Detailed view for Tb927.8.6170

Basic information

TDR Targets ID: 20126
Trypanosoma brucei, transketolase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.7581 | Length (AA): 669 | MW (Da): 72610 | 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

PF00456   Transketolase, thiamine diphosphate binding domain
PF02779   Transketolase, pyrimidine binding domain
PF02780   Transketolase, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0004802   transketolase activity  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  
GO:0006098   pentose-phosphate shunt  

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
2 668 1gpu (A) 5 680 48.00 0 1 1.63791 -0.96
4 667 1r9j (A) 3 666 64.00 0 1 1.86343 -1.56
5 648 4c7v (A) 6 658 45.00 0 1 1.60683 -1.23

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_126720)

Species Accession Gene Product
Arabidopsis thaliana AT2G45290   transketolase
Arabidopsis thaliana AT3G60750   transketolase
Brugia malayi Bm1_10280   transketolase
Candida albicans CaO19.12578   transketolase 1
Candida albicans CaO19.5112   transketolase 1
Caenorhabditis elegans CELE_F01G10.1   Protein TKT-1
Chlamydia trachomatis CT_750   transketolase
Dictyostelium discoideum DDB_G0272618   hypothetical protein
Dictyostelium discoideum DDB_G0274019   hypothetical protein
Drosophila melanogaster Dmel_CG8036   CG8036 gene product from transcript CG8036-RB
Drosophila melanogaster Dmel_CG5103   CG5103 gene product from transcript CG5103-RA
Escherichia coli b2465   transketolase 2, thiamine triphosphate-binding
Escherichia coli b2935   transketolase 1, thiamine triphosphate-binding
Echinococcus granulosus EgrG_000103100   transketolase
Echinococcus granulosus EgrG_000103400   transketolase
Entamoeba histolytica EHI_011410   transketolase, putative
Entamoeba histolytica EHI_157770   transketolase, putative
Entamoeba histolytica EHI_002160   transketolase, putative
Entamoeba histolytica EHI_177870   transketolase, putative
Echinococcus multilocularis EmuJ_000103400   transketolase
Echinococcus multilocularis EmuJ_000103100   transketolase
Giardia lamblia GL50803_9704   Transketolase
Homo sapiens ENSG00000163931   transketolase
Homo sapiens ENSG00000151005   transketolase-like 2
Homo sapiens ENSG00000007350   transketolase-like 1
Leishmania braziliensis LbrM.24.2140   transketolase
Leishmania donovani LdBPK_242150.1   transketolase
Leishmania infantum LinJ.24.2150   transketolase
Leishmania major LmjF.24.2060   transketolase
Leishmania mexicana LmxM.24.2060   transketolase, putative
Loa Loa (eye worm) LOAG_01391   hypothetical protein
Mycobacterium leprae ML0583c   Probable transketolase Tkt (TK)
Mus musculus ENSMUSG00000031397   transketolase-like 1
Mus musculus ENSMUSG00000025519   transketolase-like 2
Mus musculus ENSMUSG00000021957   transketolase
Mycobacterium tuberculosis Rv1449c   Transketolase Tkt (TK)
Mycobacterium ulcerans MUL_1844   transketolase
Neospora caninum NCLIV_011210   Transketolase, related
Oryza sativa 4335330   Os04g0266900
Oryza sativa 4340025   Os06g0133800
Plasmodium berghei PBANKA_0109100   transketolase, putative
Plasmodium falciparum PF3D7_0610800   transketolase
Plasmodium knowlesi PKNH_1139600   transketolase, putative
Plasmodium vivax PVX_113675   transketolase, putative
Plasmodium yoelii PY03111   transketolase
Saccharomyces cerevisiae YPR074C   transketolase TKL1
Saccharomyces cerevisiae YBR117C   transketolase TKL2
Schistosoma japonicum Sjp_0211850   ko:K00615 transketolase [EC2.2.1.1], putative
Schistosoma mansoni Smp_059790.2   transketolase
Schistosoma mansoni Smp_059790.1   transketolase
Schmidtea mediterranea mk4.000601.01  
Schmidtea mediterranea mk4.000601.05  
Schmidtea mediterranea mk4.002944.03  
Schmidtea mediterranea mk4.000601.00  
Trypanosoma brucei gambiense Tbg972.8.6230   transketolase, putative
Trypanosoma brucei Tb927.8.6170   transketolase, putative
Trypanosoma congolense TcIL3000_8_6020   transketolase, putative
Trypanosoma cruzi TcCLB.511903.120   transketolase, putative
Trypanosoma cruzi TcCLB.511067.30   transketolase, putative
Toxoplasma gondii TGME49_318310   transketolase
Treponema pallidum TP0560   transketolase
Trichomonas vaginalis TVAG_038200   transketolase, putative
Trichomonas vaginalis TVAG_212020   transketolase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0664   transketolase

Essentiality

Tb927.8.6170 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.6170 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.6170 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.6170 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.6170 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b2465 Escherichia coli non-essential goodall
CELE_F01G10.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F01G10.1 Caenorhabditis elegans larval arrest wormbase
CELE_F01G10.1 Caenorhabditis elegans slow growth wormbase
CELE_F01G10.1 Caenorhabditis elegans sterile wormbase
PBANKA_0109100 Plasmodium berghei Essential plasmo
TGME49_318310 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) increased (PATO:0000470) 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: increased cell proliferation (significant gain 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) 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) 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 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 transketolase Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Haemophilus influenzae (strain 86-028NP) 1-deoxy-D-xylulose-5-phosphate synthase 625 aa 22.8% 518 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0061 0.6314 1
0.0061 0.6314 1
0.0035 0.6302 0.6302
0.0486 1 1
0.0451 0.501 1
0.0054 0.2543 0.5529
0.0042 0.6302 0.6302
0.0194 0.4072 1
0.0035 0.4707 0.6302
0.0451 0.501 1
0.0366351 0.346937 1
0.0032 0.3872 0.65
0.0052 0.553 0.553
0.0053 0.5529 0.5529
0.0035 0.6302 0.6302
0.0052 0.553 0.553
0.0486 1 1
0.0451 0.501 1
0.0036 0.6302 0.6302
0.0557 1 1
0.0035 0.3052 0.6302
0.0035 0.6302 0.6302
0.0032 0.4357 1
0.0056 0.5952 0.545
0.0053 0.2736 0.5531
0.0053 0.5509 0.5531
0.0061 0.6314 1
0.0035 0.6302 0.6302
0.0525 1 1
0.0035 0.6302 0.6302
0.0054 0.3152 0
0.014 1 1
0.0055 0.5529 0.5529

Assayability

Assay information

  • Assay for Transketolase (2.2.1.1 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

4 literature references were collected for this gene.

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

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Gene identifier Tb927.8.6170 (Trypanosoma brucei), transketolase, putative
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