Detailed view for PF3D7_1142500

Basic information

TDR Targets ID: 1904
Plasmodium falciparum, 60S ribosomal protein L28
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.8923 | Length (AA): 127 | MW (Da): 14407 | 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

PF01778   Ribosomal L28e protein family

Gene Ontology

Mouse over links to read term descriptions.
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 is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
69 117 4rsi (B) 628 681 35.00 0.88 0.01 0.652027 -0.27

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 - 40 hs, intra-erythrocytic - 48 hs, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst, Ring, Sporozoite, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Male Gametocyte. Lasonder E
Show/Hide expression data references
  • 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.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_127995)

Species Accession Gene Product
Arabidopsis thaliana AT4G29410   60S ribosomal protein L28-2
Arabidopsis thaliana AT2G19730   60S ribosomal protein L28-1
Babesia bovis BBOV_III001950   conserved hypothetical protein
Brugia malayi Bm1_05715   60S ribosomal protein L28
Caenorhabditis elegans CELE_R11D1.8   Protein RPL-28
Cryptosporidium hominis Chro.40144   60S ribosomal protein L28
Cryptosporidium parvum cgd4_1230   60S ribosomal protein L28
Dictyostelium discoideum DDB_G0282379   hypothetical protein
Drosophila melanogaster Dmel_CG12740   Ribosomal protein L28
Echinococcus granulosus EgrG_000201600   60S ribosomal protein L28
Echinococcus multilocularis EmuJ_000201600   ribosomal protein L28
Homo sapiens ENSG00000108107   ribosomal protein L28
Leishmania braziliensis LbrM.11.0890   60S ribosomal protein L28, putative
Leishmania donovani LdBPK_111110.1   60S ribosomal protein L28, putative
Leishmania infantum LinJ.11.1130   60S ribosomal protein L28, putative
Leishmania infantum LinJ.11.1110   60S ribosomal protein L28, putative
Leishmania major LmjF.11.1130   60S ribosomal protein L28, putative
Leishmania major LmjF.11.1110   60S ribosomal protein L28, putative
Leishmania mexicana LmxM.11.1130   60S ribosomal protein L28, putative
Leishmania mexicana LmxM.11.1130partial  
Loa Loa (eye worm) LOAG_03016   hypothetical protein
Mus musculus ENSMUSG00000030432   ribosomal protein L28
Neospora caninum NCLIV_030170   hypothetical protein
Oryza sativa 4327674   Os01g0706500
Oryza sativa 4339475   Os05g0541900
Plasmodium berghei PBANKA_0906500   60S ribosomal protein L28, putative
Plasmodium falciparum PF3D7_1142500   60S ribosomal protein L28
Plasmodium knowlesi PKNH_0940300   60S ribosomal protein L28, putative
Plasmodium vivax PVX_092730   60S ribosomal protein L28, putative
Schistosoma japonicum Sjp_0208950   ko:K02903 large subunit ribosomal protein L28e, putative
Schistosoma mansoni Smp_084460   60S ribosomal protein L28
Schmidtea mediterranea mk4.000564.04   60S ribosomal protein L28
Trypanosoma brucei gambiense Tbg972.11.6970   hypothetical protein, conserved
Trypanosoma brucei gambiense Tbg972.11.6990   60S ribosomal protein L28, putative
Trypanosoma brucei Tb427tmp.02.4050   60S ribosomal protein L28, putative
Trypanosoma brucei Tb927.11.6200   60S ribosomal protein L28, putative
Trypanosoma cruzi TcCLB.510101.30   60S ribosomal protein L28, putative
Trypanosoma cruzi TcCLB.510101.40   60S ribosomal protein L28, putative
Trypanosoma cruzi TcCLB.506297.270   60S ribosomal protein L28, putative
Toxoplasma gondii TGME49_229250   ribosomal protein RPL28
Theileria parva TP03_0604   60S ribosomal protein L28, putative

Essentiality

PF3D7_1142500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.4050 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.02.4050 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.4050 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.4050 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_R11D1.8 Caenorhabditis elegans embryonic lethal wormbase
CELE_R11D1.8 Caenorhabditis elegans larval arrest wormbase
TGME49_229250 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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_1142500 (Plasmodium falciparum), 60S ribosomal protein L28
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