Detailed view for TGME49_206610

Basic information

TDR Targets ID: 259760
Toxoplasma gondii, pyruvate dehydrogenase complex subunit PDH-E2
Source Database / ID:  ToxoDB 

pI: 6.222 | Length (AA): 929 | MW (Da): 96880 | Paralog Number: 0

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

Druggability Group : DG5

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

PF00198   2-oxoacid dehydrogenases acyltransferase (catalytic domain)
PF00364   Biotin-requiring enzyme
PF02817   e3 binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016746   transferase activity, transferring acyl groups  
GO:0008415   acyltransferase activity  
GO:0005515   protein binding  
GO:0008152   metabolic process  

Structural information

Modbase 3D models:

There are 14 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
136 223 1y8o (B) 134 227 40.00 0.000000054 1 0.67 -0.99
242 314 1ghj () 3 75 37.00 0.0000028 1 0.63 -0.9
348 432 1y8o (B) 134 219 45.00 0.000000000025 1 0.76 -1.37
609 668 1w4i (A) 126 185 28.00 0.0000002 0.86 0.47 -0.48
611 651 1w85 (I) 128 168 24.00 0.000016 0.73 0.53 -1.89
665 931 1b5s (A) 184 425 24.00 0 1 0.55 -0.46
667 931 1eaf () 398 637 28.00 0 1 0.59 -0.82
263 337 2k7v (A) 23 84 47.00 0.066 0.34 0.186332 1.9
344 445 2dne (A) 5 107 37.00 0 1 0.569295 -0.31
370 420 1gjx (A) 25 75 35.00 0.097 0.64 0.363498 0.97
600 658 2coo (A) 4 62 29.00 0 0.78 0.508809 -1.09
677 929 1b5s (A) 196 425 26.00 0 1 0.481636 0.09
681 929 1dpb (A) 412 637 29.00 0 1 0.54733 -0.31
746 928 3rqc (A) 57 221 30.00 0.00000032 1 0.460586 -0.12

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 VEG Tachyzoite, ME49 merozoite. Gregory Hehl AB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile ME49 Tachyzoite, ME49 Bradyzoite. Gregory Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile ME49 Oocyst. Fritz HM
Show/Hide expression data references
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Gregory ToxoDB
  • Hehl AB Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within feline enterocytes.

Orthologs

Ortholog group members (OG5_134960)

Species Accession Gene Product
Arabidopsis thaliana AT3G25860   dihydrolipoamide S-acetyltransferase
Arabidopsis thaliana AT1G34430   protein embryo defective 3003
Neospora caninum NCLIV_044290   Pyruvate dehydrogenase E2 component, related
Oryza sativa 4345640   Os08g0431300
Oryza sativa 4347022   Os09g0408600
Oryza sativa 4351678   Os12g0182200
Plasmodium berghei PBANKA_0505000   dihydrolipoamide acyltransferase, putative
Plasmodium falciparum PF3D7_1020800   dihydrolipoamide acyltransferase component E2
Plasmodium knowlesi PKNH_0605000   dihydrolipoamide acetyltransferase, putative
Plasmodium yoelii PY04573   putative dihydrolipoamide S-acetyltransferase
Toxoplasma gondii TGME49_206610   pyruvate dehydrogenase complex subunit PDH-E2

Essentiality

TGME49_206610 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0505000 Plasmodium berghei Dispensable plasmo
TGME49_206610 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • 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
  • 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.
  • 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

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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
Non orthologous druggable targets
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

No literature references available for this target.

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 TGME49_206610 (Toxoplasma gondii), pyruvate dehydrogenase complex subunit PDH-E2
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