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In this study, we introduce a set of novel computational strategies based on second-order Mo̷ller-Plesset perturbation theory (MP2), enhanced through acceleration techniques, such as the resolution of the identity (RI). These approaches are further refined via spin-component scaling (SCS), following Grimme's methodology, and are specifically calibrated for the quantitatively accurate prediction of weak interaction energiesinteractions that play a critical role in biological systems. Among the developed methods, three variants exhibit outstanding performance, surpassing the accuracy of several state-of-the-art, nondynamical electronic structure techniques. Benchmarking against a comprehensive data set of 274 dimerization energies, computed at the CCSD-(T)/CBS level of theory, reveals that these models deliver quantitatively accurate interaction energies. In particular, the RIJCOSX-SCS-MP2 method, employing uniquely optimized scaling parameters, demonstrates exceptional accuracy (errors below 1 kcal/mol) while maintaining computational efficiency superior to widely used hybrid and meta-GGA density functional approximations (DFAs). This method reliably captures a range of biologically relevant interactions, including π-π stacking between nucleotide base pairs, halogen bonding, and dissociation energy profiles, showcasing its robustness and predictive power. Given its accuracy, efficiency, and versatility, RI-SCS-MP2, RIJK-SCS-MP2, and RIJCOSX-SCS-MP2 emerge as promising and reliable alternatives for modeling weak interactions in complex biological environments.
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http://dx.doi.org/10.1021/acsomega.5c07079 | DOI Listing |
J Sep Sci
September 2025
Department of Analytical Chemistry, Faculty of Science, Palacký University Olomouc, Olomouc, Czech Republic.
The increasing use of engineered nanoparticles (NPs) in consumer and biomedical products has raised concern over their potential accumulation, transformation, and toxicity in biological systems. Accurate analytical methods are essential to detect, characterize, and quantify NPs in complex biological matrices. Inductively coupled plasma mass spectrometry (ICP-MS) has emerged as a leading technique due to its high sensitivity, elemental selectivity, and quantitative capabilities.
View Article and Find Full Text PDFAnal Bioanal Chem
September 2025
School of Artificial Intelligence, Hangzhou Dianzi University, Hangzhou, 310018, China.
The prompt and accurate identification of pathogenic bacteria is crucial for mitigating the transmission of infections. Conventional detection methods face limitations, including lengthy processing, complex sample pretreatment, high instrumentation costs, and insufficient sensitivity for rapid on-site screening. To address these challenges, an aptamer (Apt)-sensor based on functionalized magnetic nanoparticles (MNPs) was developed for detecting Escherichia coli.
View Article and Find Full Text PDFEnviron Health Prev Med
September 2025
Department of Occupational Pneumology, Institute of Industrial Ecological Sciences, University of Occupational and Environmental Health, Japan.
Background: Organic chemicals have been known to cause allergic diseases such as bronchial asthma and hypersensitivity pneumonitis; however, the possibility that they do not cause irreversible pulmonary fibrosis has not been considered. Polyacrylic acid (PAA), an organic chemical, has caused irreversible progressive pulmonary fibrosis in exposed workers, indicating its potential to induce pulmonary inflammation and fibrosis. Although intratracheal instillation studies are commonly used for evaluating lung pathology, traditional methods face challenges with chemical substances, particularly nanoparticles, which tend to aggregate in suspension and prevent uniform pulmonary distribution.
View Article and Find Full Text PDFJ Safety Res
September 2025
MAIC/UniSC Road Safety Research Collaboration, University of the Sunshine Coast, 90 Sippy Downs Dr, Sippy Downs, Queensland 4556, Australia.
Introduction: Drink driving is a dangerous behavior associated with significant road trauma. The ability to estimate one's alcohol plays an important role in the decision to drink and drive. This systematic review aimed to synthesize the evidence regarding what factors are associated with the accuracy of self-estimated blood and breath alcohol concentrations (BAC/BrAC) and discuss relevant implications for drink driving.
View Article and Find Full Text PDFNucleic Acids Res
September 2025
Department of Chemistry and Henry Eyring Center for Cell and Genome Science, University of Utah, Salt Lake City, UT 84112, United States.
Glycine is an important metabolite and cell signal in diverse organisms, yet tools to visualize intracellular glycine dynamics have not been developed. In this study, diverse and bright RNA-based glycine biosensors were developed by fusing the architecturally complex glycine riboswitch with Broccoli class fluorogenic aptamers. The brightest sensor with the highest activation, glyS, and its two-dye ratiometric counterpart, Pepper-glyS, allowed for visualization of a drug-induced accumulation of endogenous glycine in live Escherichia colicells.
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