Detailed view for PVX_000590

Basic information

TDR Targets ID: 267231
Plasmodium vivax, eukaryotic translation initiation factor 3 subunit 2, putative
Source Database / ID:  PlasmoDB 

pI: 6.8958 | Length (AA): 327 | MW (Da): 37229 | Paralog Number: 0

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

Druggability Group : DG3

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

PF00400   WD domain, G-beta repeat
PF12894   Anaphase-promoting complex subunit 4 WD40 domain

Gene Ontology

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

Metabolic Pathways

RNA transport (KEGG)

Structural information

Modbase 3D models:

There are 6 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
3 316 1got (B) 48 340 21.00 0.000055 1 1.2 -0.45
3 318 2h14 (A) 38 333 18.00 0 1 1.14 -0.19
1 327 4u1e (I) 1 332 32.00 0 1 1.3061 -0.17
4 98 3ow8 (A) 184 278 16.00 0.084 0.1 0.44802 -0.26
20 80 1gxr (A) 708 768 30.00 0.76 0.79 0.566644 -0.12
262 321 4xfv (A) 31 91 40.00 0.23 0.35 0.443586 0.84

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 intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs, intraerythrocytic - 40 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_127718)

Species Accession Gene Product
Arabidopsis thaliana AT2G46290   transducin/WD40 repeat-like superfamily protein
Arabidopsis thaliana AT2G46280   TGF-beta receptor interacting protein 1
Babesia bovis BBOV_IV003330   translation initiation factor 3 subunit 2
Brugia malayi Bm1_48300   Eukaryotic initiation factor protein 3.I
Candida albicans CaO19.2967   similar to S. cerevisiae TIF34 (YMR146C) translation initiation factor eIF3 p39 subunit
Candida albicans CaO19.10484   similar to S. cerevisiae TIF34 (YMR146C) translation initiation factor eIF3 p39 subunit
Caenorhabditis elegans CELE_Y74C10AR.1   Protein EIF-3.I
Cryptosporidium hominis Chro.50323   eukaryotic translation initiation factor 3 37.28 kDa subunit
Cryptosporidium parvum cgd5_680   eukaryotic translation initiation factor 3 37.28 kDa subunit, putative
Dictyostelium discoideum DDB_G0285683   WD40 repeat-containing protein
Drosophila melanogaster Dmel_CG8882   CG8882 gene product from transcript CG8882-RA
Echinococcus granulosus EgrG_000297200   eukaryotic translation initiation factor 3
Entamoeba histolytica EHI_118720   WD domain containing protein
Echinococcus multilocularis EmuJ_000297200   eukaryotic translation initiation factor 3
Giardia lamblia GL50803_13661   Eukaryotic translation initiation factor 3 subunit 2
Homo sapiens ENSG00000084623   eukaryotic translation initiation factor 3, subunit I
Leishmania braziliensis LbrM.35.4110   eukaryotic translation initiation factor 3 subunit, putative
Leishmania donovani LdBPK_364070.1   eukaryotic translation initiation factor 3 subunit, putative
Leishmania infantum LinJ.36.4070   eukaryotic translation initiation factor 3 subunit, putative
Leishmania major LmjF.36.3880   eukaryotic translation initiation factor 3 subunit, putative
Leishmania mexicana LmxM.36.3880   eukaryotic translation initiation factor 3 subunit, putative
Loa Loa (eye worm) LOAG_08550   eukaryotic initiation factor protein 3.I
Mus musculus ENSMUSG00000028798   eukaryotic translation initiation factor 3, subunit I
Neospora caninum NCLIV_042070   hypothetical protein
Oryza sativa 4338229   Os05g0256000
Oryza sativa 4345234   Os08g0308100
Plasmodium berghei PBANKA_0614500   eukaryotic translation initiation factor 3 subunit I, putative
Plasmodium falciparum PF3D7_0716800   eukaryotic translation initiation factor 3 subunit I, putative
Plasmodium knowlesi PKNH_0311600   eukaryotic translation initiation factor 3 subunit I, putative
Plasmodium vivax PVX_000590   eukaryotic translation initiation factor 3 subunit 2, putative
Plasmodium yoelii PY00595   eukaryotic translation initiation factor 3 39 kDa subunit
Saccharomyces cerevisiae YMR146C   translation initiation factor eIF3 subunit I
Schistosoma japonicum Sjp_0015700   ko:K03246 translation initiation factor eIF-3 subunit 2, putative
Schistosoma mansoni Smp_006000   eukaryotictranslation initiation factor 3 subunit
Schmidtea mediterranea mk4.003687.03   Eukaryotic translation initiation factor 3 subunit I
Trypanosoma brucei gambiense Tbg972.11.10790   eukaryotic translation initiation factor 3 subunit, putative,TGF-beta receptor interacting protein 1
Trypanosoma brucei Tb927.11.9610   eukaryotic translation initiation factor 3 subunit i
Trypanosoma congolense TcIL3000.11.10110   eukaryotic translation initiation factor 3 subunit i
Trypanosoma congolense TcIL3000_0_20520   eukaryotic translation initiation factor 3 subunit 2, putative
Trypanosoma cruzi TcCLB.511589.230   eukaryotic translation initiation factor 3 subunit 2, putative
Trypanosoma cruzi TcCLB.511229.80   eukaryotic translation initiation factor 3 subunit i
Toxoplasma gondii TGME49_289830   eukaryotic initiation factor-3, delta subunit, putative
Theileria parva TP01_1092   eukaryotic translation initiation factor 3 subunit 2, putative
Trichomonas vaginalis TVAG_114460   eukaryotic translation initiation factor 3 subunit, putative

Essentiality

PVX_000590 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.1370 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.1370 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.1370 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.1370 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y74C10AR.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y74C10AR.1 Caenorhabditis elegans slow growth wormbase
CELE_Y74C10AR.1 Caenorhabditis elegans sterile wormbase
YMR146C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0614500 Plasmodium berghei Essential plasmo
TGME49_289830 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
  • 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
  • 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.

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User comments

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Gene identifier PVX_000590 (Plasmodium vivax), eukaryotic translation initiation factor 3 subunit 2, putative
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