Detailed view for PBANKA_0605300

Basic information

TDR Targets ID: 825708
Plasmodium berghei, eukaryotic translation initiation factor 5, putative
Source Database / ID: 

pI: 5.5349 | Length (AA): 515 | MW (Da): 58939 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

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

PF01873   Domain found in IF2B/IF5
PF02020   eIF4-gamma/eIF5/eIF2-epsilon

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0003743   translation initiation factor activity  
GO:0006413   translational initiation  

Metabolic Pathways

RNA transport (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
4 155 2g2k (A) 3 156 52.00 0 1 0.812746 0.85
256 458 2iu1 (A) 233 410 21.00 0 1 0.631375 -0.77
296 380 2ful (A) 283 367 25.00 0 0.96 0.519049 -0.96
373 481 2ap3 (A) 77 194 30.00 0.18 0.34 0.33825 -1.2

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

Orthologs

Ortholog group members (OG5_127779)

Species Accession Gene Product
Arabidopsis thaliana AT1G36730   probable eukaryotic translation initiation factor 5-1
Arabidopsis thaliana AT1G77840   putative eukaryotic translation initiation factor 5-2
Babesia bovis BBOV_III001090   eukaryotic translation initiation factor 5, putative
Brugia malayi Bm1_56790   eukaryotic translation initiation factor 5
Candida albicans CaO19.11737   similar to S. cerevisiae TIF5 (YPR041W) translation initiation factor eIF5
Candida albicans CaO19.4261   similar to S. cerevisiae TIF5 (YPR041W) translation initiation factor eIF5
Caenorhabditis elegans CELE_C37C3.2   Protein C37C3.2, isoform A
Cryptosporidium hominis Chro.70278   hypothetical protein
Cryptosporidium parvum cgd7_2430   translation initiation factor eIF-5; Tif5p, ZnR+W2 domains
Dictyostelium discoideum DDB_G0286753   eukaryotic translation initiation factor 5
Drosophila melanogaster Dmel_CG9177   CG9177 gene product from transcript CG9177-RD
Echinococcus granulosus EgrG_001188400   Eukaryotic translation initiation factor 5
Entamoeba histolytica EHI_129770   Eukaryotic translation initiation factor eIF-5
Echinococcus multilocularis EmuJ_001188400   Eukaryotic translation initiation factor 5
Giardia lamblia GL50803_15538   Eukaryotic translation initiation factor 5
Homo sapiens ENSG00000100664   eukaryotic translation initiation factor 5
Leishmania braziliensis LbrM.20.0320   eukaryotic translation initiation factor 5, putative
Leishmania donovani LdBPK_340370.1   eukaryotic translation initiation factor 5, putative
Leishmania infantum LinJ.34.0370   eukaryotic translation initiation factor 5, putative
Leishmania major LmjF.34.0350   eukaryotic translation initiation factor 5, putative
Leishmania mexicana LmxM.33.0350   eukaryotic translation initiation factor 5, putative
Loa Loa (eye worm) LOAG_00592   hypothetical protein
Loa Loa (eye worm) LOAG_00591   eukaryotic translation initiation factor 5
Mus musculus 102641436   eukaryotic translation initiation factor 5-like
Mus musculus ENSMUSG00000021282   eukaryotic translation initiation factor 5
Neospora caninum NCLIV_019200   Eukaryotic translation initiation factor 5, related
Oryza sativa 4346742   Os09g0326900
Oryza sativa 9272123   Os06g0698674
Onchocerca volvulus OVOC6371   Eukaryotic translation initiation factor 5 homolog
Plasmodium berghei PBANKA_0605300   eukaryotic translation initiation factor 5, putative
Plasmodium falciparum PF3D7_1206700   eukaryotic translation initiation factor 5, putative
Plasmodium knowlesi PKNH_1306700   eukaryotic translation initiation factor 5, putative
Plasmodium vivax PVX_084370   eukaryotic translation initiation factor 5, putative
Plasmodium yoelii PY07150   hypothetical protein
Saccharomyces cerevisiae YPR041W   translation initiation factor eIF5
Schmidtea mediterranea mk4.003959.00   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.018235.00   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.000325.14   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.014958.00   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.018235.01   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.017823.00   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.005027.00   Eukaryotic translation initiation factor 5
Schmidtea mediterranea mk4.007046.01   Eukaryotic translation initiation factor 5
Trypanosoma brucei gambiense Tbg972.10.3450   eukaryotic translation initiation factor 5, putative
Trypanosoma brucei Tb927.10.2770   eukaryotic translation initiation factor 5, putative
Trypanosoma congolense TcIL3000_10_2380   eukaryotic translation initiation factor 5, putative
Trypanosoma cruzi TcCLB.504119.10   eukaryotic translation initiation factor 5, putative
Trypanosoma cruzi TcCLB.504105.20   eukaryotic translation initiation factor 5, putative
Toxoplasma gondii TGME49_244650   eukaryotic initiation factor-5, putative
Theileria parva TP03_0718   eukaryotic translation initiation factor 5, putative
Trichomonas vaginalis TVAG_226360   eukaryotic translation initiation factor, putative

Essentiality

PBANKA_0605300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.2770 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.2770 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.2770 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.2770 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C37C3.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_C37C3.2 Caenorhabditis elegans larval arrest wormbase
CELE_C37C3.2 Caenorhabditis elegans slow growth wormbase
CELE_C37C3.2 Caenorhabditis elegans sterile wormbase
YPR041W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0605300 this record Plasmodium berghei Essential plasmo
TGME49_244650 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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
  • 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
  • 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
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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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User comments

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Gene identifier PBANKA_0605300 (Plasmodium berghei), eukaryotic translation initiation factor 5, putative
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