Detailed view for PF3D7_1326400

Basic information

TDR Targets ID: 52
Plasmodium falciparum, translation initiation factor eIF-2B subunit gamma, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.1341 | Length (AA): 473 | MW (Da): 55042 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

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
17 95 1jyk (A) 6 82 22.00 0 0.54 0.53 -1.28
17 481 1hv9 (A) 6 437 12.00 0 0.99 1.04 -0.04
29 480 1yp2 (A) 33 449 14.00 0 1 0.79 0.74
17 238 4ecm (A) 1 217 16.00 0.000000068 1 0.590845 -0.05
39 140 2mzb (A) 19 103 33.00 0.25 0.87 0.300645 0.67
376 462 3twd (A) 296 383 11.00 0.11 1 0.475432 -1.15

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 Ring. Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, sporozoite, early ring, early trophozoite, late ring, Oocyst, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, merozoite, early schizont, late trophozoite, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Female Gametocyte. Lasonder E
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_128844)

Species Accession Gene Product
Arabidopsis thaliana AT5G19485   transferases/nucleotidyltransferases
Babesia bovis BBOV_II000340   hypothetical protein
Brugia malayi Bm1_42560   Nucleotidyl transferase family protein
Candida albicans CaO19.481   similar to S. cerevisiae GCD1 (YOR260W) gamma subunit of eIF-2B, the guanine nucleotide exchange factor for translation initiati
Candida albicans CaO19.8111   similar to S. cerevisiae GCD1 (YOR260W) gamma subunit of eIF-2B, the guanine nucleotide exchange factor for translation initiati
Caenorhabditis elegans CELE_C15F1.4   Protein PPP-1
Caenorhabditis elegans CELE_C15F1.3   Protein TRA-2, isoform C
Cryptosporidium hominis Chro.80452   hypothetical protein
Cryptosporidium parvum cgd8_3940   eIF-2B gamma, eukaryotic translation initiation factor 2B subunit 3 that has a nucleotide diphospho sugar transferase at the N-t
Dictyostelium discoideum DDB_G0290693   bacterial transferase hexapeptide repeat-containing protein
Drosophila melanogaster Dmel_CG8190   CG8190 gene product from transcript CG8190-RA
Echinococcus granulosus EgrG_000671300   DNA polymerase epsilon catalytic subunit
Echinococcus multilocularis EmuJ_000671300   DNA polymerase epsilon catalytic subunit
Homo sapiens ENSG00000070785   eukaryotic translation initiation factor 2B, subunit 3 gamma, 58kDa
Loa Loa (eye worm) LOAG_03140   hypothetical protein
Mus musculus ENSMUSG00000028683   eukaryotic translation initiation factor 2B, subunit 3
Neospora caninum NCLIV_059920   eukaryotic initiation factor-2B gamma subunit, putative
Oryza sativa 4340947   Os06g0338900
Onchocerca volvulus OVOC4928  
Plasmodium berghei PBANKA_1341600   translation initiation factor eIF-2B subunit gamma, putative
Plasmodium falciparum PF3D7_1326400   translation initiation factor eIF-2B subunit gamma, putative
Plasmodium knowlesi PKNH_1202200   translation initiation factor eIF-2B subunit gamma, putative
Plasmodium vivax PVX_116557   translation initiation factor EIF-2B gamma subunit, putative
Plasmodium yoelii PY05721   hypothetical protein
Plasmodium yoelii PY05722   hypothetical protein
Saccharomyces cerevisiae YOR260W   Gcd1p
Schistosoma japonicum Sjp_0213650   ko:K03241 translation initiation factor eIF-2B gamma subunit, putative
Toxoplasma gondii TGME49_216260   eukaryotic initiation factor-2B, gamma subunit, putative
Theileria parva TP01_0593   hypothetical protein, conserved

Essentiality

PF3D7_1326400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C15F1.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_C15F1.4 Caenorhabditis elegans larval arrest wormbase
CELE_C15F1.4 Caenorhabditis elegans larval lethal wormbase
CELE_C15F1.4 Caenorhabditis elegans slow growth wormbase
CELE_C15F1.4 Caenorhabditis elegans sterile wormbase
YOR260W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1341600 Plasmodium berghei Essential plasmo
TGME49_216260 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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 PF3D7_1326400 (Plasmodium falciparum), translation initiation factor eIF-2B subunit gamma, putative
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