Detailed view for LmjF.28.2310

Basic information

TDR Targets ID: 20813
Leishmania major, eukaryotic translation initiation factor, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7752 | Length (AA): 405 | MW (Da): 46384 | Paralog Number: 0

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

Druggability Group : DG2

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

PF01399   PCI domain
PF09440   eIF3 subunit 6 N terminal domain

Gene Ontology

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

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
321 388 1ufm (A) 298 364 16.00 0.0000052 0.31 0.5 -1.58
2 399 4d10 (A) 83 474 12.00 0 1 1.14692 0.07
222 351 3kt7 (A) 364 500 31.00 0.4 0.05 0.127388 2.4
321 391 1ufm (A) 302 367 20.00 0 0.73 0.422109 -0.66

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 amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_128443)

Species Accession Gene Product
Arabidopsis thaliana AT3G57290   eukaryotic translation initiation factor 3E
Babesia bovis BBOV_III005760   eukaryotic translation initiation factor 3, subunit 6, putative
Brugia malayi Bm1_11985   eukaryotic translation initiation factor 3 subunit 6, putative
Caenorhabditis elegans CELE_B0511.10   Protein EIF-3.E
Cryptosporidium hominis Chro.20164   hypothetical protein
Cryptosporidium parvum cgd2_1500   possible translation initiation factor with possible PINT domain
Dictyostelium discoideum DDB_G0293052   eIF-3 p48
Drosophila melanogaster Dmel_CG9677   Int6 homologue
Echinococcus granulosus EgrG_000619600   eukaryotic translation initiation factor 3
Echinococcus multilocularis EmuJ_000619600   eukaryotic translation initiation factor 3
Homo sapiens ENSG00000104408   eukaryotic translation initiation factor 3, subunit E
Leishmania braziliensis LbrM.28.2510   eukaryotic translation initiation factor, putative
Leishmania donovani LdBPK_282480.1   Eukaryotic translation initiation factor 3 subunit E
Leishmania infantum LinJ.28.2480   eukaryotic translation initiation factor, putative
Leishmania major LmjF.28.2310   eukaryotic translation initiation factor, putative
Leishmania mexicana LmxM.28.2310   eukaryotic translation initiation factor, putative
Loa Loa (eye worm) LOAG_05717   eukaryotic translation initiation factor 3 subunit 6
Mus musculus ENSMUSG00000022336   eukaryotic translation initiation factor 3, subunit E
Neospora caninum NCLIV_034130   hypothetical protein
Oryza sativa 4342741   Os07g0222300
Oryza sativa 4343324   Os07g0503700
Oryza sativa 4342489   Os07g0167000
Plasmodium berghei PBANKA_1242800   eukaryotic translation initiation factor 3 subunit E, putative
Plasmodium falciparum PF3D7_0528200   eukaryotic translation initiation factor 3 subunit E, putative
Plasmodium knowlesi PKNH_1004500   eukaryotic translation initiation factor 3 subunit E, putative
Plasmodium vivax PVX_079840   eukaryotic translation initiation factor 3, subunit 6, putative
Plasmodium yoelii PY01281   hypothetical protein
Schistosoma japonicum Sjp_0204960   ko:K03250 translation initiation factor eIF-3 subunit 6, putative
Schistosoma mansoni Smp_176230.2   eukaryotictranslation initiation factor 3 subunit
Schistosoma mansoni Smp_176230.1   eukaryotictranslation initiation factor 3 subunit
Schmidtea mediterranea mk4.007703.00   Eukaryotic translation initiation factor 3 subunit E
Schmidtea mediterranea mk4.059610.00  
Schmidtea mediterranea mk4.017037.00  
Trypanosoma brucei gambiense Tbg972.11.13000   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.11590   Eukaryotic translation initiation factor 3 subunit E
Trypanosoma congolense TcIL3000_0_29860   eukaryotic translation initiation factor, putative
Trypanosoma cruzi TcCLB.509205.30   Eukaryotic translation initiation factor 3 subunit E
Trypanosoma cruzi TcCLB.508699.40   Eukaryotic translation initiation factor 3 subunit E
Toxoplasma gondii TGME49_273520   PCI domain-containing protein
Theileria parva TP02_0376   eukaryotic translation initiation factor 3 subunit 6, putative

Essentiality

LmjF.28.2310 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.3420 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.3420 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.3420 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.3420 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_B0511.10 Caenorhabditis elegans embryonic lethal wormbase
CELE_B0511.10 Caenorhabditis elegans larval arrest wormbase
CELE_B0511.10 Caenorhabditis elegans larval lethal wormbase
CELE_B0511.10 Caenorhabditis elegans sterile wormbase
TGME49_273520 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

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

  • Lmaj00709AAF;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj00709; Recombinant protein: truncated; Source: L major; eukaryotic translation initiation factor putative ;

Bibliographic References

No literature references available for this target.

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Gene identifier LmjF.28.2310 (Leishmania major), eukaryotic translation initiation factor, putative
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