Detailed view for PBANKA_0714900

Basic information

TDR Targets ID: 825631
Plasmodium berghei, dihydrolipoyl dehydrogenase, apicoplast, putative
Source Database / ID: 

pI: 9.3914 | Length (AA): 685 | MW (Da): 77345 | Paralog Number: 0

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

Druggability Group : DG

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

PF02852   Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
PF07992   Pyridine nucleotide-disulphide oxidoreductase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016668   oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor  
GO:0050660   FAD binding  
GO:0016491   oxidoreductase activity  
GO:0055114   oxidation reduction  
GO:0045454   cell redox homeostasis  

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
106 674 4la1 (A) 93 580 29.00 0 1 0.888257 0.73
119 672 2eq6 (A) 10 453 36.00 0 1 0.900359 0.39
430 498 3f8d (A) 248 315 13.00 0.19 0.05 0.30223 -1.07

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
Lower 0-20% percentile Gametocyte, Ookinete, 4 hs Ring, 16 hs Trophozoite, 22 hs Schizont, Erthyrocytic stages, Female gametocyte, Male gametocyte. Otto TD Yeoh LM
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_135307)

Species Accession Gene Product
Arabidopsis thaliana AT4G16155   dihydrolipoyl dehydrogenase
Arabidopsis thaliana AT3G16950   lipoamide dehydrogenase 1
Neospora caninum NCLIV_070190   Dihydrolipoyl dehydrogenase (EC 1.8.1.4), related
Oryza sativa 4326849   Os01g0337900
Oryza sativa 4337862   Os05g0156700
Plasmodium berghei PBANKA_0714900   dihydrolipoyl dehydrogenase, apicoplast, putative
Plasmodium falciparum PF3D7_0815900   dihydrolipoyl dehydrogenase, apicoplast
Plasmodium knowlesi PKNH_0504500   dihydrolipoyl dehydrogenase, apicoplast, putative
Plasmodium vivax PVX_089610   dihydrolipoyl dehydrogenase, apicoplast, putative
Plasmodium yoelii PY00573   dihydrolipoamide dehydrogenase

Essentiality

PBANKA_0714900 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0714900 this record Plasmodium berghei Dispensable plasmo
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.

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
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Glutathione reductase 424 aa 22.1% 529 aa Compounds References
Rattus norvegicus Thioredoxin reductase 1, cytoplasmic 499 aa 22.3% 539 aa Compounds References
Plasmodium falciparum glutathione reductase 500 aa 21.8% 546 aa Compounds References
Leishmania major trypanothione reductase 491 aa 19.9% 569 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 550 aa 21.6% 574 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 510 aa 23.8% 563 aa Compounds References
Trypanosoma cruzi trypanothione reductase, putative 189 aa 22.3% 184 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 510 aa 23.8% 563 aa Compounds References
Crithidia fasciculata Trypanothione reductase 491 aa 21.9% 567 aa Compounds References
Plasmodium falciparum thioredoxin reductase 617 aa 22.1% 585 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 550 aa 21.4% 574 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 551 aa 21.4% 472 aa Compounds References
Trypanosoma cruzi trypanothione reductase, putative 492 aa 22.2% 571 aa Compounds References
Schistosoma mansoni Thioredoxin glutathione reductase 598 aa 25.3% 538 aa Compounds References
Rattus norvegicus Thioredoxin reductase 2, mitochondrial 526 aa 24.5% 568 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 551 aa 21.6% 472 aa Compounds References
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 PBANKA_0714900 (Plasmodium berghei), dihydrolipoyl dehydrogenase, apicoplast, putative
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