Detailed view for PF3D7_1220500

Basic information

TDR Targets ID: 5249
Plasmodium falciparum, ribosome biogenesis protein TSR3, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.3156 | Length (AA): 318 | MW (Da): 37942 | 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

PF04034   Ribosome biogenesis protein, C-terminal
PF04068   Possible Fer4-like domain in RNase L inhibitor, RLI

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 2 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
2 133 1m1j (B) 89 222 5.00 0 0 0.323894 0.3
10 86 3hgf (A) 22 100 32.00 0.037 0.02 0.452538 -0.17

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 - 48 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 16 hs, Ring. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Oocyst, Female Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Sporozoite, Male Gametocyte. 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.
  • 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_127734)

Species Accession Gene Product
Arabidopsis thaliana AT5G10070   RNase L inhibitor protein-like protein
Babesia bovis BBOV_III005390   metal-binding domain in RNase L inhibitor, RLI family protein
Brugia malayi Bm1_36350   Possible metal-binding domain in RNase L inhibitor, RLI family protein
Candida albicans CaO19.5802   similar to S. cerevisiae YOR006C
Candida albicans CaO19.13224   similar to S. cerevisiae YOR006C
Caenorhabditis elegans CELE_F52C12.2   Protein F52C12.2
Cryptosporidium hominis Chro.80186   hypothetical protein
Cryptosporidium parvum cgd8_1580   saccharomyces Yor006cp like protein conserved across euks and archaea
Dictyostelium discoideum DDB_G0267822   hypothetical protein
Drosophila melanogaster Dmel_CG4338   CG4338 gene product from transcript CG4338-RA
Echinococcus granulosus EgrG_000379200   methyltransferase protein 6
Entamoeba histolytica EHI_100490   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_000379200   methyltransferase protein 6
Giardia lamblia GL50803_16463   RNase P RNA component
Homo sapiens ENSG00000007520   TSR3, 20S rRNA accumulation, homolog (S. cerevisiae)
Leishmania braziliensis LbrM.32.2170   hypothetical protein, conserved
Leishmania donovani LdBPK_322090.1   ribosome biogenesis protein TSR3, putative
Leishmania infantum LinJ.32.2090   hypothetical protein, conserved
Leishmania major LmjF.32.1970   hypothetical protein, conserved
Leishmania mexicana LmxM.31.1970   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_02552   hypothetical protein
Mus musculus ENSMUSG00000015126   TSR3 20S rRNA accumulation
Neospora caninum NCLIV_020710   hypothetical protein
Oryza sativa 4331931   Os03g0195200
Plasmodium berghei PBANKA_1435700   ribosome biogenesis protein TSR3, putative
Plasmodium falciparum PF3D7_1220500   ribosome biogenesis protein TSR3, putative
Plasmodium knowlesi PKNH_1439700   ribosome biogenesis protein TSR3, putative
Plasmodium vivax PVX_123665   ribosome biogenesis protein TSR3, putative
Plasmodium yoelii PY06626   hypothetical protein
Saccharomyces cerevisiae YOR006C   Tsr3p
Schistosoma japonicum Sjp_0100440   ko:K00599 methyltransferase like 6 [EC:2.1.1.-], putative
Schistosoma mansoni Smp_042650   hypothetical protein
Schmidtea mediterranea mk4.000723.11   Ribosome biogenesis protein TSR3 homolog
Trypanosoma brucei gambiense Tbg972.11.17050   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.15170   ribosome biogenesis protein TSR3, putative
Trypanosoma congolense TcIL3000.11.15340   ribosome biogenesis protein TSR3, putative
Trypanosoma cruzi TcCLB.503987.70   ribosome biogenesis protein TSR3, putative
Trypanosoma cruzi TcCLB.511713.40   ribosome biogenesis protein TSR3, putative
Toxoplasma gondii TGME49_204540   DUF367 domain-containing protein
Theileria parva TP02_0408   hypothetical protein
Trichomonas vaginalis TVAG_172490   conserved hypothetical protein

Essentiality

PF3D7_1220500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.6830 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.6830 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.6830 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.6830 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_204540 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
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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

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

  • Pviv009172AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Pviv009172; Recombinant protein: full-length; Source: P vivax; hypothetical protein homolog ; Identifier: Pv123665

Bibliographic References

No literature references available for this target.

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User comments

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Gene identifier PF3D7_1220500 (Plasmodium falciparum), ribosome biogenesis protein TSR3, putative
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