Evidence map›Paper›PMID 20572683›Full record

ArticleThe Journal of chemical physics2010

Assessing the accuracy of approximate treatments of ion hydration based on primitive quasichemical theory.

Benoît Roux, Haibo Yu

Abstract read
In one paragraph

Article in The Journal of chemical physics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
–field-weighted citation impact
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

10 citing papers in PubMed.

  1. Article
  2. The Role of Architectural Forces in Ion Selectivity.Advances in experimental medicine and biology · 2026
    Article
  3. Article
  4. Solvation Free Energies from Machine Learning Molecular Dynamics.Journal of chemical theory and computation · 2024
    Article
  5. Protonated Hexaazamacrocycles as Selective K(+) Receptors.Journal of the American Society for Mass Spectrometry · 2015
    Article
  6. Review
  7. Ion binding sites and their representations by reduced models.The journal of physical chemistry. B · 2012
    Article
  8. Article
  9. Ion selectivity in channels and transporters.The Journal of general physiology · 2011
    Review
  10. Multiple Scales in the Simulation of Ion Channels and Proteins.The journal of physical chemistry. C, Nanomaterials and interfaces · 2010
    Article
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

2 authors.

Benoît RouxDepartment of Biochemistry and Molecular Biology, University of Chicago, Chicago, Illinois 60637, USA. roux@uchicago.edu
Haibo Yu

Funding

Computational Studies of Ion Channels - Resubmission 01R01GM062342 · NIGMS · WEILL MEDICAL COLLEGE OF CORNELL UNIV · PI ROUX, BENOIT · 2001 to 2022
$8.7M
NIGMS NIH HHS GM-62342NIGMS NIH HHS R01 GM062342
6 · The paper itself

Abstract

Quasichemical theory (QCT) provides a framework that can be used to partition the influence of the solvent surrounding an ion into near and distant contributions. Within QCT, the solvation properties of the ion are expressed as a sum of configurational integrals comprising only the ion and a small number of solvent molecules. QCT adopts a particularly simple form if it is assumed that the clusters undergo only small thermal fluctuations around a well-defined energy minimum and are affected exclusively in a mean-field sense by the surrounding bulk solvent. The fluctuations can then be integrated out via a simple vibrational analysis, leading to a closed-form expression for the solvation free energy of the ion. This constitutes the primitive form of quasichemical theory (pQCT), which is an approximate mathematical formulation aimed at reproducing the results from the full many-body configurational averages of statistical mechanics. While the results from pQCT from previous applications are reasonable, the accuracy of the approach has not been fully characterized and its range of validity remains unclear. Here, a direct test of pQCT for a set of ion models is carried out by comparing with the results of free energy simulations with explicit solvent. The influence of the distant surrounding bulk on the cluster comprising the ion and the nearest solvent molecule is treated both with a continuum dielectric approximation and with free energy perturbation molecular dynamics simulations with explicit solvent. The analysis shows that pQCT can provide an accurate framework in the case of a small cation such as Li(+). However, the approximation encounters increasing difficulties when applied to larger cations such as Na(+), and particularly for K(+). This suggests that results from pQCT should be interpreted with caution when comparing ions of different sizes.

Indexed as

Models, ChemicalElectronsIonsMetals, AlkaliSolventsThermodynamicsWaterIonsMetals, AlkaliSolventsWater

Identifiers

PMID20572683
PMCPMC2903185

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.