Detailed view for PBANKA_0110400

Basic information

TDR Targets ID: 825827
Plasmodium berghei, eukaryotic translation initiation factor 3 subunit L, putative
Source Database / ID: 

pI: 8.0609 | Length (AA): 568 | MW (Da): 67670 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 2

Druggability Group : DG

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

PF10255   RNA polymerase I-associated factor PAF67

Gene Ontology

Mouse over links to read term descriptions.
GO:0005852   eukaryotic translation initiation factor 3 complex  
GO:0005737   cytoplasm  
GO:0005515   protein binding  
GO:0003743   translation initiation factor activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
11 552 5me3 (A) 747 1314 9.00 0 0.99 0.979225 0.24
39 458 3vld (A) 27 430 14.00 0 0.7 0.646437 0.67
213 530 4zkt (B) 840 1127 29.00 0.15 0.38 0.485459 1.65

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 Ookinete, 4 hs Ring, 16 hs Trophozoite. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Erthyrocytic stages. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Gametocyte, 22 hs Schizont, Female gametocyte, Male gametocyte. Otto TD Yeoh LM
Show/Hide expression data references
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.

Orthologs

Ortholog group members (OG5_128650)

Species Accession Gene Product
Arabidopsis thaliana AT5G25757   RNA polymerase I-associated factor PAF67
Arabidopsis thaliana AT5G25754   RNA polymerase I-associated factor PAF67
Babesia bovis BBOV_III003720   conserved hypothetical protein
Brugia malayi Bm1_25770   hypothetical protein
Cryptosporidium hominis Chro.20128   RE21692p
Cryptosporidium parvum cgd2_1160   HSPC021/HSPC025 family protein
Dictyostelium discoideum DDB_G0272076   eukaryotic translation initiation factor 3 subunit 6 interacting protein
Drosophila melanogaster Dmel_CG5642   CG5642 gene product from transcript CG5642-RA
Echinococcus granulosus EgrG_001123900   eukaryotic translation initiation factor 3
Echinococcus multilocularis EmuJ_001123900   eukaryotic translation initiation factor 3
Homo sapiens ENSG00000100129   eukaryotic translation initiation factor 3, subunit L
Leishmania braziliensis LbrM.35.0330   EIF3-interacting protein-like protein
Leishmania donovani LdBPK_360270.1   eukaryotic translation initiation factor 3 subunit l
Leishmania infantum LinJ.36.0270   EIF3-interacting protein-like protein
Leishmania major LmjF.36.0250   EIF3-interacting protein-like protein
Leishmania mexicana LmxM.36.0250   EIF3-interacting protein-like protein
Loa Loa (eye worm) LOAG_00600   eukaryotic translation initiation factor 3 subunit L
Mus musculus ENSMUSG00000033047   eukaryotic translation initiation factor 3, subunit L
Neospora caninum NCLIV_034190   eukaryotic translation initiation factor 3 subunit 6 interacting protein, putative
Oryza sativa 4338152   Os05g0227700
Oryza sativa 4327193   Os01g0229100
Onchocerca volvulus OVOC10237  
Plasmodium berghei PBANKA_0110400   eukaryotic translation initiation factor 3 subunit L, putative
Plasmodium falciparum PF3D7_0612100   eukaryotic translation initiation factor 3 subunit L, putative
Plasmodium knowlesi PKNH_1137900   eukaryotic translation initiation factor 3 subunit L, putative
Plasmodium vivax PVX_113750   eukaryotic translation initiation factor 3 subunit 6 interacting protein, putative
Plasmodium yoelii PY06519   Drosophila melanogaster RE21692p, putative
Schistosoma japonicum Sjp_0056020   Eukaryotic translation initiation factor 3 subunit E-interacting protein, putative
Schistosoma mansoni Smp_064530   hypothetical protein
Schmidtea mediterranea mk4.002504.00   Eukaryotic translation initiation factor 3 subunit L
Trypanosoma brucei gambiense Tbg972.10.5660   EIF3-interacting protein, putative
Trypanosoma brucei Tb927.10.4640   eukaryotic translation initiation factor 3 subunit l
Trypanosoma congolense TcIL3000_10_3850   eukaryotic translation initiation factor 3 subunit l
Trypanosoma cruzi TcCLB.508169.90   eukaryotic translation initiation factor 3 subunit l
Trypanosoma cruzi TcCLB.506581.30   eukaryotic translation initiation factor 3 subunit l
Toxoplasma gondii TGME49_273460   eukaryotic translation initiation factor 3 subunit 6 interacting protein
Theileria parva TP02_0247   hypothetical protein, conserved

Essentiality

PBANKA_0110400 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.4640 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.4640 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.4640 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.4640 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0110400 this record Plasmodium berghei Slow plasmo
TGME49_273460 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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

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

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Gene identifier PBANKA_0110400 (Plasmodium berghei), eukaryotic translation initiation factor 3 subunit L, putative
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