Detailed view for PF3D7_0215000

Basic information

TDR Targets ID: 3413
Plasmodium falciparum, acyl-CoA synthetase
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 4.9097 | Length (AA): 885 | MW (Da): 102147 | Paralog Number: 0

Signal peptide: Y | 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

PF00501   AMP-binding enzyme

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0015909   long-chain fatty acid transport  
GO:0004467   long-chain-fatty-acid-CoA ligase activity  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  
GO:0006631   fatty acid metabolic process  

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
260 875 2d1s (A) 14 545 18.00 0 1 0.57 0.45
438 798 2d1s (A) 186 506 26.00 0.000000001 0.99 0.6 -0.04
42 76 2en4 (A) 5 39 14.00 0.034 0.02 0.051348 0.97
265 869 1amu (A) 19 525 16.00 0 1 0.565516 1.08
309 808 3g7s (A) 49 522 21.00 0 1 0.629872 0.85
349 429 4tql (A) 129 210 40.00 0.84 0.08 0.341925 0.41
350 414 1w9r (A) 6 67 35.00 0.99 0.23 0.413846 -0.14

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 Sporozoite, Female Gametocyte, Male Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 16 hs, sporozoite, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite. Otto TD PlasmoDB
Show/Hide expression data references
  • 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.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_129177)

Species Accession Gene Product
Arabidopsis thaliana AT2G17650   putative AMP-binding protein
Arabidopsis thaliana AT1G20560   acyl activating enzyme 1
Arabidopsis thaliana AT1G75960   AMP-dependent synthetase and ligase family protein
Arabidopsis thaliana AT1G77240   acyl-activating enzyme 2
Arabidopsis thaliana AT5G16340   probable acyl-activating enzyme 6
Arabidopsis thaliana AT1G21540   probable acyl-activating enzyme 9
Arabidopsis thaliana AT3G16910   Acetate/butyrate--CoA ligase AAE7
Arabidopsis thaliana AT1G68270   probable acyl-activating enzyme 22
Arabidopsis thaliana AT1G65890   acyl activating enzyme 12
Arabidopsis thaliana AT1G21530   probable acyl-activating enzyme 10
Arabidopsis thaliana AT5G16370   acyl activating enzyme 5
Arabidopsis thaliana AT1G66120   butyrate--CoA ligase AAE11
Arabidopsis thaliana AT1G65880   benzoate-CoA ligase
Caenorhabditis elegans CELE_F28F8.2   Protein ACS-2
Mycobacterium tuberculosis Rv1058   Probable medium chain fatty-acid-CoA ligase FadD14 (fatty-acid-CoA synthetase) (fatty-acid-CoA synthase)
Mycobacterium ulcerans MUL_0229   long-chain-fatty-acid--CoA ligase
Oryza sativa 4331500   Os03g0130100
Oryza sativa 4331525   Os03g0133600
Oryza sativa 4332593   Os03g0305100
Oryza sativa 4347816   Os09g0555800
Oryza sativa 4326487   Os01g0342900
Oryza sativa 4328101   Os02g0119200
Oryza sativa 4332592   Os03g0305000
Oryza sativa 4337383   Os04g0674700
Oryza sativa 4331524   Os03g0133500
Plasmodium falciparum PF3D7_0215000   acyl-CoA synthetase

Essentiality

PF3D7_0215000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu1075 Mycobacterium tuberculosis non-essential nmpdr
CELE_F28F8.2 Caenorhabditis elegans embryonic arrest wormbase
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • 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

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): 0.3

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

  • Assay for Acyl Coenzyme A Synthetase (6.2.1.3 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.
  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Plasmodium knowlesi ( 1 )

Reagent availability

No reagent availability information for this target.

Bibliographic References

3 literature references were collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier PF3D7_0215000 (Plasmodium falciparum), acyl-CoA synthetase
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