Detailed view for Tb927.11.7430

Basic information

TDR Targets ID: 14002
Trypanosoma brucei, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.1859 | Length (AA): 136 | MW (Da): 15514 | Paralog Number: 0

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

Druggability Group : DG4

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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0006511   ubiquitin-dependent protein catabolic 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
27 135 1hv2 (A) 1 98 22.00 0 1 0.981771 -0.61
30 136 4ajy (C) 17 112 32.00 0 1 1.07666 -0.85
31 136 2c9w (C) 18 112 33.00 0 0.99 0.868712 -0.21

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
Mid 40-60% percentile Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_128120)

Species Accession Gene Product
Arabidopsis thaliana AT5G59140   BTB/POZ domain-containing protein
Brugia malayi Bm1_21630   transcription elongation factor B polypeptide 1, putative
Candida albicans CaO19.14139   transcriptional elongation factor
Candida albicans CaO19.6849   transcriptional elongation factor
Caenorhabditis elegans CELE_Y82E9BR.15   Protein ELC-1
Cryptosporidium hominis Chro.60322   hypothetical protein
Dictyostelium discoideum DDB_G0284201   hypothetical protein
Drosophila melanogaster Dmel_CG9291   Elongin C
Echinococcus granulosus EgrG_000040100   transcription elongation factor b polypeptide 1
Entamoeba histolytica EHI_152700   hypothetical protein
Echinococcus multilocularis EmuJ_000040100   transcription elongation factor b polypeptide 1
Homo sapiens ENSG00000154582   transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C)
Loa Loa (eye worm) LOAG_01824   ELC-1 protein
Mus musculus 102642819   transcription elongation factor B polypeptide 1-like
Mus musculus 100503053   predicted gene 14517
Mus musculus ENSMUSG00000079658   transcription elongation factor B (SIII), polypeptide 1
Mus musculus 100504036   predicted gene, 20026
Mus musculus 102637110   predicted gene, 34005
Mus musculus 102631956   predicted gene, 30155
Neospora caninum NCLIV_042880   elongin c, putative
Oryza sativa 4351227   Os11g0707700
Onchocerca volvulus OVOC2291   Transcription elongation factor B polypeptide 1 homolog
Saccharomyces cerevisiae YPL046C   elongin C
Schistosoma japonicum Sjp_0074960   ko:K03872 transcription elongation factor B, polypeptide 1, putative
Schistosoma mansoni Smp_009320.1   hypothetical protein
Schistosoma mansoni Smp_009320.2   hypothetical protein
Schmidtea mediterranea mk4.004810.02   Transcription elongation factor B polypeptide 1
Trypanosoma brucei gambiense Tbg972.11.8510   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.7430   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508241.70   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.511151.39   hypothetical protein, conserved
Toxoplasma gondii TGME49_291010   hypothetical protein
Trichomonas vaginalis TVAG_482240   elongin C protein, putative

Essentiality

Tb927.11.7430 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.5330 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.5330 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.5330 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.5330 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y82E9BR.15 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y82E9BR.15 Caenorhabditis elegans larval arrest wormbase
TGME49_291010 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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.
  • 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.

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) 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
Species Known druggable target Linked compounds Reference
Homo sapiens transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C) Compounds References
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 Tb927.11.7430 (Trypanosoma brucei), hypothetical protein, conserved
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