Detailed view for PBANKA_1446900

Basic information

TDR Targets ID: 826912
Plasmodium berghei, dihydrolipoyl dehydrogenase, mitochondrial, putative
Source Database / ID: 

pI: 9.3494 | Length (AA): 516 | MW (Da): 57784 | Paralog Number: 0

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

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:0009055   electron carrier activity  
GO:0004148   dihydrolipoyl dehydrogenase activity  
GO:0055114   oxidation reduction  
GO:0045454   cell redox homeostasis  

Structural information

Modbase 3D models:

There are 4 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
21 515 1v59 (A) 1 477 36.00 0 1 1.3526 -0.06
23 64 3p1w (A) 2 43 26.00 0 0.05 0.380695 -0.69
23 516 1dxl (A) 4 470 40.00 0 1 1.38466 -0.2
26 510 3urh (A) 3 462 39.00 0 1 1.42632 -0.54

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 16 hs Trophozoite, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Gametocyte, 22 hs Schizont, Female gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 4 hs Ring, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Ookinete. Otto TD
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_126968)

Species Accession Gene Product
Arabidopsis thaliana AT1G48030   dihydrolipoyl dehydrogenase 1
Arabidopsis thaliana AT3G17240   dihydrolipoyl dehydrogenase 2
Babesia bovis BBOV_IV007190   dihydrolipoamide dehydrogenase, putative
Brugia malayi Bm1_26290   dihydrolipoyl dehydrogenase, mitochondrial precursor, putative
Candida albicans CaO19.13546   similar to S. cerevisiae LPD1 (YFL018C) dihydrolipoamide dehydrogenase component of 3 multi-enzyme complexes of the mitochondria
Candida albicans CaO19.6127   similar to S. cerevisiae LPD1 (YFL018C) dihydrolipoamide dehydrogenase component of 3 multi-enzyme complexes of the mitochondria
Caenorhabditis elegans CELE_LLC1.3   Protein DLD-1, isoform B
Chlamydia trachomatis CT_557   dihydrolipoyl dehydrogenase
Dictyostelium discoideum DDB_G0291648   dihydrolipoamide dehydrogenase
Drosophila melanogaster Dmel_CG7430   CG7430 gene product from transcript CG7430-RA
Escherichia coli b0116   lipoamide dehydrogenase, E3 component is part of three enzyme complexes
Echinococcus granulosus EgrG_000870200   dihydrolipoamide dehydrogenase
Echinococcus multilocularis EmuJ_000870200   dihydrolipoamide dehydrogenase
Homo sapiens ENSG00000091140   dihydrolipoamide dehydrogenase
Leishmania braziliensis LbrM.32.3600   dihydrolipoamide dehydrogenase, putative
Leishmania donovani LdBPK_323510.1   dihydrolipoamide dehydrogenase, putative
Leishmania infantum LinJ.32.3510   dihydrolipoamide dehydrogenase, putative
Leishmania major LmjF.32.3310   dihydrolipoamide dehydrogenase, putative
Leishmania mexicana LmxM.31.3310   dihydrolipoamide dehydrogenase, putative
Mycobacterium leprae ML2387   DIHYDROLIPOAMIDE DEHYDROGENASE LPD (LIPOAMIDE REDUCTASE (NADH)) (LIPOYL DEHYDROGENASE) (DIHYDROLIPOYL DEHYDROGENASE) (DIAPHORASE
Mus musculus ENSMUSG00000020664   dihydrolipoamide dehydrogenase
Mycobacterium tuberculosis Rv0462   Dihydrolipoamide dehydrogenase LpdC (lipoamide reductase (NADH)) (lipoyl dehydrogenase) (dihydrolipoyl dehydrogenase) (diaphoras
Mycobacterium ulcerans MUL_2214   dihydrolipoamide dehydrogenase
Neospora caninum NCLIV_044200   hypothetical protein
Oryza sativa 4326980   Os01g0328700
Plasmodium berghei PBANKA_1446900   dihydrolipoyl dehydrogenase, mitochondrial, putative
Plasmodium falciparum PF3D7_1232200   dihydrolipoyl dehydrogenase, mitochondrial
Plasmodium knowlesi PKNH_1451700   dihydrolipoyl dehydrogenase, mitochondrial, putative
Plasmodium vivax PVX_100555   dihydrolipoyl dehydrogenase, mitochondrial, putative
Plasmodium yoelii PY04793   dihydrolipoamide dehydrogenase
Saccharomyces cerevisiae YFL018C   dihydrolipoyl dehydrogenase
Schistosoma japonicum Sjp_0205700   ko:K00382 dihydrolipoamide dehydrogenase [EC1.8.1.4], putative
Schistosoma mansoni Smp_046740   dihydrolipoamide dehydrogenase
Schmidtea mediterranea mk4.007520.01   Dihydrolipoyl dehydrogenase, mitochondrial
Schmidtea mediterranea mk4.017144.00  
Schmidtea mediterranea mk4.015096.00   Dihydrolipoyl dehydrogenase, mitochondrial
Trypanosoma brucei gambiense Tbg972.11.18870   dihydrolipoyl dehydrogenase
Trypanosoma brucei Tb927.11.16730   dihydrolipoyl dehydrogenase
Trypanosoma congolense TcIL3000.11.16620   dihydrolipoyl dehydrogenase
Trypanosoma cruzi TcCLB.511025.110   dihydrolipoyl dehydrogenase, putative
Trypanosoma cruzi TcCLB.507089.270   dihydrolipoyl dehydrogenase, putative
Toxoplasma gondii TGME49_206470   pyruvate dehydrogenase complex subunit PDH-E3II
Theileria parva TP03_0227   dihydrolipoamide dehydrogenase, putative
Trichomonas vaginalis TVAG_379130   mercuric reductase, putative
Trichomonas vaginalis TVAG_272760   glutathione reductase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0561   dihydrolipoamide dehydrogenase E3 component
Wolbachia endosymbiont of Brugia malayi Wbm0559   dihydrolipoamide dehydrogenase E3 component

