Detailed view for LmjF.34.0840

Basic information

TDR Targets ID: 26030
Leishmania major, translation elongation factor 1-beta, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.8983 | Length (AA): 237 | MW (Da): 25646 | Paralog Number: 2

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

PF00736   EF-1 guanine nucleotide exchange domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005853   eukaryotic translation elongation factor 1 complex  
GO:0003746   translation elongation factor activity  
GO:0006414   translational elongation  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 9 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
148 237 1b64 () 2 91 58.00 0 1 1.16 -1.09
148 237 1f60 (B) 1117 1206 48.00 0 1 1.1 -1.55
2 58 1nhy (A) 132 199 19.00 0.32 0.15 0.273506 -0.24
4 42 4zb6 (A) 142 180 28.00 0.72 0.61 0.469557 0.3
4 62 3vk9 (A) 130 196 20.00 0.0019 0.72 0.546945 -1.62
67 111 4x8w (H) 1 304 47.00 0 0.04 0.415273 2.13
106 237 2n51 (A) 150 281 46.00 0 1 1.05696 0.54
113 237 2n51 (A) 153 281 56.00 0 1 1.10783 0.43
149 237 1f60 (B) 1118 1206 48.00 0 1 0.968927 -0.49

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 60-80% 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_127390)

Species Accession Gene Product
Arabidopsis thaliana AT2G18110   translation elongation factor EF1B/ribosomal protein S6 family protein
Arabidopsis thaliana AT5G19510   Elongation factor 1-beta 2
Arabidopsis thaliana AT1G30230   elongation factor 1B beta
Arabidopsis thaliana AT5G12110   elongation factor 1-beta 1
Babesia bovis BBOV_IV003370   translation elongation factor-1 beta subunit
Brugia malayi Bm1_28320   elongation factor 1-beta/1-delta
Candida albicans CaO19.3838   Translation elongation factor EF-1beta, GDP/GTP exchange factor for Tef1p/Tef2p
Candida albicans CaO19.11319   Translation elongation factor EF-1beta, GDP/GTP exchange factor for Tef1p/Tef2p
Caenorhabditis elegans CELE_F54H12.6   Protein EEF-1B.1
Cryptosporidium hominis Chro.20423   elongation factor 1 (EF-1)
Cryptosporidium parvum cgd2_3950   putative translation elongation factor 1 beta 1
Dictyostelium discoideum DDB_G0284035   elongation factor 1 beta
Drosophila melanogaster Dmel_CG6341   Elongation factor 1 beta
Echinococcus granulosus EgrG_000954000   elongation factor 1 beta
Entamoeba histolytica EHI_183460   elongation factor 1 beta, putative
Entamoeba histolytica EHI_146390   hypothetical protein
Echinococcus multilocularis EmuJ_000954000   elongation factor 1 beta
Giardia lamblia GL50803_13561   Translation elongation factor
Homo sapiens ENSG00000114942   eukaryotic translation elongation factor 1 beta 2
Leishmania braziliensis LbrM.35.1570   translation elongation factor 1-beta, putative
Leishmania braziliensis LbrM.20.0770   elongation factor 1-beta
Leishmania donovani LdBPK_340870.1   elongation factor 1-beta
Leishmania donovani LdBPK_361490.1   translation elongation factor 1-beta, putative
Leishmania infantum LinJ.36.1490   translation elongation factor 1-beta, putative
Leishmania infantum LinJ.34.0890   translation elongation factor 1-beta, putative
Leishmania infantum LinJ.34.0870   elongation factor 1-beta
Leishmania major LmjF.34.0820   elongation factor 1-beta
Leishmania major LmjF.34.0840   translation elongation factor 1-beta, putative
Leishmania major LmjF.36.1430   translation elongation factor 1-beta, putative
Leishmania mexicana LmxM.33.0840   translation elongation factor 1-beta, putative
Leishmania mexicana LmxM.36.1430   translation elongation factor 1-beta, putative
Leishmania mexicana LmxM.33.0820   elongation factor 1-beta
Loa Loa (eye worm) LOAG_02925   elongation factor 1-beta/1-delta
Mus musculus ENSMUSG00000025967   eukaryotic translation elongation factor 1 beta 2
Neospora caninum NCLIV_046550   Elongation factor 1-beta, related
Oryza sativa 4344188   Os07g0662500
Oryza sativa 4333079   Os03g0406200
Oryza sativa 4343894   Os07g0614500
Plasmodium berghei PBANKA_0814200   elongation factor 1-beta, putative
Plasmodium falciparum PF3D7_0913200   elongation factor 1-beta
Plasmodium knowlesi PKNH_0711100   elongation factor 1-beta, putative
Plasmodium vivax PVX_099095   elongation factor 1B, putative
Plasmodium yoelii PY06160   translation elongation factor 1 beta-related
Saccharomyces cerevisiae YAL003W   translation elongation factor 1 subunit beta
Schistosoma japonicum Sjp_0022080   ko:K03232 elongation factor EF-1 beta subunit, putative
Schistosoma mansoni Smp_030690   elongation factor 1-beta
Schmidtea mediterranea mk4.008021.01  
Schmidtea mediterranea mk4.009091.02  
Schmidtea mediterranea mk4.002848.02   Elongation factor 1-delta
Schmidtea mediterranea mk4.000000.22   Elongation factor 1-beta
Schmidtea mediterranea mk4.002636.02  
Trypanosoma brucei gambiense Tbg972.4.3570   translation elongation factor 1-beta, putative
Trypanosoma brucei gambiense Tbg972.10.7100   translation elongation factor 1-beta, putative
Trypanosoma brucei Tb927.4.3590   translation elongation factor 1-beta, putative
Trypanosoma brucei Tb927.4.3570   translation elongation factor 1-beta, putative
Trypanosoma brucei Tb927.10.5840   translation elongation factor 1-beta, putative
Trypanosoma congolense TcIL3000_10_4890   translation elongation factor 1-beta, putative
Trypanosoma cruzi TcCLB.506201.39   25 kDa translation elongation factor 1-beta, putative
Trypanosoma cruzi TcCLB.509733.100   translation elongation factor 1-beta, putative
Trypanosoma cruzi TcCLB.507671.30   25 kDa translation elongation factor 1-beta
Toxoplasma gondii TGME49_226410   EF-1 guanine nucleotide exchange domain-containing protein
Theileria parva TP01_1096   elongation factor 1 beta, putative
Trichomonas vaginalis TVAG_453990   elongation factor 1-beta, putative

Essentiality

LmjF.34.0840 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.3570 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.3570 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.3570 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.4.3570 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.5840 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.5840 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.5840 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.5840 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F54H12.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_F54H12.6 Caenorhabditis elegans larval arrest wormbase
CELE_F54H12.6 Caenorhabditis elegans slow growth wormbase
YAL003W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0814200 Plasmodium berghei Dispensable plasmo
TGME49_226410 Toxoplasma gondii Probably non-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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier LmjF.34.0840 (Leishmania major), translation elongation factor 1-beta, putative
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