Detailed view for PF3D7_0813900

Basic information

TDR Targets ID: 1009
Plasmodium falciparum, 40S ribosomal protein S16, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.8811 | Length (AA): 144 | MW (Da): 16285 | 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

PF00380   Ribosomal protein S9/S16

Gene Ontology

Mouse over links to read term descriptions.
GO:0022627   cytosolic small ribosomal subunit  
GO:0005840   ribosome  
GO:0005622   intracellular  
GO:0003735   structural constituent of ribosome  
GO:0006412   translation  

Metabolic Pathways

Ribosome (KEGG)

Structural information

Modbase 3D models:

There are 3 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
6 144 1fjg (I) 2 128 31.00 0 0.98 1.22 0.34
7 144 2avy (I) 4 129 34.00 0 0.96 1.26 0.17
4 144 4kzy (Q) 6 146 61.00 0 1 1.70767 -0.26

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
  • 3JBN:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3JBO:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3JBP:
  • 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, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late trophozoite, Oocyst, Ring, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile gametocyte, late schizont, Sporozoite. PlasmoDB Zanghi G
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_126930)

Species Accession Gene Product
Arabidopsis thaliana AT2G09990   40S ribosomal protein S16-1
Arabidopsis thaliana AT3G04230   40S ribosomal protein S16-2
Arabidopsis thaliana AT5G18380   40S ribosomal protein S16-3
Babesia bovis BBOV_IV005360   ribosomal protein S16, putative
Brugia malayi Bm1_14095   40S ribosomal protein S16
Caenorhabditis elegans CELE_T01C3.6   Protein RPS-16
Cryptosporidium hominis Chro.20313   40S ribosomal protein S16
Cryptosporidium parvum cgd2_3000   40S ribosomal protein S16
Dictyostelium discoideum DDB_G0284093   40S ribosomal protein S16
Drosophila melanogaster Dmel_CG4046   Ribosomal protein S16
Echinococcus granulosus EgrG_000821300   40S ribosomal protein S16
Entamoeba histolytica EHI_008010   40S ribosomal protein S16, putative
Entamoeba histolytica EHI_131190   40S ribosomal protein S16, putative
Entamoeba histolytica EHI_160990   40S ribosomal protein S16, putative
Entamoeba histolytica EHI_038620   40S ribosomal protein S16, putative
Echinococcus multilocularis EmuJ_000821300   40S ribosomal protein S16
Giardia lamblia GL50803_4652   Ribosomal protein S16
Homo sapiens ENSG00000105193   ribosomal protein S16
Leishmania braziliensis LbrM.26.0890   40S ribosomal protein S16, putative
Leishmania braziliensis LbrM.26.0900   40S ribosomal protein S16, putative
Leishmania donovani LdBPK_260840.1   40S ribosomal protein S16, putative
Leishmania infantum LinJ.26.0850   40S ribosomal protein S16, putative
Leishmania infantum LinJ.26.0840   40S ribosomal protein S16, putative
Leishmania major LmjF.26.0890   40S ribosomal protein S16, putative
Leishmania major LmjF.26.0880   40S ribosomal protein S16, putative
Leishmania mexicana LmxM.26.0880   40S ribosomal protein S16, putative
Leishmania mexicana LmxM.26.0890   40S ribosomal protein S16, putative
Loa Loa (eye worm) LOAG_11689   40S ribosomal protein S16
Mus musculus ENSMUSG00000037563   ribosomal protein S16
Mus musculus 100862433   40S ribosomal protein S16-like
Neospora caninum NCLIV_024880   30S ribosomal protein S9P, related
Oryza sativa 4351374   Os12g0124200
Oryza sativa 4349653   Os11g0127900
Plasmodium berghei PBANKA_1423600   40S ribosomal protein S16, putative
Plasmodium falciparum PF3D7_0813900   40S ribosomal protein S16, putative
Plasmodium knowlesi PKNH_1426400   40S ribosomal protein S16, putative
Plasmodium vivax PVX_123075   40S ribosomal protein S16, putative
Plasmodium yoelii PY06464   ribosomal protein S9
Saccharomyces cerevisiae YDL083C   ribosomal 40S subunit protein S16B
Saccharomyces cerevisiae YMR143W   ribosomal 40S subunit protein S16A
Schistosoma japonicum Sjp_0035120   ko:K02960 small subunit ribosomal protein S16e, putative
Schistosoma mansoni Smp_119920   ribosomal protein S9
Schmidtea mediterranea mk4.006836.02   40S ribosomal protein S16
Schmidtea mediterranea mk4.008780.02   40S ribosomal protein S16
Trypanosoma brucei gambiense Tbg972.7.1000   40S ribosomal protein S16, putative
Trypanosoma brucei gambiense Tbg972.7.990   40S ribosomal protein S16, putative
Trypanosoma brucei Tb927.7.1040   40S ribosomal protein S16, putative
Trypanosoma brucei Tb927.7.1050   40S ribosomal protein S16, putative
Trypanosoma congolense TcIL3000_7_750   40S ribosomal protein S16, putative
Trypanosoma cruzi TcCLB.503899.30   40S ribosomal protein S16, putative
Trypanosoma cruzi TcCLB.507513.60   40S ribosomal protein S16, putative
Trypanosoma cruzi TcCLB.503899.20   40S ribosomal protein S16, putative
Trypanosoma cruzi TcCLB.507513.70   40S ribosomal protein S16, putative
Toxoplasma gondii TGME49_263040   ribosomal protein RPS16
Theileria parva TP01_0200   40S ribosomal protein S16, putative
Trichomonas vaginalis TVAG_036300   ribosomal protein S9, putative
Trichomonas vaginalis TVAG_094760   ribosomal protein S9, putative
Trichomonas vaginalis TVAG_036220   ribosomal protein S9, putative
Trichomonas vaginalis TVAG_020040   ribosomal protein S9, putative
Trichomonas vaginalis TVAG_156650   ribosomal protein S9, putative
Trichomonas vaginalis TVAG_177920   ribosomal protein S9, putative
Trichomonas vaginalis TVAG_182810   ribosomal protein S9, putative

Essentiality

PF3D7_0813900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.1040 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.1040 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.1040 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.7.1040 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T01C3.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_T01C3.6 Caenorhabditis elegans larval arrest wormbase
CELE_T01C3.6 Caenorhabditis elegans sterile wormbase
PBANKA_1423600 Plasmodium berghei Essential plasmo
TGME49_263040 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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
  • 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
  • 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.

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_0813900 (Plasmodium falciparum), 40S ribosomal protein S16, putative
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