Detailed view for Tb927.2.3620

Basic information

TDR Targets ID: 55121
Trypanosoma brucei, GTP-binding elongation factor Tu family, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.3807 | Length (AA): 805 | MW (Da): 87191 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF00009   Elongation factor Tu GTP binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0005525   GTP binding  
GO:0003924   GTPase activity  
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 7 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
32 156 5j0l (A) 2 131 7.00 0.99 0.01 0.278773 -1.25
332 787 1f60 (A) 3 440 21.00 0 1 0.613464 0.53
336 644 1kk1 (A) 10 253 32.00 0.001 0.4 0.279728 0.86
337 787 4zv4 (A) 13 398 29.00 0 1 0.628345 0.74
459 773 1f60 (A) 87 401 25.00 0.0000000000063 1 0.535191 0.88
460 787 1ha3 (A) 78 404 22.00 0 1 0.61126 0.36
460 541 2dy1 (A) 77 158 22.00 0 0.49 0.30829 -0.08

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 Procyclic, Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_127896)

Species Accession Gene Product
Brugia malayi Bm1_52050   Elongation factor Tu GTP binding domain containing protein
Brugia malayi Bm1_40375   GTP-binding protein AGP-1
Caenorhabditis elegans CELE_T04H1.2   Protein T04H1.2
Caenorhabditis elegans CELE_Y38C9A.2   Protein CGP-1
Dictyostelium discoideum DDB_G0292538   GTP-binding protein 1
Drosophila melanogaster Dmel_CG5729   CG5729 gene product from transcript CG5729-RB
Drosophila melanogaster Dmel_CG2017   CG2017 gene product from transcript CG2017-RD
Echinococcus granulosus EgrG_001129300   GTP binding protein 1
Echinococcus multilocularis EmuJ_001129300   GTP binding protein 1
Homo sapiens ENSG00000100226   GTP binding protein 1
Homo sapiens ENSG00000172432   GTP binding protein 2
Leishmania braziliensis LbrM.33.3070   GTP-binding protein, putative,GTP-binding elongation factor tu family protein, putative
Leishmania donovani LdBPK_332930.1   GTP-binding protein, putative
Leishmania infantum LinJ.33.2930   GTP-binding protein, putative,GTP-binding elongation factor tu family protein, putative
Leishmania major LmjF.33.2790   GTP-binding protein, putative,GTP-binding elongation factor tu family protein, putative
Leishmania mexicana LmxM.32.2790   GTP-binding protein, putative,GTP-binding elongation factor tu family protein, putative
Loa Loa (eye worm) LOAG_04708   hypothetical protein
Loa Loa (eye worm) LOAG_04209   GTP-binding protein AGP-1
Mus musculus ENSMUSG00000023952   GTP binding protein 2
Mus musculus ENSMUSG00000042535   GTP binding protein 1
Neospora caninum NCLIV_010100   hypothetical protein
Schistosoma japonicum Sjp_0300640   GTP-binding protein 1, putative
Schistosoma mansoni Smp_169280   GTP binding protein
Schmidtea mediterranea mk4.000088.07   GTP-binding protein cgp-1
Trypanosoma brucei gambiense Tbg.972.2.1970   GTP-binding elongation factor Tu family, putative
Trypanosoma brucei Tb927.2.3620   GTP-binding elongation factor Tu family, putative
Trypanosoma cruzi TcCLB.507715.40   GTP-binding elongation factor Tu family, putative
Trypanosoma cruzi TcCLB.511115.20   GTP-binding elongation factor Tu family, putative
Toxoplasma gondii TGME49_320150   elongation factor Tu GTP binding domain-containing protein

Essentiality

Tb927.2.3620 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.3620 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.2.3620 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.2.3620 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.2.3620 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_320150 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

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User comments

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Gene identifier Tb927.2.3620 (Trypanosoma brucei), GTP-binding elongation factor Tu family, putative
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