Detailed view for PF3D7_0109800

Basic information

TDR Targets ID: 3218
Plasmodium falciparum, phenylalanine--tRNA ligase alpha subunit
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.797 | Length (AA): 575 | MW (Da): 67720 | 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

PF01409   tRNA synthetases class II core domain (F)

Gene Ontology

Mouse over links to read term descriptions.
GO:0009328   phenylalanine-tRNA ligase complex  
GO:0005737   cytoplasm  
GO:0005524   ATP binding  
GO:0004826   phenylalanine-tRNA ligase activity  
GO:0004812   aminoacyl-tRNA ligase activity  
GO:0000166   nucleotide binding  
GO:0000049   tRNA binding  
GO:0043039   tRNA aminoacylation  
GO:0006432   phenylalanyl-tRNA aminoacylation  
GO:0006418   tRNA aminoacylation for protein translation  
GO:0006412   translation  

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
295 572 1b7y (A) 86 339 31.00 0 1 0.54 0.14
2 157 4uos (A) 1 164 13.00 0.21 0.08 0.431504 -0.95
4 322 4wat (A) 218 508 31.00 0.61 0.26 0.392083 1.51
31 208 4uos (A) 1 184 15.00 0.000053 0.02 0.457365 -0.93
50 572 3l4g (C) 3 481 39.00 0 1 0.995465 1.17
64 573 3l4g (C) 8 482 43.00 0 1 1.22416 0.8
76 572 3l4g (C) 22 481 41.00 0 1 1.15015 0.97

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 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, Ring. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, sporozoite, early ring, late ring, Oocyst. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile merozoite, early schizont, early trophozoite, late trophozoite, Sporozoite, Female Gametocyte. PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile gametocyte, late schizont, Male Gametocyte. PlasmoDB Lasonder E
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_127036)

