Detailed view for PF3D7_1003500

Basic information

TDR Targets ID: 1114
Plasmodium falciparum, 40S ribosomal protein S20e, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.2206 | Length (AA): 118 | MW (Da): 13513 | 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

PF00338   Ribosomal protein S10p/S20e

Gene Ontology

Mouse over links to read term descriptions.
GO:0022627   cytosolic small ribosomal subunit  
GO:0005840   ribosome  
GO:0005622   intracellular  
GO:0015935   small ribosomal subunit  
GO:0003735   structural constituent of ribosome  
GO:0006412   translation  

Metabolic Pathways

Ribosome (KEGG)

Structural information

Modbase 3D models:

There are 4 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
18 114 1fjg (J) 3 99 27.00 0 0.47 1.14 -0.31
18 115 2avy (J) 5 102 30.00 0 0.47 1.16 -0.12
15 118 4kzy (U) 16 119 66.00 0 1 1.64546 -0.34
17 81 3d3b (J) 4 71 31.00 0.018 0.52 0.984047 -1.19

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 - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 48 hs, sporozoite, early ring, late ring, Oocyst, Ring, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 40 hs, early trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile early schizont, late trophozoite. PlasmoDB
Show/Hide expression data references
  • 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.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • 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_126760)

Species Accession Gene Product
Arabidopsis thaliana AT3G45030   40S ribosomal protein S20-1
Arabidopsis thaliana AT3G47370   40S ribosomal protein S20-2
Arabidopsis thaliana AT3G13120   30S ribosomal protein S10
Arabidopsis thaliana AT5G62300   40S ribosomal protein S20-1
Babesia bovis BBOV_II004020   40S ribosomal protein S20
Brugia malayi Bm1_27585   40S ribosomal protein S20 (S22)
Candida albicans CaO19.13732   likely cytosolic ribosomal protein similar to S. cerevisiae RPS20 (YHL015W) small subunit protein S20
Candida albicans CaO19.6375   likely cytosolic ribosomal protein similar to S. cerevisiae RPS20 (YHL015W) small subunit protein S20
Caenorhabditis elegans CELE_Y105E8A.16   Protein RPS-20
Cryptosporidium hominis Chro.70566   ribosomal protein S20
Cryptosporidium parvum cgd7_5060   putative 40S ribosomal protein S20
Chlamydia trachomatis CT_436   30S ribosomal protein S10
Dictyostelium discoideum DDB_G0279855   ribosomal protein S10, mitochondrial
Dictyostelium discoideum DDB_G0278429   40S ribosomal protein S20
Drosophila melanogaster Dmel_CG15693   Ribosomal protein S20
Escherichia coli b3321   30S ribosomal subunit protein S10
Echinococcus granulosus EgrG_001166500   small subunit ribosomal protein s20e
Entamoeba histolytica EHI_026410   40S ribosomal protein S20, putative
Entamoeba histolytica EHI_140170   40S ribosomal protein S20, putative
Echinococcus multilocularis EmuJ_001166500   small subunit ribosomal protein s20e
Giardia lamblia GL50803_6022   Ribosomal protein S20
Homo sapiens 6224   ribosomal protein S20
Leishmania braziliensis LbrM.28.1100   ribosomal protein S20, putative
Leishmania braziliensis LbrM.28.1080   ribosomal protein S20, putative
Leishmania donovani LdBPK_281100.1   ribosomal protein S20, putative
Leishmania infantum LinJ.28.1120   ribosomal protein S20, putative
Leishmania major LmjF.28.1010   ribosomal protein S20, putative
Leishmania major LmjF.28.1030   ribosomal protein S20, putative
Leishmania mexicana LmxM.28.1010   ribosomal protein S20, putative
Leishmania mexicana LmxM.28.1011   ribosomal protein S20, putative
Loa Loa (eye worm) LOAG_02205   40S ribosomal protein S20
Mycobacterium leprae ML1864c   30S RIBOSOMAL PROTEIN S10 RPSJ (TRANSCRIPTION ANTITERMINATION FACTOR NUSE)
Mus musculus 67427   ribosomal protein S20
Mycobacterium tuberculosis Rv0700   30S ribosomal protein S10 RpsJ (transcription antitermination factor NusE)
Mycobacterium ulcerans MUL_0789   30S ribosomal protein S10
Neospora caninum NCLIV_006070   30S ribosomal protein S10P, related
Oryza sativa 4348185   Os10g0170200
Oryza sativa 4331942   Os03g0196800
Oryza sativa 4340027   Os06g0134000
Oryza sativa 4332257   Os03g0249400
Plasmodium berghei PBANKA_1201900   40S ribosomal protein S20e, putative
Plasmodium falciparum PF3D7_1003500   40S ribosomal protein S20e, putative
Plasmodium knowlesi PKNH_0802300   40S ribosomal protein S20e, putative
Plasmodium vivax PVX_094375   40S ribosomal protein S20e, putative
Plasmodium yoelii PY00943   ribosomal protein S10
Saccharomyces cerevisiae YHL015W   ribosomal 40S subunit protein S20
Schistosoma japonicum Sjp_0066500   ko:K02969 small subunit ribosomal protein S20e, putative
Schistosoma mansoni Smp_066990   40s ribosomal protein
Trypanosoma brucei Tb927.11.7675   ribosomal protein S10p/S20
Trypanosoma brucei Tb927.11.7685   ribosomal protein S10p/S20
Trypanosoma cruzi TcCLB.508475.10   ribosomal protein S20, putative
Trypanosoma cruzi TcCLB.508823.140   ribosomal protein S20, putative
Trypanosoma cruzi TcCLB.508823.120   ribosomal protein S20, putative
Toxoplasma gondii TGME49_223050   ribosomal protein RPS20
Treponema pallidum TP0188   30S ribosomal protein S10
Theileria parva TP04_0162   40S ribosomal protein S20, putative
Trichomonas vaginalis TVAG_110530   40S ribosomal protein S20, putative
Trichomonas vaginalis TVAG_178600   40S ribosomal protein S20, putative
Trichomonas vaginalis TVAG_482300   30S ribosomal protein S10p, putative
Trichomonas vaginalis TVAG_099980   30S ribosomal protein S10p, putative
Trichomonas vaginalis TVAG_086300   30S ribosomal protein S10p, putative
Wolbachia endosymbiont of Brugia malayi Wbm0342   30S ribosomal protein S10

Essentiality

PF3D7_1003500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b3321 Escherichia coli essential goodall
CELE_Y105E8A.16 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y105E8A.16 Caenorhabditis elegans larval arrest wormbase
CELE_Y105E8A.16 Caenorhabditis elegans larval lethal wormbase
CELE_Y105E8A.16 Caenorhabditis elegans slow growth wormbase
CELE_Y105E8A.16 Caenorhabditis elegans sterile wormbase
CELE_Y105E8A.16 Caenorhabditis elegans terminal arrest variable wormbase
YHL015W Saccharomyces cerevisiae inviable yeastgenome
TGME49_223050 Toxoplasma gondii Probably essential 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PF3D7_1003500 (Plasmodium falciparum), 40S ribosomal protein S20e, putative
Title for this comment
Comment