Detailed view for Tb927.4.2450

Basic information

TDR Targets ID: 20415
Trypanosoma brucei, protein disulfide isomerase 1
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.3904 | Length (AA): 413 | MW (Da): 44723 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 1

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

PF00085   Thioredoxin

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0004362   glutathione-disulfide reductase activity  
GO:0045454   cell redox homeostasis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
16 388 4ekz (A) 0 389 19.00 0.0000000013 1 1.00535 1.12
19 142 2dml (A) 4 125 44.00 0 1 0.908142 -1.24
23 401 2b5e (A) 23 398 19.00 0.00000000095 0.79 1.04688 0.94
32 134 3aps (A) 670 773 31.00 0 1 0.816595 -1.9
49 115 1ep7 (A) 24 90 30.00 0.0033 1 0.676528 -1.21

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_129706)

Species Accession Gene Product
Candida albicans CaO19.11402   potential protein disulfide isomerase similar to S. cerevisiae MPD1 (YOR288C)
Candida albicans CaO19.3920   potential protein disulfide isomerase similar to S. cerevisiae MPD1 (YOR288C)
Dictyostelium discoideum DDB_G0275025   hypothetical protein
Entamoeba histolytica EHI_021560   thioredoxin, putative
Giardia lamblia GL50803_29487   Protein disulfide isomerase PDI1
Leishmania braziliensis LbrM.20.1700   hypothetical protein, conserved
Leishmania donovani LdBPK_341960.1   thioredoxin, putative
Leishmania infantum LinJ.34.1960   hypothetical protein, conserved
Leishmania major LmjF.34.2200   hypothetical protein, conserved
Leishmania mexicana LmxM.33.2200   hypothetical protein, conserved
Saccharomyces cerevisiae YOR288C   protein disulfide isomerase MPD1
Trypanosoma brucei gambiense Tbg972.4.2410   thioredoxin, putative
Trypanosoma brucei Tb927.4.2450   protein disulfide isomerase 1
Trypanosoma congolense TcIL3000_4_2300   thioredoxin, putative
Trypanosoma cruzi TcCLB.506559.200   thioredoxin, putative
Trypanosoma cruzi TcCLB.510949.20   thioredoxin, putative
Trichomonas vaginalis TVAG_301730   protein disulfide isomerase, putative
Trichomonas vaginalis TVAG_193010   conserved hypothetical protein
Trichomonas vaginalis TVAG_243080   protein disulfide isomerase, putative
Trichomonas vaginalis TVAG_161120   conserved hypothetical protein
Trichomonas vaginalis TVAG_318310   conserved hypothetical protein
Trichomonas vaginalis TVAG_128670   conserved hypothetical protein
Trichomonas vaginalis TVAG_210580   conserved hypothetical protein
Trichomonas vaginalis TVAG_234120   conserved hypothetical protein
Trichomonas vaginalis TVAG_009960   conserved hypothetical protein
Trichomonas vaginalis TVAG_418790   conserved hypothetical protein
Trichomonas vaginalis TVAG_059180   conserved hypothetical protein
Trichomonas vaginalis TVAG_305470   protein disulfide isomerase, putative

Essentiality

Tb927.4.2450 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2450 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.2450 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.2450 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2450 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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 3 days). References: 21363968
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.

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Gene identifier Tb927.4.2450 (Trypanosoma brucei), protein disulfide isomerase 1
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