Detailed view for PF3D7_0420200

Basic information

TDR Targets ID: 3974
Plasmodium falciparum, holo-[acyl-carrier-protein] synthase, putative

Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.6065 | Length (AA): 594 | MW (Da): 70386 | 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

PF01648   4'-phosphopantetheinyl transferase superfamily
PF02130   Uncharacterized protein family UPF0054

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0008897   holo-[acyl-carrier-protein] synthase activity  
GO:0004222   metalloendopeptidase activity  
GO:0000287   magnesium ion binding  
GO:0009059   macromolecule biosynthetic process  
GO:0006633   fatty acid biosynthetic process  
GO:0006364   rRNA processing  

Metabolic Pathways

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
435 593 2bdd (A) 21 181 75.00 0 1 0.93 -0.95
316 422 1oz9 (A) 17 145 27.00 0.29 1 0.431035 -0.89
316 422 1oz9 (A) 17 145 28.00 0.18 0.99 0.451735 -1.01
435 593 2qg8 (A) 21 181 74.00 0 1 0.958277 -0.19

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:

  • 2BDD:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 2QG8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Female Gametocyte. Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Sporozoite. Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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, gametocyte, Oocyst, Ring, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile intra-erythrocytic - 16 hs. Otto TD
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_130884)

Species Accession Gene Product
Candida albicans CaO19.12275   similar to holo-(acyl carrier protein) synthase
Candida albicans CaO19.4812   similar to holo-(acyl carrier protein) synthase
Chlamydia trachomatis CT_100   holo [acyl-carrier protein] synthase
Dictyostelium discoideum DDB_G0275923   hypothetical protein
Escherichia coli b2563   holo-[acyl-carrier-protein] synthase 1
Mycobacterium leprae ML1192   HOLO-[ACYL-CARRIER PROTEIN] SYNTHASE ACPS (HOLO-ACP SYNTHASE) (CoA:APO-[ACP]PANTETHEINEPHOSPHOTRANSFERASE) (CoA:APO-[ACYL-CARRIE
Mycobacterium tuberculosis Rv2523c   holo-[acyl-carrier protein] synthase AcpS (holo-ACP synthase) (CoA:APO-[ACP]pantetheinephosphotransferase) (CoA:APO-[acyl-carrie
Mycobacterium ulcerans MUL_3817   4'-phosphopantetheinyl transferase
Plasmodium berghei PBANKA_0521600   holo-[acyl-carrier-protein] synthase, putative
Plasmodium falciparum PF3D7_0420200   holo-[acyl-carrier-protein] synthase, putative
Plasmodium knowlesi PKNH_0513000   holo-[acyl-carrier-protein] synthase, putative
Plasmodium vivax PVX_090105   holo-[acyl-carrier-protein] synthase, putative
Plasmodium yoelii PY06285   hypothetical protein
Saccharomyces cerevisiae YPL148C   Ppt2p
Treponema pallidum TP0828   4'-phosphopantetheinyl transferase
Wolbachia endosymbiont of Brugia malayi Wbm0078   4'-phosphopantetheinyl transferase

Essentiality

PF3D7_0420200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu2566 Mycobacterium tuberculosis non-essential nmpdr
b2563 Escherichia coli essential goodall
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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.

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): 0.8


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
Bacillus subtilis (strain 168) Holo-[acyl-carrieir-protein] synthase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets

