"On-the-fly" Crystal : How to reliably and automatically characterize and construct potential energy surfaces.

In this work, the Crystal  code, developed previously by the authors to find "holes" as well as legitimate transition states in existing potential energy surface (PES) functions [JPC Lett. 11, 6468 (2020)], is retooled to perform on-the-fly "direct dynamics"-type PES explorations, as well as automatic construction of new PES functions. In all of these contexts, the chief advantage of Crystal  over other methods is its ability to globally map the PES, thereby determining the most relevant regions of configuration space quickly and reliably-even when the dimensionality is rather large. Here, Crystal  is used to generate a uniformly spaced grid of density functional theory (DFT) or ab initio points, truncated over the relevant regions, which can then be used to either: (a) hone in precisely on PES features such as minima and transition states, or; (b) create a new PES function automatically, via interpolation. Proof of concept is demonstrated via application to three molecular systems: water (H 2 O), (reduced-dimensional) methane (CH 4 ), and methylene imine (CH 2 NH).

Development of Parallel On-the-Fly Crystal Algorithm for Global Exploration of Conical Intersection Seam Space.

Conical intersection (CI) seams are configuration spaces of a molecular system where two or more (spin) adiabatic electronic states are degenerate in energy. They play essential roles in photochemistry because nonradiative decays often occur near the minima of the seam, i.e., the minimum energy CIs (MECIs). Thus, it is important to explore the CI seams and discover the MECIs. Although various approaches exist for CI seam exploration, most of them are local in nature, requiring reasonable initial guesses of geometries and nuclear gradients during the search. Global search algorithms, on the other hand, are powerful because they can fully sample the configurational space and locate important MECIs missed by local algorithms. However, global algorithms are often computationally expensive for large systems due to their poor scalability with respect to the number of degrees of freedom. To overcome this challenge, we develop the parallel on-the-fly Crystal algorithm to globally explore the CI seam space, taking advantage of its superior scaling behavior. Specifically, Crystal is coupled with on-the-fly evaluations of the excited and ground state energies using multireference electronic structure methods. Meanwhile, the algorithm is parallelized to further boost its computational efficiency. The effectiveness of this new algorithm is tested for three types of molecular photoswitches of significant importance in material and biomedical sciences: photostatin (PST), stilbene, and butadiene. A rudimentary implementation of the algorithm is applied to PST and stilbene, resulting in the discovery of all previously identified MECIs and several new ones. A refined version of the algorithm, combined with a systematic clustering technique, is applied to butadiene, resulting in the identification of an unprecedented number of energetically accessible MECIs. The results demonstrate that the parallel on-the-fly Crystal algorithm is a powerful tool for automated global CI seam exploration.

Nanoparticle-mediated co-delivery of inflammasome inhibitors provides protection against sepsis.

The NLRP3 inflammasome, a multiprotein complex responsible for triggering the release of pro-inflammatory cytokines, plays a crucial role in inducing the inflammatory response associated with sepsis. While small molecule inhibitors of the NLRP3 inflammasome have been investigated for sepsis management, delivering NLRP3 inhibitors has been accompanied by several challenges, primarily related to the drug formulation, delivery route, stability, and toxicity. Many existing inflammasome inhibitors either show higher liver toxicity or require a high dosage to efficiently impede the inflammasome complex assembly. Moreover, the potential synergistic effects of combining multiple inflammasome inhibitors in sepsis therapy remain largely unexplored. Therefore, a rational approach is essential for presenting the potential administration of NLRP3 small molecule inhibitors to inhibit NLRP3 inflammasome activation effectively. In this context, we present a lipid nanoparticle-based dual-drug delivery system loaded with MCC 950 and disulfiram, demonstrating markedly higher efficiency compared to an equivalent amount of free-drug combinations and individual drug nanoparticles in vitro. This combination therapy substantially improved the in vivo survival rate of mice for LPS-induced septic peritonitis. Additionally, the synergistic approach illustrated a significant reduction in the expression of active caspase-1 as well as IL-1ß inhibition integral components in the NLRP3 pathway. This study underscores the importance of integrating combination therapies facilitated by nanoparticle delivery to address the limitations of small molecule inflammasome inhibitors.