Detailed view for PBANKA_0405700

Basic information

TDR Targets ID: 824979
Plasmodium berghei, ATP-dependent Clp protease proteolytic subunit, putative
Source Database / ID: 

pI: 10.0513 | Length (AA): 330 | MW (Da): 38697 | 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

PF00574   Clp protease

Gene Ontology

Mouse over links to read term descriptions.
GO:0004252   serine-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 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
139 324 2f6i (A) 180 365 90.00 0 1 1.66144 -1.47

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 60-80% percentile Gametocyte, Ookinete, 22 hs Schizont, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 4 hs Ring, 16 hs Trophozoite, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Female gametocyte. 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_127187)

Species Accession Gene Product
Arabidopsis thaliana AT1G02560   ATP-dependent Clp protease proteolytic subunit 5
Arabidopsis thaliana AT5G23140   nuclear-encoded CLP protease P7
Arabidopsis thaliana AT5G45390   ATP-dependent Clp protease proteolytic subunit 4
Arabidopsis thaliana ArthCp048   ATP-dependent Clp protease proteolytic subunit
Arabidopsis thaliana AT1G66670   ATP-dependent Clp protease proteolytic subunit 3
Babesia bovis BBOV_II004070   ATP-dependent Clp protease proteolytic subunit 1, putative
Brugia malayi Bm1_47085   Probable ClpP-like protease
Chlamydia trachomatis CT_706   ATP-dependent Clp protease proteolytic subunit
Chlamydia trachomatis CT_431   ATP-dependent Clp protease proteolytic subunit
Drosophila melanogaster Dmel_CG5045   CG5045 gene product from transcript CG5045-RB
Escherichia coli b0437   proteolytic subunit of ClpA-ClpP and ClpX-ClpP ATP-dependent serine proteases
Echinococcus granulosus EgrG_000242300   peptidase Clp S14 family
Echinococcus granulosus EgrG_000242400   ATP dependent Clp protease proteolytic subunit
Echinococcus multilocularis EmuJ_000242300   peptidase Clp (S14 family)
Echinococcus multilocularis EmuJ_000242400   ATP dependent Clp protease proteolytic subunit
Homo sapiens ENSG00000125656   caseinolytic mitochondrial matrix peptidase proteolytic subunit
Loa Loa (eye worm) LOAG_07336   hypothetical protein
Mycobacterium leprae ML1479c   PROBABLE ATP-DEPENDENT CLP PROTEASE PROTEOLYTIC SUBUNIT 2 CLPP2 (ENDOPEPTIDASE CLP 2)
Mycobacterium leprae ML1480c   PROBABLE ATP-DEPENDENT CLP PROTEASE PROTEOLYTIC SUBUNIT 1 CLPP1 (ENDOPEPTIDASE CLP)
Mus musculus ENSMUSG00000002660   caseinolytic mitochondrial matrix peptidase proteolytic subunit
Mycobacterium tuberculosis Rv2461c   Probable ATP-dependent CLP protease proteolytic subunit 1 ClpP1 (endopeptidase CLP)
Mycobacterium tuberculosis Rv2460c   Probable ATP-dependent CLP protease proteolytic subunit 2 ClpP2 (endopeptidase CLP 2)
Mycobacterium ulcerans MUL_3730   ATP-dependent Clp protease proteolytic subunit
Mycobacterium ulcerans MUL_3731   ATP-dependent Clp protease proteolytic subunit
Neospora caninum NCLIV_011200   ATP-dependent Clp protease proteolytic subunit, related
Oryza sativa 4332615   Os03g0308100
Oryza sativa 4336449   Os04g0525600
Oryza sativa 4349523   Os10g0580800
Oryza sativa 4324049   Os01g0507900
Oryza sativa 4330071   Os02g0634500
Plasmodium berghei PBANKA_0405700   ATP-dependent Clp protease proteolytic subunit, putative
Plasmodium falciparum PF3D7_0307400   ATP-dependent Clp protease proteolytic subunit
Plasmodium knowlesi PKNH_0835300   ATP-dependent Clp protease proteolytic subunit, putative
Plasmodium vivax PVX_119490   ATP-dependent Clp protease proteolytic subunit, putative
Plasmodium yoelii PY06630   ATP-dependent Clp protease, proteolytic subunit ClpP, putative
Schistosoma japonicum Sjp_0303570   ko:K06275 parvin, putative
Schistosoma japonicum Sjp_0208340   ko:K01358 ATP-dependent Clp protease, protease subunit [EC3.4.21.92], putative
Schistosoma mansoni Smp_133200   peptidase Clp (S14 family)
Schmidtea mediterranea mk4.002864.03   Paralyzed arrest at two-fold protein 6
Schmidtea mediterranea mk4.057783.00   ATP-dependent Clp protease proteolytic subunit, mitochondrial
Schmidtea mediterranea mk4.004995.03   Paralyzed arrest at two-fold protein 6
Schmidtea mediterranea mk4.001098.02   ATP-dependent Clp protease proteolytic subunit 1, mitochondrial
Schmidtea mediterranea mk4.036851.01  
Toxoplasma gondii TGME49_203270   ATP-dependent Clp endopeptidase, proteolytic subunit ClpP domain-containing protein
Toxoplasma gondii TGME49_318320   ATP-dependent Clp endopeptidase, proteolytic subunit ClpP domain-containing protein
Treponema pallidum TP0507   ATP-dependent Clp protease proteolytic subunit
Theileria parva TP04_0168   ATP-dependent Clp protease proteolytic subunit, putative
Theileria parva TP01_1041   ATP-dependent Clp protease proteolytic subunit, putative
Wolbachia endosymbiont of Brugia malayi Wbm0553   ATP-dependent Clp protease proteolytic subunit

Essentiality

PBANKA_0405700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b0437 Escherichia coli non-essential goodall
TGME49_203270 Toxoplasma gondii Probably essential sidik
TGME49_318320 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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
Escherichia coli proteolytic subunit of ClpA-ClpP and ClpX-ClpP ATP-dependent serine proteases Compounds References
Staphylococcus aureus (strain NCTC 8325) ATP-dependent Clp protease proteolytic subunit Compounds References
Bacillus subtilis (strain 168) ATP-dependent Clp protease proteolytic subunit Compounds References
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 PBANKA_0405700 (Plasmodium berghei), ATP-dependent Clp protease proteolytic subunit, putative
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