia GL50803_15455   E04F6.2 like protein
Giardia lamblia GL50803_7875   E04F6.2 like protein
Homo sapiens ENSG00000112530   PARK2 co-regulated
Leishmania braziliensis LbrM.25.1780   hypothetical protein, conserved
Leishmania braziliensis LbrM.34.4660   hypothetical protein, conserved
Leishmania donovani LdBPK_354760.1   PACRGB
Leishmania donovani LdBPK_252300.1   parkin co-regulated protein, putative
Leishmania infantum LinJ.35.4760   hypothetical protein, conserved
Leishmania infantum LinJ.25.2300   hypothetical protein, conserved
Leishmania major LmjF.25.2200   hypothetical protein, conserved
Leishmania major LmjF.35.4690   hypothetical protein, conserved
Leishmania mexicana LmxM.34.4690   hypothetical protein, conserved
Leishmania mexicana LmxM.25.2200   hypothetical protein, conserved
Mus musculus ENSMUSG00000037196   PARK2 co-regulated
Neospora caninum NCLIV_054560   hypothetical protein, conserved
Onchocerca volvulus OVOC6184  
Schistosoma japonicum Sjp_0096750   similar to Uncharacterized protein C4orf28, putative
Schistosoma mansoni Smp_035500   hypothetical protein
Schmidtea mediterranea mk4.000166.25  
Schmidtea mediterranea mk4.000483.00  
Trypanosoma brucei gambiense Tbg972.3.2290   hypothetical protein, conserved
Trypanosoma brucei gambiense Tbg972.9.5720   hypothetical protein, conserved
Trypanosoma brucei Tb927.3.2310   PACRGA
Trypanosoma brucei Tb927.9.9940   PACRGB
Trypanosoma congolense TcIL3000_0_39200   PACRGB
Trypanosoma cruzi TcCLB.510731.20   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508479.270   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506887.20   hypothetical protein, conserved
Toxoplasma gondii TGME49_310480   flagellar/basal body protein, PACRG family protein
Trichomonas vaginalis TVAG_377800   conserved hypothetical protein
Trichomonas vaginalis TVAG_062600   conserved hypothetical protein
Trichomonas vaginalis TVAG_342930   conserved hypothetical protein

Essentiality

Tb927.9.9940 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.2310 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.2310 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.2310 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.3.2310 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb09.211.1470 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.211.1470 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.1470 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.1470 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_310480 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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) 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 procyclic forms . References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant 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.

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Gene identifier Tb927.9.9940 (Trypanosoma brucei), PACRGB
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