Detailed view for PF3D7_0319200

Basic information

TDR Targets ID: 3689
Plasmodium falciparum, endonuclease/exonuclease/phosphatase family protein, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.1068 | Length (AA): 906 | MW (Da): 108306 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

Druggability Group : DG3

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

PF03372   Endonuclease/Exonuclease/phosphatase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
149 376 4tql (A) 9 231 19.00 0.85 0.02 0.374256 -0.34
431 905 4zkf (A) 149 607 21.00 0 1 0.614883 0.16
560 906 3ngn (A) 189 538 27.00 0 1 0.462602 -0.03
846 899 4b8c (D) 766 820 39.00 0.45 0.14 -0.107797 0.98
144 329 4uos (A) 2 183 19.00 0.96 0.03 0.424525 -0.97
430 904 4zkf (A) 149 607 21.00 0 1 0.635862 -0.02
545 905 3ngn (A) 171 538 26.00 0 1 0.473895 0.04
845 898 4b8c (D) 766 820 39.00 0.28 0.14 -0.105331 0.98

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 - 8 hs, early ring, early trophozoite, late ring, late trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, gametocyte, merozoite, sporozoite, early schizont, late schizont, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Sporozoite. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Female Gametocyte, Male Gametocyte. Lasonder E
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • 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.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_129939)

Species Accession Gene Product
Babesia bovis BBOV_II004670   endonuclease/exonuclease/phosphatase family protein
Brugia malayi Bm1_46085   Endonuclease/Exonuclease/phosphatase family protein
Caenorhabditis elegans CELE_R17.2   Protein R17.2
Cryptosporidium hominis Chro.40208   C0850c
Cryptosporidium parvum cgd4_1850   Ccr4p. RNAse
Drosophila melanogaster Dmel_CG31759   CG31759 gene product from transcript CG31759-RD
Homo sapiens 201626   phosphodiesterase 12
Leishmania braziliensis LbrM.20.1720   hypothetical protein, conserved
Leishmania donovani LdBPK_341980.1   Endonuclease/Exonuclease/phosphatase family, putative
Leishmania infantum LinJ.34.1980   hypothetical protein, conserved
Leishmania major LmjF.34.2220   hypothetical protein, conserved
Leishmania mexicana LmxM.33.2220   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_07537   endonuclease/Exonuclease/phosphatase
Mus musculus 211948   phosphodiesterase 12
Neospora caninum NCLIV_018310   endonuclease/exonuclease/phosphatase domain- containing protein, putative
Plasmodium berghei PBANKA_0806100   endonuclease/exonuclease/phosphatase family protein, putative
Plasmodium falciparum PF3D7_0319200   endonuclease/exonuclease/phosphatase family protein, putative
Plasmodium knowlesi PKNH_0822000   endonuclease/exonuclease/phosphatase family protein, putative
Plasmodium vivax PVX_095275   endonuclease/exonuclease/phosphatase domain containing protein
Plasmodium yoelii PY00970   Endonuclease/Exonuclease/phosphatase family, putative
Schmidtea mediterranea mk4.003819.00  
Schmidtea mediterranea mk4.000861.00  
Schmidtea mediterranea mk4.000364.00  
Trypanosoma brucei gambiense Tbg972.4.2390   hypothetical protein, conserved
Trypanosoma brucei Tb927.4.2430   Endonuclease/Exonuclease/phosphatase family, putative
Trypanosoma congolense TcIL3000_4_2270   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506557.20   Endonuclease/Exonuclease/phosphatase family, putative
Trypanosoma cruzi TcCLB.506559.220   Endonuclease/Exonuclease/phosphatase family, putative
Toxoplasma gondii TGME49_243590   endonuclease/exonuclease/phosphatase family protein
Theileria parva TP02_0287   hypothetical protein, conserved

Essentiality

PF3D7_0319200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.2430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.2430 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2430 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0806100 Plasmodium berghei Dispensable plasmo
TGME49_243590 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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
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_0319200 (Plasmodium falciparum), endonuclease/exonuclease/phosphatase family protein, putative
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