Obtained from network model

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.0425 0.5471 0.5
0.0737 0.2711 1
0.0643 0.2706 0.5
0.0911 0.2789 1
0.0737 0.2711 1
0.0601 1 0.5
0.1689 0.2787 1
0.1061 0.2775 1
0.0515 0.2566 1
0.0438 0.2746 1
0.0115 0.9233 0.5
0.0737 0.2711 1
0.0888 1 0.5
0.0261 0.2692 1
0.075 1 0.5
0.12 0.5917 1
0.0399 0.2625 0.5
0.0493 0.2746 1
0.0405 0.2749 1
0.0855 1 0.5
0.0431 0.2751 1
0.0455 0.2599 0.5
0.0983 1 0.5
0.035 0.2568 0.5
0.026 0.2727 0.5
0.0742 1 1
0.0362 0.2714 0.5
0.0655 0.2774 1
0.1742 0.2642 0.5
0.065 0.2755 1
0.0162 0.2535 0.5
0.0742 1 1
0.1231 0.2907 1
0.0413 0.274 1
0.0975 1 0.5
0.0449 0.2733 0.5
0.0142 0.2519 0.5
0.0291 0.2744 1
0.0568 0.2767 1
0.0357 0.2522 0.5
0.0213 0.2662 1
0.0779 0.2768 1
0.0611 0.252 0.5
0.0164 0.2552 0.5
0.0507 0.2689 1
0.0432 0.2739 1
0.0124 0.7144 0.5
0.014 0.2522 0.5
0.1365 0.2796 1
0.0658 0.276 1
0.0682 0.2763 1
0.1231 0.2907 1
0.0641 0.2776 1
0.0365 0.2716 1
0.0115 0.299 1
0.0115 0.3389 1
0.0839 1 0.5
0.0578 0.2782 1
0.0606 1 1
0.0143 0.2825 1
0.0424 0.2611 0.5
0.012 0.3076 0.5
0.0737 0.2711 1
0.0213 0.2662 1
0.0759 0.2669 0.5
0.0118 0.2766 0.5
0.099 1 1
0.0503 0.2767 1
0.0737 0.2711 1
0.0354 0.257 0.5
0.036 0.2735 1
0.0126 0.282 0.5
0.0092 0.2535 1
0.068 0.2728 1
0.1244 0.2553 0.5
0.0217 0.2706 1
0.035 0.2568 0.5
0.0338 0.2723 1
0.1417 0.2794 1
0.0588 0.2758 1
0.0539 0.2755 1
0.0118 0.2766 0.5
0.0705 0.2514 0.5
0.0304 0.2502 0.5
0.0554 0.2656 0.5
0.0373 0.2742 1
0.0882 0.6798 1
0.1055 0.2758 1
0.0431 0.2735 1
0.0425 0.2674 0.5
0.1689 0.2787 1
0.0125 0.2562 1
0.0115 0.3389 1
0.0515 0.2566 1
0.017 0.268 1
0.0502 0.2765 1
0.0115 0.9224 0.5
0.025 1 0.5
0.0291 0.2744 1
0.0544 0.2759 1
0.0116 0.2512 1
0.0518 0.2757 1
0.0434 0.2614 0.5
0.0143 1 0.5
0.0028 0.2615 0.5
0.0356 0.2696 1
0.0882 0.6798 1
0.078 0.2764 1
0.0289 0.2607 0.5
0.0973 0.612 1
0.0143 0.8135 1
0.1202 0.2789 1
0.0292 0.2741 1
0.091 0.2667 0.5
0.0095 0.2553 0.5
0.0873 0.2791 1
0.0609 0.2789 1
0.0772 0.2751 1
0.0532 0.2698 0.5
0.0261 0.2692 1
0.0381 0.2753 1
0.0094 0.2563 1
0.0139 0.2622 1
0.0608 0.2757 1
0.037 0.7338 1
0.0375 0.273 1
0.0477 0.2601 0.5
0.0471 0.2655 0.5
0.0793 0.2686 0.5
0.037 0.7338 1
0.0119 1 0.5

Assayability

Assay information

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Plasmodium falciparum ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    PF3D7_0420200 purified protein BRENDA A protein with this EC number or name or sequence has been purified from Plasmodium falciparum ( 1 )

Bibliographic References

No literature references available for this target.

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Gene identifier PF3D7_0420200 (Plasmodium falciparum), holo-[acyl-carrier-protein] synthase, putative
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