Detailed view for Tb927.3.5150

Basic information

TDR Targets ID: 17316
Trypanosoma brucei, exonuclease, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.2212 | Length (AA): 329 | MW (Da): 37900 | Paralog Number: 1

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

PF00929   Exonuclease

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0004527   exonuclease activity  
GO:0003676   nucleic acid binding  

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
12 315 1zbu (B) 78 343 25.00 0.000000000063 1 1.06501 0.48
49 286 2xri (A) 133 328 36.00 0 1 0.934504 -0.25
59 292 2xri (A) 140 334 41.00 0 1 0.984746 0.11
62 289 1zbh (B) 127 317 43.00 0 1 0.966509 0.11

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_130856)

Species Accession Gene Product
Arabidopsis thaliana AT3G15140   polynucleotidyl transferase, ribonuclease H-like superfamily protein
Brugia malayi Bm1_43255   exonuclease family protein
Caenorhabditis elegans CELE_T07A9.5   Protein ERI-1, isoform A
Dictyostelium discoideum DDB_G0283113   RNA exonuclease
Homo sapiens ENSG00000104626   exoribonuclease 1
Leishmania braziliensis LbrM.29.0490   hypothetical protein, conserved
Leishmania braziliensis LbrM.29.0480   hypothetical protein, conserved
Leishmania donovani LdBPK_290560.1   exonuclease, putative
Leishmania donovani LdBPK_290550.1   exonuclease, putative
Leishmania infantum LinJ.29.0560   hypothetical protein, conserved
Leishmania infantum LinJ.29.0550   hypothetical protein, conserved
Leishmania major LmjF.29.0540   hypothetical protein, conserved
Leishmania major LmjF.29.0550   hypothetical protein, conserved
Leishmania mexicana LmxM.08_29.0540   hypothetical protein, conserved
Leishmania mexicana LmxM.08_29.0550   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_11888   exonuclease
Mus musculus ENSMUSG00000031527   exoribonuclease 1
Oryza sativa 9267223   Os06g0353400
Onchocerca volvulus OVOC10504  
Schistosoma japonicum Sjp_0017980   ko:K01175 three prime histone mRNA exonuclease 1 [EC:3.1.-.-], putative
Schistosoma mansoni Smp_029850   3'-5' exonuclease
Schmidtea mediterranea mk4.012915.00   Putative 3-5 exonuclease eri1
Schmidtea mediterranea mk4.058103.00   Putative 3-5 exonuclease eri1
Schmidtea mediterranea mk4.002515.02   Putative 3-5 exonuclease eri1
Trypanosoma brucei gambiense Tbg972.3.5790   hypothetical protein, conserved
Trypanosoma brucei gambiense Tbg972.3.5810   exonuclease, putative
Trypanosoma brucei Tb927.3.5140   exonuclease, putative
Trypanosoma brucei Tb927.3.5150   exonuclease, putative
Trypanosoma congolense TcIL3000_3_3150   exonuclease, putative
Trypanosoma congolense TcIL3000_3_3140   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508411.50   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510147.9   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508411.40   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510145.59   exonuclease, putative
Trypanosoma cruzi TcCLB.483009.9   exonuclease, putative

Essentiality

Tb927.3.5150 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.5140 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.5140 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.5140 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.5140 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.3.5150 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.5150 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.5150 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.5150 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T07A9.5 Caenorhabditis elegans larval lethal wormbase
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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 procyclic forms . 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
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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User comments

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Gene identifier Tb927.3.5150 (Trypanosoma brucei), exonuclease, putative
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