Detailed view for PBANKA_1329100

Basic information

TDR Targets ID: 828027
Plasmodium berghei, plasmepsin VIII
Source Database / ID: 

pI: 9.2806 | Length (AA): 373 | MW (Da): 42148 | 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

PF00026   Eukaryotic aspartyl protease

Gene Ontology

Mouse over links to read term descriptions.
GO:0004190   aspartic-type endopeptidase activity  
GO:0006508   proteolysis  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 5 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
12 372 1miq (A) 101 325 25.00 0 1 1.20413 -0.03
37 370 2g24 (A) 3 330 36.00 0 1 1.31904 -0.62
40 126 4od9 (A) 6 90 42.00 0.00000000011 0.68 0.566844 0.76
45 373 1tzs (A) 20 342 34.00 0 1 1.29364 -0.8
50 267 1b5f (A) 14 224 32.00 0 1 0.92305 0.13

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 Gametocyte, 22 hs Schizont, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile 4 hs Ring. Otto TD
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Ookinete, Female gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile 16 hs Trophozoite, Erthyrocytic stages. 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_150586)

Species Accession Gene Product
Drosophila melanogaster Dmel_CG10104   CG10104 gene product from transcript CG10104-RA
Neospora caninum NCLIV_003910   Cathepsin D enzyme (EC 3.4.23.5), related
Plasmodium berghei PBANKA_1329100   plasmepsin VIII
Plasmodium falciparum PF3D7_1465700   plasmepsin VIII, putative
Plasmodium knowlesi PKNH_1215800   plasmepsin VIII, putative
Plasmodium vivax PVX_117180   aspartyl proteinase, putative
Plasmodium yoelii PY02004   Eukaryotic aspartyl protease
Toxoplasma gondii TGME49_209620   eukaryotic aspartyl protease superfamily protein

Essentiality

PBANKA_1329100 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1329100 this record Plasmodium berghei Dispensable plasmo
TGME49_209620 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.

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
Penicillium janthinellum Penicillopepsin 323 aa 22.0% 354 aa Compounds References
Oryctolagus cuniculus Renin 280 aa 31.9% 298 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_1329100 (Plasmodium berghei), plasmepsin VIII
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