Detailed view for Tb927.2.2460

Basic information

TDR Targets ID: 55066
Trypanosoma brucei, ubiquitin-conjugating enzyme E2, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.4955 | Length (AA): 198 | MW (Da): 22569 | Paralog Number: 0

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

Druggability Group : DG3

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:0019789   SUMO ligase activity  
GO:0005634   nucleus  
GO:0004842   ubiquitin-protein ligase activity  
GO:0019787   small conjugating protein ligase activity  
GO:0006464   protein modification process  
GO:0051246   regulation of protein metabolic process  
GO:0043687   post-translational protein modification  

Metabolic Pathways

RNA transport (KEGG)
Ubiquitin mediated proteolysis (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
2 192 5f6e (A) 2 154 63.00 0 1 1.58195 -1.37
5 198 4l83 (A) 4 161 55.00 0 1 1.5307 -1.28
5 196 4m1n (A) 2 158 59.00 0 1 1.582 -1.52
75 158 2fo3 (A) 34 116 31.00 0 1 0.891942 -1.13
79 192 4jqu (A) 37 161 39.00 0 1 1.25006 -2.34

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 60-80% percentile Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 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_127729)

Species Accession Gene Product
Arabidopsis thaliana AT3G57870   SUMO-conjugating enzyme SCE1
Babesia bovis BBOV_I005060   ubiquitin conjugating enzyme, putative
Babesia bovis BBOV_I005050   ubiquitin conjugating enzyme, putative
Brugia malayi Bm1_40505   ube2i2 protein
Candida albicans CaO19.13782   ubiquitin-conjugating enzyme
Candida albicans CaO19.6424   ubiquitin-conjugating enzyme
Caenorhabditis elegans CELE_F29B9.6   Protein UBC-9
Cryptosporidium parvum cgd7_2840   ubiquitin conjugating enzyme, putative
Dictyostelium discoideum DDB_G0287693   hypothetical protein
Dictyostelium discoideum DDB_G0287153   hypothetical protein
Drosophila melanogaster Dmel_CG3018   lesswright
Echinococcus granulosus EgrG_000452700   ubiquitin conjugating enzyme e2 i
Entamoeba histolytica EHI_147470   ubiquitin-conjugating enzyme family protein
Entamoeba histolytica EHI_178500   ubiquitin-conjugating enzyme family protein
Echinococcus multilocularis EmuJ_000452700   ubiquitin conjugating enzyme e2 i
Giardia lamblia GL50803_24068   UBC3
Homo sapiens ENSG00000103275   ubiquitin-conjugating enzyme E2I
Leishmania braziliensis LbrM.02.0420   ubiquitin-conjugating enzyme e2, putative
Leishmania donovani LdBPK_020360.1   ubiquitin-conjugating enzyme E2, putative
Leishmania infantum LinJ.02.0360   ubiquitin-conjugating enzyme e2, putative
Leishmania major LmjF.02.0390   ubiquitin-conjugating enzyme e2, putative
Leishmania mexicana LmxM.02.0390   ubiquitin-conjugating enzyme e2, putative
Loa Loa (eye worm) LOAG_05393   ube2i2 protein
Mus musculus 22196   ubiquitin-conjugating enzyme E2I
Mus musculus 102641751   SUMO-conjugating enzyme UBC9-like
Neospora caninum NCLIV_003300   Ubiquitin carrier protein (EC 6.3.2.-), related
Oryza sativa 4331446   Os03g0123100
Oryza sativa 4349236   Os10g0536000
Plasmodium berghei PBANKA_0816100   SUMO-conjugating enzyme UBC9, putative
Plasmodium falciparum PF3D7_0915100   SUMO-conjugating enzyme UBC9
Plasmodium knowlesi PKNH_0713100   SUMO-conjugating enzyme UBC9, putative
Plasmodium vivax PVX_099185   SUMO-conjugating enzyme UBC9, putative
Saccharomyces cerevisiae YDL064W   E2 SUMO-conjugating protein UBC9
Schistosoma japonicum Sjp_0079040   ko:K10577 ubiquitin-conjugating enzyme E2 I, putative
Schistosoma mansoni Smp_103710   ubiquitin-conjugating enzyme E2 I
Schmidtea mediterranea mk4.028470.00   SUMO-conjugating enzyme UBC9
Schmidtea mediterranea mk4.001799.00   SUMO-conjugating enzyme UBC9
Trypanosoma brucei gambiense Tbg.972.2.1030   ubiquitin-conjugating enzyme e2, putative
Trypanosoma brucei Tb927.2.2460   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.503515.14   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.508741.280   ubiquitin-conjugating enzyme E2, putative
Toxoplasma gondii TGME49_208780   ubiquitin-conjugating enzyme subfamily protein
Theileria parva TP03_0540   ubiquitin-conjugating enzyme, putative
Trichomonas vaginalis TVAG_050270   ubiquitin-conjugating enzyme rad6, putative

Essentiality

Tb927.2.2460 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.2460 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.2.2460 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.2.2460 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.2.2460 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F29B9.6 Caenorhabditis elegans embryonic arrest wormbase
CELE_F29B9.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_F29B9.6 Caenorhabditis elegans larval arrest wormbase
CELE_F29B9.6 Caenorhabditis elegans larval lethal wormbase
CELE_F29B9.6 Caenorhabditis elegans slow growth wormbase
CELE_F29B9.6 Caenorhabditis elegans sterile wormbase
YDL064W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0816100 Plasmodium berghei Essential plasmo
TGME49_208780 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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) 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

Druggability index (range: 0 to 1): 0.2

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 ubiquitin-conjugating enzyme E2I Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0115 0.3167 0.5398
0.003 0.5 0.5
0.05 0.287 0.4727
0.003 0.3541 1

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier Tb927.2.2460 (Trypanosoma brucei), ubiquitin-conjugating enzyme E2, putative
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