Detailed view for Tb927.4.4990

Basic information

TDR Targets ID: 17876
Trypanosoma brucei, ubiquinol-cytochrome c reductase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7687 | Length (AA): 71 | MW (Da): 8313 | Paralog Number: 1

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

PF02320   Ubiquinol-cytochrome C reductase hinge protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0006122   mitochondrial electron transport, ubiquinol to cytochrome c  
GO:0008121   ubiquinol-cytochrome-c reductase activity  

Metabolic Pathways

Oxidative phosphorylation (KEGG)
Global map (KEGG)

Structural information

Modbase 3D models:

There are 2 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 70 1l0l (H) 10 77 28.00 0 0.73 1.27185 -0.15
6 70 3cx5 (F) 74 146 25.00 0 0.34 1.10509 -0.34

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_128457)

Species Accession Gene Product
Arabidopsis thaliana AT1G15120   ubiquinol-cytochrome C reductase hinge protein
Babesia bovis BBOV_II002140   hypothetical protein
Brugia malayi Bm1_14750   Ubiquinol-cytochrome C reductase hinge protein
Caenorhabditis elegans CELE_T27E9.2   Protein T27E9.2
Dictyostelium discoideum DDB_G0271774   ubiquinol-cytochrome-c reductase hinge protein
Drosophila melanogaster Dmel_CG41623   Ubiquinol-cytochrome C reductase complex 11 kDa protein
Drosophila melanogaster Dmel_CG30354   CG30354 gene product from transcript CG30354-RB
Echinococcus granulosus EgrG_000595900   ubiquinol cytochrome c oxidoreductase subunit 6
Echinococcus multilocularis EmuJ_000595900   ubiquinol cytochrome c oxidoreductase subunit 6
Homo sapiens ENSG00000173660   ubiquinol-cytochrome c reductase hinge protein
Homo sapiens 440567   ubiquinol-cytochrome c reductase hinge protein-like
Leishmania braziliensis LbrM.31.2920   ubiquinol-cytochrome-c reductase-like protein
Leishmania donovani LdBPK_312650.1   ubiquinol-cytochrome-c reductase-like protein
Leishmania infantum LinJ.31.2650   ubiquinol-cytochrome-c reductase-like protein
Leishmania major LmjF.31.2580   ubiquinol-cytochrome-c reductase-like protein
Leishmania mexicana LmxM.30.2580   ubiquinol-cytochrome-c reductase-like protein
Loa Loa (eye worm) LOAG_06463   filarial common antigen
Mus musculus ENSMUSG00000063882   ubiquinol-cytochrome c reductase hinge protein
Neospora caninum NCLIV_010110   hypothetical protein
Oryza sativa 4349859   Os11g0162200
Plasmodium berghei PBANKA_1017700   cytochrome b-c1 complex subunit 6, putative
Plasmodium falciparum PF3D7_1426900   cytochrome b-c1 complex subunit 6, putative
Plasmodium knowlesi PKNH_1331800   cytochrome b-c1 complex subunit 6, putative
Plasmodium vivax PVX_085190   ubiquinol-cytochrome c reductase hinge protein, putative
Plasmodium yoelii PY01064   ubiquinol-cytochrome c reductase complex 7.8 kDa protein
Saccharomyces cerevisiae YFR033C   ubiquinol--cytochrome-c reductase subunit 6
Schistosoma japonicum Sjp_0057180   IPR003422,Ubiquinol-cytochrome C reductase hinge protein,domain-containing
Schistosoma mansoni Smp_059930   hypothetical protein
Schmidtea mediterranea mk4.001031.00  
Schmidtea mediterranea mk4.000656.00  
Trypanosoma brucei gambiense Tbg972.4.5170   ubiquinol-cytochrome c reductase, putative
Trypanosoma brucei Tb927.8.7430   ubiquinol-cytochrome c reductase, putative
Trypanosoma brucei Tb927.4.4990   ubiquinol-cytochrome c reductase, putative
Trypanosoma cruzi TcCLB.504575.15   ubiquinol-cytochrome-C-reductase, putative
Trypanosoma cruzi TcCLB.509011.54   ubiquinol-cytochrome c reductase, putative
Toxoplasma gondii TGME49_320140   ubiquinol-cytochrome c reductase hinge protein, putative
Theileria parva TP04_0347   ubiquinol-cytochrome C reductase hinge protein, putative

Essentiality

Tb927.4.4990 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.4990 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.4990 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.4990 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.4.4990 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T27E9.2 Caenorhabditis elegans slow growth wormbase
PBANKA_1017700 Plasmodium berghei Essential plasmo
TGME49_320140 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
  • 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
  • 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
  • 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
  • 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

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) 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 procyclic forms . 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
Species Known druggable target Linked compounds Reference
Plasmodium falciparum cytochrome b-c1 complex subunit 6, putative Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

No enough druggable targets predicted through repurposing network model to make a plot

Putative Drugs List

Compound Raw Global Species
0.00866388 0.383884 0.383884

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

7 literature references were collected for this gene.

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Gene identifier Tb927.4.4990 (Trypanosoma brucei), ubiquinol-cytochrome c reductase, putative
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