Essentiality

PBANKA_1446900 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.8470 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.8470 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.8470 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.8470 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b0116 Escherichia coli essential goodall
CELE_LLC1.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_LLC1.3 Caenorhabditis elegans larval arrest wormbase
CELE_LLC1.3 Caenorhabditis elegans slow growth wormbase
CELE_LLC1.3 Caenorhabditis elegans sterile wormbase
PBANKA_1446900 this record Plasmodium berghei Slow plasmo
TGME49_206470 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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

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
Mycobacterium tuberculosis Dihydrolipoamide dehydrogenase LpdC (lipoamide reductase (NADH)) (lipoyl dehydrogenase) (dihydrolipoyl dehydrogenase) (diaphoras Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Glutathione reductase 424 aa 23.0% 456 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 510 aa 29.0% 496 aa Compounds References
Trypanosoma cruzi dihydrolipoamide dehydrogenase, putative 510 aa 28.7% 495 aa Compounds References
Trypanosoma cruzi trypanothione reductase, putative 189 aa 24.9% 181 aa Compounds References
Trypanosoma cruzi trypanothione reductase, putative 492 aa 23.0% 514 aa Compounds References
Leishmania major trypanothione reductase 491 aa 22.7% 503 aa Compounds References
Rattus norvegicus Thioredoxin reductase 1, cytoplasmic 499 aa 26.9% 465 aa Compounds References
Crithidia fasciculata Trypanothione reductase 491 aa 23.9% 506 aa Compounds References
Plasmodium falciparum glutathione reductase 500 aa 26.5% 525 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.

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Gene identifier PBANKA_1446900 (Plasmodium berghei), dihydrolipoyl dehydrogenase, mitochondrial, putative
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