Detailed view for PF3D7_0520600

Basic information

TDR Targets ID: 4238
Plasmodium falciparum, bis(5'-nucleosyl)-tetraphosphatase [asymmetrical]
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.6933 | Length (AA): 152 | MW (Da): 17750 | Paralog Number: 0

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

Druggability Group : DG2

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

PF00293   NUDIX domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008796   bis(5'-nucleosyl)-tetraphosphatase activity  
GO:0004081   bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity  
GO:0016787   hydrolase activity  

Metabolic Pathways

Purine metabolism (KEGG)
Pyrimidine metabolism (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
4 148 1xsa (A) 5 147 35.00 0 1 1.45 -0.82
6 150 1ktg (A) 2 137 38.00 0 1 1.44 -1.06
5 149 1ktg (A) 2 137 38.00 0 1 1.45955 -1.16
7 151 4ick (A) 4 146 35.00 0 1 1.46045 -1.42
37 68 3cng (A) 59 89 58.00 0.13 0.48 0.832626 -0.34

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:

PDB tag
  • 5CFI:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 5CFJ:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst, Male Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte, Sporozoite, Female Gametocyte. PlasmoDB Zanghi G Lasonder E
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_130658)

Species Accession Gene Product
Babesia bovis BBOV_II002850   chain A of Ap4a hydrolase protein, putative
Babesia bovis BBOV_II002910   chain A of Ap4 hydrolase, putative
Babesia bovis BBOV_II002610   chain A of Ap4a hydrolase protein, putative
Brugia malayi Bm1_25505   bis(5'-nucleosyl)-tetraphosphatase [Asymmetrical], putative
Caenorhabditis elegans CELE_Y37H9A.6   Protein NDX-4
Cryptosporidium parvum cgd3_1950   BIS(5-nucleosyl)-tetraphosphatase (diadenosine tetraphosphatase), putative
Chlamydia trachomatis CT_771   hydrolase/phosphatase
Drosophila melanogaster Dmel_CG31713   diadenosine tetraphosphate hydrolase
Homo sapiens ENSG00000164978   nudix (nucleoside diphosphate linked moiety X)-type motif 2
Loa Loa (eye worm) LOAG_12459   bis(5'-nucleosyl)-tetraphosphatase
Mus musculus ENSMUSG00000028443   nudix (nucleoside diphosphate linked moiety X)-type motif 2
Neospora caninum NCLIV_051830   hypothetical protein
Plasmodium berghei PBANKA_1235300   bis(5'-nucleosyl)-tetraphosphatase [asymmetrical], putative
Plasmodium falciparum PF3D7_0520600   bis(5'-nucleosyl)-tetraphosphatase [asymmetrical]
Plasmodium knowlesi PKNH_1012300   bis(5'-nucleosyl)-tetraphosphatase [asymmetrical], putative
Plasmodium vivax PVX_080215   bis(5'-nucleosyl)-tetraphosphatase [asymmetrical], putative
Plasmodium yoelii PY04487   NUDIX domain
Toxoplasma gondii TGME49_214780   hydrolase, NUDIX family protein
Theileria parva TP04_0303   Bis(5'-nucleosyl)-tetraphosphatase (Asymmetrical), putative
Trichomonas vaginalis TVAG_407160   conserved hypothetical protein

Essentiality

PF3D7_0520600 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
TGME49_214780 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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
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

  • Pfal008495AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pfal008495; Recombinant protein: full-length; Source: P falciparum; BIS(5'-nucleosyl)-tetraphosphatase (diadenosine tetraphosphatase), putative ;

Bibliographic References

No literature references available for this target.

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Gene identifier PF3D7_0520600 (Plasmodium falciparum), bis(5'-nucleosyl)-tetraphosphatase [asymmetrical]
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