Species Accession Gene Product
Arabidopsis thaliana AT4G39280   probable phenylalanine--tRNA ligase alpha subunit
Babesia bovis BBOV_III007240   phenylalanyl-tRNA synthetase family protein
Brugia malayi Bm1_08535   phenylalanyl (f) trna synthetase protein 1
Candida albicans CaO19.10477   phenylalanyl-tRNA synthetase
Candida albicans CaO19.2960   phenylalanyl-tRNA synthetase
Caenorhabditis elegans CELE_T08B2.9   Protein FARS-1, isoform A
Cryptosporidium hominis Chro.30378   phenylalanyl-trna synthetase-like protein
Cryptosporidium parvum cgd3_3320   putative phenylalanyl-tRNA synthetase
Chlamydia trachomatis CT_836   phenylalanine--tRNA ligase subunit alpha
Dictyostelium discoideum DDB_G0287141   phenylalanine-tRNA ligase, alpha subunit
Drosophila melanogaster Dmel_CG2263   CG2263 gene product from transcript CG2263-RA
Escherichia coli b1714   phenylalanine tRNA synthetase, alpha subunit
Echinococcus granulosus EgrG_001147900   phenylalanyl tRNA synthetase alpha chain B
Entamoeba histolytica EHI_078230   phenylalanyl-tRNA synthetase alpha subunit, putative
Echinococcus multilocularis EmuJ_001147900   phenylalanyl tRNA synthetase alpha chain B
Giardia lamblia GL50803_12162   Phenylalanyl-tRNA synthetase alpha chain
Homo sapiens ENSG00000179115   phenylalanyl-tRNA synthetase, alpha subunit
Leishmania braziliensis LbrM.32.0960   phenylalanyl-tRNA synthetase alpha chain, putative
Leishmania donovani LdBPK_320920.1   phenylalanyl-tRNA synthetase alpha chain, putative
Leishmania infantum LinJ.32.0920   phenylalanyl-tRNA synthetase alpha chain, putative
Leishmania major LmjF.32.0870   phenylalanyl-tRNA synthetase alpha chain, putative
Leishmania mexicana LmxM.31.0870   phenylalanyl-tRNA synthetase alpha chain, putative
Loa Loa (eye worm) LOAG_01536   hypothetical protein
Mycobacterium leprae ML1401   Probable phenylalanyl-tRNA synthetase, alpha chain PheS
Mus musculus ENSMUSG00000003808   phenylalanyl-tRNA synthetase, alpha subunit
Mycobacterium tuberculosis Rv1649   Probable phenylalanyl-tRNA synthetase, alpha chain PheS
Mycobacterium ulcerans MUL_1635   phenylalanyl-tRNA synthetase subunit alpha
Neospora caninum NCLIV_042270   hypothetical protein
Oryza sativa 4348566   Os10g0400800
Plasmodium berghei PBANKA_0203800   phenylalanine--tRNA ligase alpha subunit, putative
Plasmodium falciparum PF3D7_0109800   phenylalanine--tRNA ligase alpha subunit
Plasmodium knowlesi PKNH_0204000   phenylalanine--tRNA ligase alpha subunit, putative
Plasmodium vivax PVX_081300   phenylalanine--tRNA ligase alpha subunit, putative
Plasmodium yoelii PY00417   phenylalanyl-tRNA synthetase, putative
Saccharomyces cerevisiae YFL022C   phenylalanine--tRNA ligase subunit alpha
Schistosoma japonicum Sjp_0080790   ko:K01889 phenylalanyl-tRNA synthetase alpha chain [EC6.1.1.20A], putative
Schistosoma mansoni Smp_101240   phenylalanyl-tRNA synthetase subunit alpha
Schmidtea mediterranea mk4.039025.03  
Trypanosoma brucei gambiense Tbg972.11.15780   phenylalanyl-tRNA synthetase alpha chain, putative
Trypanosoma brucei Tb927.11.14120   phenylalanyl-tRNA synthetase alpha chain, putative
Trypanosoma congolense TcIL3000.11.14420   phenylalanyl-tRNA synthetase alpha chain, putative
Trypanosoma cruzi TcCLB.511727.140   phenylalanyl-tRNA synthetase alpha chain, putative
Toxoplasma gondii TGME49_234505   phenylalanyl-tRNA synthetase alpha chain A, putative
Treponema pallidum TP0973   phenylalanyl-tRNA synthetase subunit alpha
Theileria parva TP04_0622   phenylalanyl-tRNA synthetase alpha chain, putative
Trichomonas vaginalis TVAG_136640   phenylalanyl-tRNA synthetase alpha chain, putative
Wolbachia endosymbiont of Brugia malayi Wbm0087   phenylalanyl-tRNA synthetase subunit alpha

Essentiality

PF3D7_0109800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu1678 Mycobacterium tuberculosis essential nmpdr
Tb11.01.5710 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.5710 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.5710 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.5710 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1714 Escherichia coli essential goodall
CELE_T08B2.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_T08B2.9 Caenorhabditis elegans larval arrest wormbase
CELE_T08B2.9 Caenorhabditis elegans slow growth wormbase
CELE_T08B2.9 Caenorhabditis elegans sterile wormbase
CELE_T08B2.9 Caenorhabditis elegans terminal arrest variable wormbase
YFL022C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0203800 Plasmodium berghei Essential plasmo
TGME49_234505 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

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

Druggability index (range: 0 to 1): 0.6

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
Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) Phenylalanyl-tRNA synthetase alpha chain Compounds References
Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) Type-2 restriction enzyme HindIII Compounds References
Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) Phenylalanyl-tRNA synthetase alpha chain Compounds References
Streptococcus pyogenes serotype M18 (strain MGAS8232) Phenylalanyl-tRNA synthetase alpha chain Compounds References
Staphylococcus aureus Phenylalanyl-tRNA synthetase alpha chain 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.

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Gene identifier PF3D7_0109800 (Plasmodium falciparum), phenylalanine--tRNA ligase alpha subunit
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