Detailed view for EmuJ_000956200

Basic information

TDR Targets ID: 962801
Echinococcus multilocularis, pyruvate dehydrogenase
Source Database / ID:  GeneDB

pI: 5.2555 | Length (AA): 359 | MW (Da): 38992 | Paralog Number: 0

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

Druggability Group : DG2

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

PF02779   Transketolase, pyrimidine binding domain
PF02780   Transketolase, C-terminal domain

Gene Ontology

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

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
31 357 2ozl (B) 2 328 66.00 0 1 1.76376 -1.01

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_127524)

Species Accession Gene Product
Arabidopsis thaliana AT2G34590   pyruvate dehydrogenase E1 component subunit beta
Arabidopsis thaliana AT5G50850   pyruvate dehydrogenase E1 beta
Arabidopsis thaliana AT1G30120   pyruvate dehydrogenase E1 beta
Brugia malayi Bm1_26945   pyruvate dehydrogenase E1 component beta subunit, putative
Brugia malayi Bm1_15220   pyruvate dehydrogenase E1 component beta subunit, mitochondrial
Candida albicans CaO19.12753   beta subunit of pyruvate dehydrogenase
Candida albicans CaO19.5294   beta subunit of pyruvate dehydrogenase
Caenorhabditis elegans CELE_C04C3.3   Protein PDHB-1
Chlamydia trachomatis CT_246   pyruvate dehydrogenase subunit beta
Dictyostelium discoideum DDB_G0276417   pyruvate dehydrogenase E1 beta subunit
Drosophila melanogaster Dmel_CG11876   CG11876 gene product from transcript CG11876-RA
Echinococcus granulosus EgrG_000956200   pyruvate dehydrogenase
Echinococcus multilocularis EmuJ_000956200   pyruvate dehydrogenase
Homo sapiens ENSG00000168291   pyruvate dehydrogenase (lipoamide) beta
Leishmania braziliensis LbrM.25.2280   pyruvate dehydrogenase E1 beta subunit, putative
Leishmania donovani LdBPK_251790.1   pyruvate dehydrogenase E1 beta subunit, putative
Leishmania infantum LinJ.25.1790   pyruvate dehydrogenase E1 beta subunit, putative
Leishmania major LmjF.25.1710   pyruvate dehydrogenase E1 beta subunit, putative
Leishmania mexicana LmxM.25.1710   pyruvate dehydrogenase E1 beta subunit, putative
Loa Loa (eye worm) LOAG_15350   pyruvate dehydrogenase
Loa Loa (eye worm) LOAG_13880   hypothetical protein
Loa Loa (eye worm) LOAG_01333   hypothetical protein
Mus musculus ENSMUSG00000021748   pyruvate dehydrogenase (lipoamide) beta
Neospora caninum NCLIV_034990   Transketolase, pyridine binding domain protein, related
Oryza sativa 4347531   Os09g0509200
Oryza sativa 4333564   Os03g0645100
Oryza sativa 4352803   Os12g0616900
Oryza sativa 4346159   Os08g0536000
Onchocerca volvulus OVOC5542  
Plasmodium berghei PBANKA_1310100   pyruvate dehydrogenase E1 component subunit beta, putative
Plasmodium falciparum PF3D7_1446400   pyruvate dehydrogenase E1 component subunit beta
Plasmodium knowlesi PKNH_1235800   pyruvate dehydrogenase E1 component subunit beta, putative
Plasmodium vivax PVX_118170   pyruvate dehydrogenase E1 component subunit beta, putative
Plasmodium yoelii PY07062   pyruvate dehydrogenase E1 beta subunit
Saccharomyces cerevisiae YBR221C   pyruvate dehydrogenase (acetyl-transferring) subunit E1 beta
Schistosoma japonicum Sjp_0206920   ko:K00162 pyruvate dehydrogenase E1 component, beta subunit [EC1.2.4.1B], putative
Schistosoma mansoni Smp_002510   pyruvate dehydrogenase (lipoamide)
Schmidtea mediterranea mk4.004193.00  
Schmidtea mediterranea mk4.000625.03   Pyruvate dehydrogenase E1 component subunit beta, mitochondrial
Schmidtea mediterranea mk4.053492.01   Pyruvate dehydrogenase E1 component subunit beta, mitochondrial
Trypanosoma brucei gambiense Tbg972.3.1650   pyruvate dehydrogenase E1 beta subunit, putative
Trypanosoma brucei Tb927.3.1790   pyruvate dehydrogenase E1 beta subunit, putative
Trypanosoma congolense TcIL3000_3_890   pyruvate dehydrogenase E1 beta subunit, putative
Trypanosoma cruzi TcCLB.510421.320   pyruvate dehydrogenase E1 beta subunit, putative
Trypanosoma cruzi TcCLB.510091.80   pyruvate dehydrogenase E1 beta subunit, putative
Toxoplasma gondii TGME49_272290   pyruvate dehydrogenase complex subunit PD-HE1Beta
Wolbachia endosymbiont of Brugia malayi Wbm0666   pyruvate dehydrogenase subunit beta

Essentiality

EmuJ_000956200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.1790 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.1790 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.1790 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.3.1790 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C04C3.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_C04C3.3 Caenorhabditis elegans slow growth wormbase
TGME49_272290 Toxoplasma gondii Essentiality uncertain 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

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
Species Known druggable target Linked compounds Reference
Vigna radiata var. radiata Pyruvate dehydrogenase complex Compounds References
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
0.027 0.4515 0.4515
0.0048 1 1
0.0076 0.9959 0.9959
0.027 0.4515 0.4515
0.0077 0.4479 1
0.0077 0.3028 1
0.0046 1 1
0.0075 1 1
0.0046 1 1
0.0075 1 1
0.0055 1 1
0.0076 1 1
0.0081 1 1
0.0076 0.4575 1
0.0078 0.3014 0
0.031 0.4555 0.4515
0.0078 1 1
0.0045 0.747 0.747
0.0046 0.4646 1
0.0292 0.3014 0
0.0045 1 1
0.0078 1 1
0.0046 1 1
0.0045 0.4842 0.4842
0.0046 1 1

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 EmuJ_000956200 (Echinococcus multilocularis), pyruvate dehydrogenase
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