Detailed view for PVX_092430

Basic information

TDR Targets ID: 269961
Plasmodium vivax, tudor staphylococcal nuclease, putative
Source Database / ID:  PlasmoDB 

pI: 9.0898 | Length (AA): 1068 | MW (Da): 121314 | Paralog Number: 0

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

Druggability Group : DG5

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

PF00565   Staphylococcal nuclease homologue
PF00567   Tudor domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0031047   gene silencing by RNA  
GO:0016442   RNA-induced silencing complex  
GO:0003676   nucleic acid binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 10 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
1 139 1tt2 (A) 7 141 16.00 0 1 0.17 -0.71
687 815 1tt2 (A) 10 141 18.00 0 0.98 0.33 -0.37
890 958 2d9t (A) 10 77 26.00 0 0.41 0.21 -0.19
890 944 2d9t (A) 10 65 27.00 0.00000025 0.69 0.48 -1.14
5 379 4qmg (A) 21 329 22.00 0.000011 1 0.225624 1.41
6 378 4qmg (A) 22 329 28.00 0 1 0.311251 0.87
250 375 5cv5 (B) 17 140 16.00 0.0000000043 0.72 0.103278 0.68
484 1049 3bdl (A) 352 860 23.00 0 1 0.540263 1.21
840 1060 2wac (A) 702 915 26.00 0.00078 1 0.440929 0.15
921 1058 3tme (A) 14 141 35.00 0.3 0.62 0.161213 1.09

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 intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intraerythrocytic - 30 hs, intraerythrocytic - 36 hs, intraerythrocytic - 40 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_128197)

Species Accession Gene Product
Arabidopsis thaliana AT5G07350   TUDOR-SN protein 1
Arabidopsis thaliana AT5G61780   TUDOR-SN protein 2
Brugia malayi Bm1_10800   protein F10G7.2
Candida albicans CaO19.7328   similar to Histoplasma capsulatum p100 protein expressed during infection of murine macrophages
Caenorhabditis elegans CELE_F10G7.2   Protein TSN-1
Dictyostelium discoideum DDB_G0279659   Staphylococcus nuclease domain-containing protein
Drosophila melanogaster Dmel_CG7008   CG7008 gene product from transcript CG7008-RB
Echinococcus granulosus EgrG_001073800   SNase domain containing protein
Echinococcus granulosus EgrG_001073700   SNase domain containing protein
Echinococcus granulosus EgrG_001074100   SNase domain containing protein
Entamoeba histolytica EHI_005150   hypothetical protein, conserved
Entamoeba histolytica EHI_101240   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_001073800   SNase domain containing protein
Echinococcus multilocularis EmuJ_001074300   SNase domain containing protein
Echinococcus multilocularis EmuJ_001073900   SNase domain containing protein
Echinococcus multilocularis EmuJ_001073700   SNase domain containing protein
Echinococcus multilocularis EmuJ_001074100   SNase domain containing protein
Giardia lamblia GL50803_16568   Transcription factor, putative
Homo sapiens ENSG00000197157   staphylococcal nuclease and tudor domain containing 1
Leishmania braziliensis LbrM.32.1040   hypothetical protein, conserved
Leishmania donovani LdBPK_321000.1   Staphylococcal nuclease homologue/Tudor domain containing protein, putative
Leishmania infantum LinJ.32.1000   hypothetical protein, conserved
Leishmania major LmjF.32.0950   hypothetical protein, conserved
Leishmania mexicana LmxM.31.0950   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_02162   hypothetical protein
Mus musculus ENSMUSG00000001424   staphylococcal nuclease and tudor domain containing 1
Neospora caninum NCLIV_015440   hypothetical protein
Oryza sativa 4329508   Os02g0523500
Oryza sativa 9269825   Os04g0402200
Plasmodium berghei PBANKA_0912300   tudor staphylococcal nuclease, putative
Plasmodium falciparum PF3D7_1136300   tudor staphylococcal nuclease
Plasmodium knowlesi PKNH_0934500   tudor staphylococcal nuclease, putative
Plasmodium vivax PVX_092430   tudor staphylococcal nuclease, putative
Plasmodium yoelii PY01228   Unknown protein
Schistosoma japonicum Sjp_0309640   Staphylococcal nuclease domain-containing protein 1, putative
Schistosoma japonicum Sjp_0048060   Staphylococcal nuclease domain-containing protein 1, putative
Schistosoma japonicum Sjp_0100020   Staphylococcal nuclease domain-containing protein 1, putative
Schistosoma japonicum Sjp_0306840   Staphylococcal nuclease domain-containing protein 1, putative
Schistosoma mansoni Smp_081570   ebna2 binding protein P100
Schistosoma mansoni Smp_166110   ebna2 binding protein P100
Schmidtea mediterranea mk4.001005.00  
Schmidtea mediterranea mk4.001005.01  
Trypanosoma brucei gambiense Tbg972.11.15860   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.14190   Staphylococcal nuclease homologue/Tudor domain containing protein, putative
Trypanosoma congolense TcIL3000.11.14500   Staphylococcal nuclease homologue/Tudor domain containing protein, putative
Trypanosoma cruzi TcCLB.511727.50   Staphylococcal nuclease homologue/Tudor domain containing protein, putative
Toxoplasma gondii TGME49_238050   nuclease and tudor domain-containing protein
Trichomonas vaginalis TVAG_083540   ebna2 binding protein P100, putative
Trichomonas vaginalis TVAG_458470   ebna2 binding protein P100, putative
Trichomonas vaginalis TVAG_109110   ebna2 binding protein P100, putative

Essentiality

PVX_092430 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.5780 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5780 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.5780 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb11.01.5780 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F10G7.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_F10G7.2 Caenorhabditis elegans slow growth wormbase
CELE_F10G7.2 Caenorhabditis elegans sterile wormbase
PBANKA_0912300 Plasmodium berghei Dispensable plasmo
TGME49_238050 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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
  • 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.
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.

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 PVX_092430 (Plasmodium vivax), tudor staphylococcal nuclease, putative
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