Detailed view for Tb927.2.3720

Basic information

TDR Targets ID: 55124
Trypanosoma brucei, ubiquitin-conjugating enzyme, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4967 | Length (AA): 251 | MW (Da): 27215 | Paralog Number: 0

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

PF00179   Ubiquitin-conjugating enzyme

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0019787   small conjugating protein ligase activity  
GO:0004842   ubiquitin-protein ligase activity  
GO:0051246   regulation of protein metabolic process  
GO:0043687   post-translational protein modification  
GO:0006464   protein modification process  

Metabolic Pathways

Ubiquitin mediated proteolysis (KEGG)

Structural information

Modbase 3D models:

There are 3 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
3 117 2awf (A) 2 131 34.00 0 1 0.993647 -1.69
3 149 1zdn (A) 8 155 49.00 0 1 1.34536 -1.97
5 210 1tte (A) 1 207 26.00 0.000001 1 1.09871 0.28

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
Mid 40-60% 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_129986)

Species Accession Gene Product
Arabidopsis thaliana AT5G05080   ubiquitin-conjugating enzyme E2 22
Dictyostelium discoideum DDB_G0289021   ubiquitin-conjugating enzyme E2 S
Drosophila melanogaster Dmel_CG8188   CG8188 gene product from transcript CG8188-RD
Echinococcus granulosus EgrG_000990700   ubiquitin conjugating enzyme e2S
Echinococcus multilocularis EmuJ_000990700   ubiquitin conjugating enzyme e2S
Homo sapiens 27338   ubiquitin-conjugating enzyme E2S
Leishmania braziliensis LbrM.15.0920   ubiquitin-conjugating enzyme
Leishmania braziliensis LbrM.33.3050   ubiquitin-conjugating enzyme, putative
Leishmania donovani LdBPK_332910.1   ubiquitin-conjugating enzyme, putative
Leishmania infantum LinJ.33.2910   ubiquitin-conjugating enzyme, putative
Leishmania major LmjF.33.2770   ubiquitin-conjugating enzyme, putative
Leishmania mexicana LmxM.32.2770   ubiquitin-conjugating enzyme, putative
Mus musculus ENSMUSG00000060860   ubiquitin-conjugating enzyme E2S
Oryza sativa 4341740   Os06g0660700
Schistosoma japonicum Sjp_0070110   ko:K10583 ubiquitin-conjugating enzyme E2 S, putative
Schistosoma mansoni Smp_180170   ubiquitin-conjugating enzyme e2S
Schmidtea mediterranea mk4.003876.04   Ubiquitin-conjugating enzyme E2 S
Schmidtea mediterranea mk4.002487.04   Ubiquitin-conjugating enzyme E2 S
Schmidtea mediterranea mk4.040052.00   Ubiquitin-conjugating enzyme E2 S
Trypanosoma brucei gambiense Tbg.972.2.2010   ubiquitin-conjugating enzyme, putative
Trypanosoma brucei Tb927.2.3720   ubiquitin-conjugating enzyme, putative
Trypanosoma cruzi TcCLB.511111.50   ubiquitin-conjugating enzyme, putative
Trypanosoma cruzi TcCLB.507715.80   ubiquitin-conjugating enzyme, putative
Trichomonas vaginalis TVAG_062270   ubiquitin-conjugating enzyme E2, putative

Essentiality

Tb927.2.3720 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.3720 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.2.3720 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.2.3720 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.2.3720 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • 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
  • 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

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) 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 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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Gene identifier Tb927.2.3720 (Trypanosoma brucei), ubiquitin-conjugating enzyme, putative
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