Detailed view for PF3D7_1136300

Basic information

TDR Targets ID: 1843
Plasmodium falciparum, tudor staphylococcal nuclease
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.8968 | Length (AA): 1098 | MW (Da): 128546 | 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

PF00565   Staphylococcal nuclease homologue
PF00567   Tudor domain

Gene Ontology

Mouse over links to read term descriptions.
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 9 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 2sns () 7 141 18.00 0 1 0.19 -0.41
922 976 2d9t (A) 10 65 29.00 0.00000011 0.99 0.57 -1.52
227 1075 3s5m (A) 177 998 25.00 0.13 1 0.712924 1.7
378 590 4tql (A) 15 232 15.00 0.018 0.06 0.379889 -0.83
923 973 2d9t (A) 11 62 31.00 0.24 1 0.440348 -0.27
110 1069 3s5m (A) 61 998 23.00 0.06 1 0.838621 1.51
230 413 4uos (A) 1 183 18.00 0.24 0.12 0.356498 -0.78
720 950 2vk9 (A) 140 328 30.00 0.62 0.21 0.156038 1.27
909 966 2d9t (A) 3 61 29.00 0.24 0.87 0.442114 -0.54

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, Oocyst, Ring, Female Gametocyte. Otto TD Zanghi G Lasonder E
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, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Sporozoite. Zanghi G
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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

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

PF3D7_1136300 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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.

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Gene identifier PF3D7_1136300 (Plasmodium falciparum), tudor staphylococcal nuclease
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