Detailed view for Smp_094060

Basic information

TDR Targets ID: 295116
Schistosoma mansoni, phenylalanyl-tRNA synthetase subunit beta
Source Database / ID:  GeneDB

pI: 5.6265 | Length (AA): 620 | MW (Da): 69520 | 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

PF03483   B3/4 domain
PF03484   tRNA synthetase B5 domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0004826   phenylalanine-tRNA ligase activity  
GO:0003723   RNA binding  
GO:0000287   magnesium ion binding  
GO:0000166   nucleotide binding  
GO:0005524   ATP binding  
GO:0006432   phenylalanyl-tRNA aminoacylation  
GO:0006412   translation  

Metabolic Pathways

Aminoacyl-tRNA biosynthesis (KEGG)

Structural information

Modbase 3D models:

There are 2 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
1 620 3l4g (B) 1 589 56.00 0 1 1.622 -0.2
2 390 2cxi (A) 2 348 36.00 0 1 0.971419 -0.42

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_127490)

Species Accession Gene Product
Arabidopsis thaliana AT1G72550   probable phenylalanine--tRNA ligase beta subunit
Babesia bovis BBOV_III009590   phenylalanyl-tRNA synthetase, beta subunit family protein
Brugia malayi Bm1_16240   phenylalanyl-tRNA synthetase beta chain
Candida albicans CaO19.2573   Phenylalanyl-tRNA synthetase
Candida albicans CaO19.10105   Phenylalanyl-tRNA synthetase
Caenorhabditis elegans CELE_F22B5.9   Protein FARS-3
Cryptosporidium hominis Chro.80385   phenylalanyl-tRNA synthetase beta-subunit; PheHB -related
Cryptosporidium parvum cgd8_3320   phenylalanyl-tRNA synthetase beta chain
Dictyostelium discoideum DDB_G0277303   phenylalanine-tRNA ligase, beta subunit
Drosophila melanogaster Dmel_CG5706   CG5706 gene product from transcript CG5706-RA
Echinococcus granulosus EgrG_000491900   phenylalanyl tRNA synthetase beta chain
Entamoeba histolytica EHI_002130   phenylalanyl-tRNA synthetase beta subunit, putative
Echinococcus multilocularis EmuJ_000491900   phenylalanyl tRNA synthetase beta chain
Giardia lamblia GL50803_16760   Phenylalanyl-tRNA synthetase beta chain
Homo sapiens 10056   phenylalanyl-tRNA synthetase, beta subunit
Leishmania braziliensis LbrM.19.1320   phenylalanyl-tRNA synthetase, putative
Leishmania donovani LdBPK_191010.1   phenylalanyl-tRNA synthetase, putative
Leishmania infantum LinJ.19.1010   phenylalanyl-tRNA synthetase, putative
Leishmania major LmjF.19.1040   phenylalanyl-tRNA synthetase, putative
Leishmania mexicana LmxM.19.1040   phenylalanyl-tRNA synthetase, putative
Loa Loa (eye worm) LOAG_06226   hypothetical protein
Mus musculus ENSMUSG00000026245   phenylalanyl-tRNA synthetase, beta subunit
Neospora caninum NCLIV_053190   hypothetical protein
Oryza sativa 4339585   Os05g0558900
Plasmodium berghei PBANKA_0942900   phenylalanine--tRNA ligase beta subunit, putative
Plasmodium falciparum PF3D7_1104000   phenylalanine--tRNA ligase beta subunit
Plasmodium knowlesi PKNH_0901600   phenylalanine--tRNA ligase beta subunit, putative
Plasmodium vivax PVX_090880   phenylalanine--tRNA ligase beta subunit, putative
Plasmodium yoelii PY02380   phenylalanyl-tRNA synthetase subunit
Plasmodium yoelii PY02381   Phe-RNA synthetase-related
Saccharomyces cerevisiae YLR060W   phenylalanine--tRNA ligase subunit beta
Schistosoma japonicum Sjp_0300830   ko:K01890 phenylalanyl-tRNA synthetase beta chain [EC6.1.1.20B], putative
Schistosoma mansoni Smp_094060   phenylalanyl-tRNA synthetase subunit beta
Schmidtea mediterranea mk4.001318.01   PhenylalanineALQ-tRNA ligase beta subunit
Trypanosoma brucei gambiense Tbg972.11.2610   phenylalanyl-tRNA synthetase (beta subunit), putative
Trypanosoma brucei Tb927.11.2360   phenylalanyl-tRNA synthetase (beta subunit), putative
Trypanosoma congolense TcIL3000.11.2160   phenylalanyl-tRNA synthetase, putative
Trypanosoma cruzi TcCLB.506127.30   phenylalanyl-tRNA synthetase, putative
Trypanosoma cruzi TcCLB.508271.10   phenylalanyl-tRNA synthetase, putative
Toxoplasma gondii TGME49_306960   phenylalanine--tRNA ligase, beta subunit protein
Treponema pallidum TP0015   phenylalanyl-tRNA synthetase subunit beta
Theileria parva TP04_0871   phenylalanyl-tRNA synthetase beta subunit, putative
Trichomonas vaginalis TVAG_496270   phenylalanyl-tRNA synthetase beta chain, putative

Essentiality

Smp_094060 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.22.0005 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.22.0005 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.22.0005 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.22.0005 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F22B5.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_F22B5.9 Caenorhabditis elegans larval arrest wormbase
CELE_F22B5.9 Caenorhabditis elegans slow growth wormbase
YLR060W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0942900 Plasmodium berghei Essential plasmo
TGME49_306960 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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 Smp_094060 (Schistosoma mansoni), phenylalanyl-tRNA synthetase subunit beta
Title for this comment
Comment