Detailed view for LmjF.22.1240

Basic information

TDR Targets ID: 21845
Leishmania major, translation initiation factor IF-2, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.9382 | Length (AA): 775 | MW (Da): 85695 | 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

PF00009   Elongation factor Tu GTP binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0003924   GTPase activity  
GO:0003743   translation initiation factor activity  
GO:0005525   GTP binding  
GO:0006413   translational initiation  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 11 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
29 352 1mky (A) 43 363 16.00 0 0.98 0.56 0.22
84 351 1mky (A) 87 362 20.00 0.0000000012 0.94 0.57 -0.02
180 755 1g7s (A) 4 583 20.00 0 1 0.39 0.71
183 340 2cxx (A) 3 180 23.00 0.0000005 1 0.49 -1.27
78 450 3mmp (A) 163 1310 21.00 0 1 0.58059 0.55
106 375 1xzp (A) 130 404 17.00 0 0.95 0.513687 -0.26
111 584 4kjz (A) 3 468 28.00 0 1 0.826913 0.69
120 457 4b3x (A) 8 351 29.00 0.0000000023 1 0.815529 -0.18
178 346 2lkc (A) 5 173 49.00 0 1 0.879364 -1.09
179 748 1g7r (A) 3 583 20.00 0 1 0.606784 0.83
716 771 5hmo (A) 825 883 38.00 0.56 0.05 0.468658 -1.1

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
Mid 40-60% 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_127126)

Species Accession Gene Product
Arabidopsis thaliana AT4G11160   translation initiation factor IF-2
Arabidopsis thaliana AT1G17220   translation initiation factor IF-2
Babesia bovis BBOV_II003130   elongation factor Tu GTP binding domain containing protein
Babesia bovis BBOV_I003420   elongation factor Tu GTP binding domain containing protein
Brugia malayi Bm1_34480   Elongation factor Tu GTP binding domain containing protein
Candida albicans CaO19.12634   Mitochondrial initiation factor 2
Candida albicans CaO19_5167   hypothetical protein
Candida albicans CaO19.5167   Mitochondrial initiation factor 2
Caenorhabditis elegans CELE_F46B6.6   Protein F46B6.6, isoform A
Chlamydia trachomatis CT_096   translation initiation factor IF-2
Dictyostelium discoideum DDB_G0275751   hypothetical protein
Drosophila melanogaster Dmel_CG12413   CG12413 gene product from transcript CG12413-RA
Escherichia coli b3168   translation initiation factor IF-2
Echinococcus granulosus EgrG_000227400   translation initiation factor IF 2
Echinococcus multilocularis EmuJ_000227400   translation initiation factor IF 2
Homo sapiens ENSG00000085760   mitochondrial translational initiation factor 2
Leishmania braziliensis LbrM.22.1120   translation initiation factor IF-2, putative
Leishmania donovani LdBPK_221060.1   translation initiation factor IF-2, putative
Leishmania infantum LinJ.22.1060   translation initiation factor IF-2, putative
Leishmania major LmjF.22.1240   translation initiation factor IF-2, putative
Leishmania mexicana LmxM.22.1240   translation initiation factor IF-2, putative
Loa Loa (eye worm) LOAG_01774   elongation factor Tu GTP binding domain-containing protein
Mycobacterium leprae ML1556c   PROBABLE TRANSLATION INITIATION FACTOR IF-2 INFB
Mus musculus ENSMUSG00000020459   mitochondrial translational initiation factor 2
Mycobacterium tuberculosis Rv2839c   Probable translation initiation factor if-2 InfB
Mycobacterium ulcerans MUL_2122   translation initiation factor IF-2
Neospora caninum NCLIV_067450   hypothetical protein
Oryza sativa 4339689   Os05g0575300
Oryza sativa 4347576   Os09g0515500
Plasmodium berghei PBANKA_0703600   translation initiation factor IF-2, putative
Plasmodium berghei PBANKA_1231400   sporozoite surface antigen MB2, putative
Plasmodium falciparum PF3D7_0516600   sporozoite surface antigen MB2
Plasmodium falciparum PF3D7_0827100   translation initiation factor IF-2, putative
Plasmodium knowlesi PKNH_1321200   translation initiation factor IF-2, putative
Plasmodium knowlesi PKNH_1016700   translation initiation factor IF-2, putative
Plasmodium vivax PVX_080420   MB2 protein, putative
Plasmodium vivax PVX_089010   translation initiation factor IF-2, putative
Plasmodium yoelii PY03311   Plasmodium falciparum MB2
Plasmodium yoelii PY06191   translation initiation factor IF-2
Saccharomyces cerevisiae YOL023W   translation initiation factor 2
Schistosoma japonicum Sjp_0211510   ko:K02519 translation initiation factor IF-2, putative
Schistosoma mansoni Smp_167220   mitochondrial translational initiation factor
Schmidtea mediterranea mk4.010079.01   Translation initiation factor IF-2, mitochondrial
Schmidtea mediterranea mk4.004315.04   Translation initiation factor IF-2, mitochondrial
Trypanosoma brucei gambiense Tbg972.7.3600   translation initiation factor IF-2, putative
Trypanosoma brucei Tb927.7.3280   translation initiation factor IF-2, putative
Trypanosoma congolense TcIL3000_7_2430   translation initiation factor IF-2, putative
Trypanosoma cruzi TcCLB.511821.110   translation initiation factor IF-2, putative
Trypanosoma cruzi TcCLB.510533.120   translation initiation factor IF-2, putative
Toxoplasma gondii TGME49_278550   elongation factor Tu GTP binding domain-containing protein
Treponema pallidum TP0891   translation initiation factor IF-2
Theileria parva TP04_0278   hypothetical protein
Theileria parva TP03_0192   translation initiation factor IF-2, putative
Theileria parva TP04_0279   hypothetical protein
Theileria parva TP04_0280   hypothetical protein
Wolbachia endosymbiont of Brugia malayi Wbm0537   translation initiation factor IF-2

Essentiality

LmjF.22.1240 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.3280 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.3280 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.3280 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.3280 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b3168 Escherichia coli essential goodall
CELE_F46B6.6 Caenorhabditis elegans slow growth wormbase
PBANKA_1231400 Plasmodium berghei Slow plasmo
TGME49_278550 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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 LmjF.22.1240 (Leishmania major), translation initiation factor IF-2, putative
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