Detailed view for Tbg972.8.1220

Basic information

TDR Targets ID: 544230
Trypanosoma brucei gambiense, lysyl-tRNA synthetase, putative
Source Database / ID: 

pI: 6.4578 | Length (AA): 584 | MW (Da): 66738 | Paralog Number: 0

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

Druggability Group : DG

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

PF00152   tRNA synthetases class II (D, K and N)
PF01336   OB-fold nucleic acid binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0005524   ATP binding  
GO:0004824   lysine-tRNA ligase activity  
GO:0004812   aminoacyl-tRNA ligase activity  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  
GO:0006430   lysyl-tRNA aminoacylation  
GO:0006418   tRNA aminoacylation for protein translation  

Metabolic Pathways

Aminoacyl-tRNA biosynthesis (KEGG)

Structural information

Modbase 3D models:

There are 5 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
2 59 3v6i (B) 25 82 14.00 0.45 0.02 0.339215 -1.28
41 563 4up8 (A) 0 562 48.00 0 1 1.24895 0.37
59 563 4ycu (A) 73 576 56.00 0 1 1.51163 -0.27
63 561 5hgq (B) 8 507 54.00 0 1 1.38675 0.42
107 583 1l0w (A) 12 573 23.00 0 0.99 0.792681 1.23

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_126972)

Species Accession Gene Product
Arabidopsis thaliana AT3G11710   Lysyl-tRNA synthetase
Arabidopsis thaliana AT3G13490   Lysyl-tRNA synthetase, class II
Babesia bovis BBOV_IV002630   lysyl-tRNA synthetase
Brugia malayi Bm1_16500   lysyl-tRNA synthetase
Candida albicans CaO19.6749   lysyl-tRNA synthetase
Candida albicans CaO19.14041   lysyl-tRNA synthetase
Caenorhabditis elegans CELE_T02G5.9   Protein KARS-1, isoform C
Cryptosporidium hominis Chro.40267   Kars protein
Cryptosporidium parvum cgd4_2370   lysyl-tRNA synthetase (NOB+tRNA synthetase)
Chlamydia trachomatis CT_781   lysine--tRNA ligase
Dictyostelium discoideum DDB_G0286517   leucyl-tRNA synthetase
Dictyostelium discoideum DDB_G0281437   lysine-tRNA ligase
Drosophila melanogaster Dmel_CG12141   Lysyl-tRNA synthetase
Escherichia coli b4129   lysine tRNA synthetase, inducible
Escherichia coli b2890   lysine tRNA synthetase, constitutive
Echinococcus granulosus EgrG_000629500   lysyl tRNA synthetase
Entamoeba histolytica EHI_047810   hypothetical protein
Echinococcus multilocularis EmuJ_000629500   lysyl tRNA synthetase
Giardia lamblia GL50803_16766   Lysyl-tRNA synthetase
Homo sapiens ENSG00000065427   lysyl-tRNA synthetase
Leishmania braziliensis LbrM.15.0260   lysyl-tRNA synthetase, putative
Leishmania donovani LdBPK_150270.1   lysyl-tRNA synthetase, putative
Leishmania infantum LinJ.15.0270   lysyl-tRNA synthetase, putative
Leishmania major LmjF.15.0230   lysyl-tRNA synthetase, putative
Leishmania mexicana LmxM.15.0230   lysyl-tRNA synthetase, putative
Loa Loa (eye worm) LOAG_03217   hypothetical protein
Mycobacterium leprae ML0233   Probable lysyl-tRNA synthase LysS (lysine--tRNA ligase 1) (LysRS 1) (lysine translase)
Mycobacterium leprae ML1393c   Possible lysyl-tRNA synthetase 2 LysX
Mus musculus 102642768   lysine--tRNA ligase-like
Mus musculus ENSMUSG00000031948   lysyl-tRNA synthetase
Mus musculus 102641648   lysine--tRNA ligase-like
Mycobacterium tuberculosis Rv3598c   Lysyl-tRNA synthetase 1 LysS (lysine--tRNA ligase 1) (LysRS 1) (lysine translase)
Mycobacterium tuberculosis Rv1640c   Lysyl-tRNA synthetase 2 LysX
Mycobacterium ulcerans MUL_1626   lysyl-tRNA synthetase
Mycobacterium ulcerans MUL_4181   lysyl-tRNA synthetase
Neospora caninum NCLIV_019960   lysyl-tRNA synthetase, putative
Oryza sativa 4333345   Os03g0586800
Oryza sativa 4330025   Os02g0623500
Plasmodium berghei PBANKA_1362900   lysine--tRNA ligase, putative
Plasmodium falciparum PF3D7_1350100   lysine--tRNA ligase
Plasmodium knowlesi PKNH_1250800   lysine--tRNA ligase, putative
Plasmodium vivax PVX_083400   lysine--tRNA ligase, putative
Plasmodium yoelii PY00115   lysyl-tRNA synthetase
Saccharomyces cerevisiae YDR037W   lysine--tRNA ligase KRS1
Schistosoma japonicum Sjp_0010800   ko:K04567 lysyl-tRNA synthetase, class II, putative
Schistosoma mansoni Smp_104470.1   lysyl-tRNA synthetase
Schistosoma mansoni Smp_104470.2   lysyl-tRNA synthetase
Schmidtea mediterranea mk4.038378.01  
Schmidtea mediterranea mk4.001011.00   LysineALQ-tRNA ligase
Schmidtea mediterranea mk4.038378.00  
Trypanosoma brucei gambiense Tbg972.8.1220   lysyl-tRNA synthetase, putative
Trypanosoma brucei Tb927.8.1600   lysyl-tRNA synthetase, putative
Trypanosoma congolense TcIL3000_0_06390   lysyl-tRNA synthetase, putative
Trypanosoma cruzi TcCLB.508971.30   lysyl-tRNA synthetase, putative
Toxoplasma gondii TGME49_205710   lysine-tRNA ligase
Theileria parva TP03_0387   lysyl-tRNA synthetase, putative
Trichomonas vaginalis TVAG_205400   lysyl-tRNA synthetase, putative
Trichomonas vaginalis TVAG_152430   lysyl-tRNA synthetase, putative

Essentiality

Tbg972.8.1220 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.1600 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.1600 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1600 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.1600 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b2890 Escherichia coli essential goodall
b4129 Escherichia coli non-essential goodall
CELE_T02G5.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_T02G5.9 Caenorhabditis elegans larval arrest wormbase
CELE_T02G5.9 Caenorhabditis elegans slow growth wormbase
CELE_T02G5.9 Caenorhabditis elegans sterile wormbase
YDR037W Saccharomyces cerevisiae inviable yeastgenome
TGME49_205710 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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
Species Known druggable target Linked compounds Reference
Plasmodium falciparum lysine--tRNA ligase Compounds References
Homo sapiens lysyl-tRNA synthetase Compounds References
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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Tbg972.8.1220 (Trypanosoma brucei gambiense), lysyl-tRNA synthetase, putative
Title for this comment
Comment