Detailed view for TP0985

Basic information

TDR Targets ID: 595930
Treponema pallidum, aspartyl-tRNA synthetase
Source Database / ID:  KEGG  

pI: 6.716 | Length (AA): 602 | MW (Da): 68627 | 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

PF00152   tRNA synthetases class II (D, K and N)
PF01336   OB-fold nucleic acid binding domain
PF02938   GAD domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  
GO:0016874   ligase activity  
GO:0005524   ATP binding  
GO:0004812   aminoacyl-tRNA ligase activity  
GO:0006418   tRNA aminoacylation for protein translation  

Metabolic Pathways

Aminoacyl-tRNA biosynthesis (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
1 584 4ah6 (A) 45 630 40.00 0 1 1.39361 0.36
5 587 1l0w (A) 2 577 52.00 0 1 1.58031 -0.06
6 587 1c0a (A) 2 583 44.00 0 1 1.47262 0.1
19 109 4gla (C) 18 103 22.00 0 0.72 0.332599 -0.23

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_127662)

Species Accession Gene Product
Arabidopsis thaliana AT4G33760   tRNA synthetase class II (D, K and N) family protein
Brugia malayi Bm1_26640   hypothetical protein
Candida albicans CaO19.4478   Mitochondrial aspartyl-tRNA synthetase
Candida albicans CaO19.11958   Mitochondrial aspartyl-tRNA synthetase
Caenorhabditis elegans CELE_F10C2.6   Protein DARS-2
Chlamydia trachomatis CT_542   aspartate--tRNA(Asp/Asn) ligase
Dictyostelium discoideum DDB_G0270152   aspartate-tRNA ligase
Drosophila melanogaster Dmel_CG31739   CG31739 gene product from transcript CG31739-RA
Escherichia coli b1866   aspartyl-tRNA synthetase
Homo sapiens ENSG00000117593   aspartyl-tRNA synthetase 2, mitochondrial
Loa Loa (eye worm) LOAG_04305   DRS-2 protein
Loa Loa (eye worm) LOAG_04304   DRS-2 protein
Mycobacterium leprae ML0501   Probable aspartyl-tRNA synthetase AspS (aspartate--tRNA ligase) (AspRS) (aspartic acid translase)
Mus musculus ENSMUSG00000026709   aspartyl-tRNA synthetase 2 (mitochondrial)
Mycobacterium tuberculosis Rv2572c   Probable aspartyl-tRNA synthetase AspS (aspartate--tRNA ligase) (ASPRS) (aspartic acid translase)
Mycobacterium ulcerans MUL_1743   aspartyl-tRNA synthetase
Oryza sativa 4324505   Os01g0153400
Oryza sativa 9270426   Os01g0571700
Saccharomyces cerevisiae YPL104W   aspartate--tRNA ligase MSD1
Schistosoma japonicum Sjp_0072220   Aspartyl-tRNA synthetase, mitochondrial precursor, putative
Schistosoma japonicum Sjp_0213350   ko:K01876 aspartyl-tRNA synthetase [EC6.1.1.12], putative
Schistosoma mansoni Smp_190720   aspartyl-tRNA synthetase
Schistosoma mansoni Smp_088800   aspartyl-tRNA synthetase
Schistosoma mansoni Smp_194150   aspartyl-tRNA synthetase
Schistosoma mansoni Smp_116950   aspartyl-tRNA synthetase
Schistosoma mansoni Smp_166450   aspartyl-tRNA synthetase
Schistosoma mansoni Smp_179140   aspartyl-tRNA synthetase
Schistosoma mansoni Smp_194140   aspartyl-tRNA synthetase
Schmidtea mediterranea mk4.013013.01  
Schmidtea mediterranea mk4.019159.00  
Schmidtea mediterranea mk4.026869.00  
Schmidtea mediterranea mk4.032719.00   AspartateALQ-tRNA ligase, mitochondrial
Schmidtea mediterranea mk4.019159.01  
Treponema pallidum TP0985   aspartyl-tRNA synthetase
Wolbachia endosymbiont of Brugia malayi Wbm0012   aspartyl-tRNA synthetase

Essentiality

TP0985 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b1866 Escherichia coli essential goodall
CELE_F10C2.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_F10C2.6 Caenorhabditis elegans larval arrest wormbase
CELE_F10C2.6 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

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

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

Enter your comment

User ()
Gene identifier TP0985 (Treponema pallidum), aspartyl-tRNA synthetase
Title for this comment
Comment