Detailed view for Tb927.10.12240

Basic information

TDR Targets ID: 12773
Trypanosoma brucei, 3-ketoacyl-CoA reductase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.432 | Length (AA): 327 | MW (Da): 36076 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 1

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

PF00106   short chain dehydrogenase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016491   oxidoreductase activity  
GO:0005488   binding  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 6 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
41 73 3lf2 (A) 3 31 52.00 0 0.68 0.459817 0.36
43 281 5fyd (A) 2 235 26.00 0 1 1.12739 -0.78
44 293 3t4x (A) 1 260 24.00 0 1 1.00403 -0.21
45 283 3awd (A) 5 248 19.00 0 1 1.07139 -0.92
46 316 1hdc (A) 2 252 21.00 0 0.96 0.981246 0.32
53 238 3gaf (A) 14 195 24.00 0.00047 1 0.931307 -0.79

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_132068)

Species Accession Gene Product
Dictyostelium discoideum DDB_G0293034   hypothetical protein
Dictyostelium discoideum DDB_G0286197   hypothetical protein
Drosophila melanogaster Dmel_CG6012   CG6012 gene product from transcript CG6012-RA
Entamoeba histolytica EHI_118210   estradiol 17-beta-dehydrogenase, putative
Leishmania braziliensis LbrM.33.1860   hypothetical protein, conserved
Leishmania donovani LdBPK_331690.1   3-ketoacyl-CoA reductase, putative
Leishmania infantum LinJ.33.1690   hypothetical protein, conserved
Leishmania major LmjF.33.1590   hypothetical protein, conserved
Leishmania mexicana LmxM.32.1590   hypothetical protein, conserved
Oryza sativa 4350399   Os11g0432600
Trypanosoma brucei gambiense Tbg972.10.14760   short-chain dehydrogenase, putative
Trypanosoma brucei Tb927.10.12240   3-ketoacyl-CoA reductase, putative
Trypanosoma congolense TcIL3000_10_10470   3-ketoacyl-CoA reductase, putative
Trypanosoma cruzi TcCLB.509213.100   3-ketoacyl-CoA reductase, putative
Trypanosoma cruzi TcCLB.510257.60   3-ketoacyl-CoA reductase, putative
Trichomonas vaginalis TVAG_041000   short-chain dehydrogenase, putative
Trichomonas vaginalis TVAG_174570   steroid dehydrogenase, putative
Trichomonas vaginalis TVAG_429960   estradiol 17 beta-dehydrogenase, putative

Essentiality

Tb927.10.12240 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.12240 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.12240 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.12240 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.12240 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.

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) 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): 0.4

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0408 0.5144 1
0.0171 0.4063 0.5
0.0073 0.4546 1
0.0045 1 1
0.0039 1 1
0.0032 1 1
0.0009 0.5 0.5
0.0004 0.5 0.5
0.0068 1 1
0.0058 1 1
0.0004 0.5 0.5
0.0106 1 1
0.0027 0.5 0.5
0.0004 0.5 0.5
0.0408 0.5144 1
0.0053 1 1
0.007 1 1
0.0114 1 0.5
0.0093 0.5 0.5
0.0021 0.3321 0.5
0.0026 0.5 0.5
0.0076 1 1
0.004 0.5 0.5
0.0064 0.3508 0.5
0.0087 0.5 0.5
0.0009 0.5 0.5
0.0009 0.5 0.5
0.0009 0.5 0.5
0.0408 0.5144 1
0.0071 0.3141 0.5
0.0157 0.5 0.5
0.0067 0.3468 1
0.0066 0.3586 0.5
0.011 0.3568 1
0.0005 0.5 0.5
0.0068 0.2585 0.5
0.0084 0.4283 0.4283
0.0013 0.5 0.5
0.0053 1 1
0.0085 1 1
0.0089 0.5 0.5
0.007 0.2916 1
0.0058 0.3931 1
0.016 0.577 1
0.0222 0.5 0.5
0.008 0.5 0.5
0.007 1 1
0.0196 0.8679 1
0.0113 1 1
0.0088 1 1
0.0005 0.5 0.5
0.0106 0.5 0.5
0.0009 1 0.5
0.0123 0.5 0.5
0.0106 1 0.5
0.0196 0.8679 1
0.0004 0.5 0.5
0.0004 0.5 0.5
0.0106 0.2872 1
0.0004 0.5 0.5
0.0019 0.4322 1
0.0068 1 1
0.0089 0.5 0.5
0.0131 0.5 0.5
0.0402 1 1
0.0016 0.5 0.5
0.0013 1 0.5
0.0009 0.7374 0.5
0.0119 0.2746 1
0.0196 0.8679 1
0.0046 0.3082 0
0.0021 0.3321 0.5
0.0171 0.4063 0.5
0.0004 0.5 0.5
0.0073 0.3811 1
0.0009 0.5 0.5
0.016 0.577 1
0.0162 1 1
0.0108 0.5 0.5
0.0073 0.3811 1
0.0009 0.5 0.5
0.0012 0.5 0.5
0.0056 1 1
0.0056 0.875 1
0.0082 1 0.5
0.0057 0.284 0.6352
0.007 0.2916 1
0.0097 0.4304 1
0.007 0.2916 1
0.007 1 1
0.0165 1 1
0.0218 0.5 0.5
0.0118 1 1
0.0012 0.5 0.5
0.0009 0.5 0.5
0.0009 0.5 0.5
0.0114 1 0.5
0.0035 1 1
0.0097 1 1
0.0073 0.2873 1
0.0021 0.5 0.5
0.0027 0.5 0.5
0.0073 0.3141 1
0.0132 0.3658 1
0.0088 0.6544 1
0.0102 0.7451 0.5

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 Tb927.10.12240 (Trypanosoma brucei), 3-ketoacyl-CoA reductase, putative
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