Evidence map›Paper›PMID 30279319›Full record

ArticleActa crystallographica. Section F, Structural biology communications2018

Re-refinement of Plasmodium falciparum orotidine 5'-monophosphate decarboxylase provides a clearer picture of an important malarial drug target.

Walter R P Novak, Korbin H J West, Lucy M D Kirkman, Gabriel S Brandt

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Acta crystallographica. Section F, Structural biology communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
0.3field-weighted citation impact, top 42% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed, 2 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors at 2 institutions in 1 country.

Walter R P NovakChemistry Department, Wabash College, 301 West Wabash Avenue, Crawfordsville, IN 47933, USA.
Korbin H J WestChemistry Department, Wabash College, 301 West Wabash Avenue, Crawfordsville, IN 47933, USA.
Lucy M D KirkmanChemistry Department, Franklin and Marshall College, PO Box 3003, Lancaster, PA 17604, USA.
Gabriel S BrandtChemistry Department, Franklin and Marshall College, PO Box 3003, Lancaster, PA 17604, USA.
Franklin & Marshall College · USWabash College · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The development of antimalarial drugs remains a public health priority, and the orotidine 5'-monophosphate decarboxylase from Plasmodium falciparum (PfOMPDC) has great potential as a drug target. The crystallization of PfOMPDC with substrate bound represents an important advance for structure-based drug-design efforts [Tokuoka et al. (2008), J. Biochem. 143, 69-78]. The complex of the enzyme bound to the substrate OMP (PDB entry 2za1) would be of particular utility in this regard. However, re-refinement of this structure of the Michaelis complex shows that the bound ligand is the product rather than the substrate. Here, the re-refinement of a set of three structures, the apo enzyme and two versions of the product-bound form (PDB entries 2za1, 2za2 and 2za3), is reported. The improved geometry and fit of these structures to the observed electron density will enhance their utility in antimalarial drug design.

Indexed as

AntimalarialsBinding SitesLigandsModels, MolecularOrotidine-5'-Phosphate DecarboxylasePlasmodium falciparumProtein BindingProtein Conformation, alpha-HelicalProtein Conformation, beta-StrandProtein Interaction Domains and MotifsProtozoan ProteinsSubstrate SpecificityUridine MonophosphateAntimalarialsLigandsOrotidine-5'-Phosphate Decarboxylaseorotidylic acidProtozoan ProteinsUridine MonophosphateMichaelis complexorotidine 5′-monophosphate decarboxylasePlasmodium falciparumre-refinement

Identifiers

PMID30279319
PMCPMC6168774
OpenAlexW2890292707

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.