Detailed view for PF3D7_1217900

Basic information

TDR Targets ID: 5222
Plasmodium falciparum, PPPDE peptidase domain-containing protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.2367 | Length (AA): 483 | MW (Da): 56090 | Paralog Number: 0

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

Druggability Group : DG1

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

PF05903   PPPDE putative peptidase domain

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

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
2 161 2wp7 (A) 4 160 36.00 0 1 0.564563 -0.39
176 279 1r26 (A) 5 105 10.00 0.0051 0.01 0.318921 -0.29
2 161 2wp7 (A) 4 160 37.00 0 0.99 0.598163 -0.59
176 279 1r26 (A) 5 105 10.00 0.0033 0.01 0.305521 -0.14

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 intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, gametocyte, sporozoite, early schizont, early trophozoite, late schizont, late trophozoite, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, merozoite, early ring, late ring, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_128951)

Species Accession Gene Product
Arabidopsis thaliana AT3G07090   PPPDE putative thiol peptidase family protein
Babesia bovis BBOV_II001800   hypothetical protein
Candida albicans CaO19.4046   similar to hypothetical protein
Candida albicans CaO19.11528   similar to hypothetical protein
Cryptosporidium hominis Chro.10148   hypothetical protein
Cryptosporidium parvum cgd1_1270   hypothetical protein with PUG domain fused to a UBA domain and a predicted protease at the N-terminus
Dictyostelium discoideum DDB_G0292886   hypothetical protein
Drosophila melanogaster Dmel_CG6972   CG6972 gene product from transcript CG6972-RA
Echinococcus granulosus EgrG_000438500   PPPDE peptidase domain containing protein 2
Echinococcus multilocularis EmuJ_000438500   PPPDE peptidase domain containing protein 2
Giardia lamblia GL50803_24425   Hypothetical protein
Homo sapiens ENSG00000100418   desumoylating isopeptidase 1
Mus musculus ENSMUSG00000022472   desumoylating isopeptidase 1
Neospora caninum NCLIV_055460   hypothetical protein, conserved
Oryza sativa 4348873   Os10g0472400
Oryza sativa 4331115   Os02g0814000
Plasmodium berghei PBANKA_1433500   PPPDE peptidase domain-containing protein, putative
Plasmodium falciparum PF3D7_1217900   PPPDE peptidase domain-containing protein, putative
Plasmodium knowlesi PKNH_1437500   PPPDE peptidase domain-containing protein, putative
Plasmodium vivax PVX_123570   hypothetical protein, conserved
Plasmodium yoelii PY04731   hypothetical protein
Schistosoma japonicum Sjp_0050860   IPR008580,Protein of unknown function DUF862, eukaryotic,domain-containing
Schistosoma mansoni Smp_063180   hypothetical protein
Toxoplasma gondii TGME49_311690   UBA/TS-N domain-containing protein

Essentiality

PF3D7_1217900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1433500 Plasmodium berghei Slow plasmo
TGME49_311690 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.

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

Druggability index (range: 0 to 1): 0.1

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
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 PF3D7_1217900 (Plasmodium falciparum), PPPDE peptidase domain-containing protein, putative
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