Accuracy and interpretability: The devil and the holy grail. New routes across old boundaries in computational spectroscopy

C Puzzarini, J Bloino, N Tasinato, V Barone - Chemical reviews, 2019 - ACS Publications
The past decade has witnessed an increasing interaction between experiment and theory in
the field of molecular spectroscopy. On the computational side, ongoing developments of …

The challenge of non-covalent interactions: Theory meets experiment for reconciling accuracy and interpretation

C Puzzarini, L Spada, S Alessandrini… - Journal of Physics …, 2020 - iopscience.iop.org
In the past decade, many gas-phase spectroscopic investigations have focused on the
understanding of the nature of weak interactions in model systems. Despite the fact that non …

Mechanism and dynamics of photodecarboxylation catalyzed by lactate monooxygenase

X Li, CG Page, L Zanetti-Polzi, AP Kalra… - Journal of the …, 2023 - ACS Publications
Photoenzymes are a rare class of biocatalysts that use light to facilitate chemical reactions.
Many of these catalysts utilize a flavin cofactor to absorb light, suggesting that other …

Origins of the pH-Responsive photoluminescence of peptide-functionalized Au nanoclusters

L Zanetti-Polzi, P Charchar, I Yarovsky, S Corni - ACS nano, 2022 - ACS Publications
Ultrasmall peptide-protected gold nanoclusters are a promising class of bioresponsive
material exhibiting pH-sensitive photoluminescence. We present a theoretical insight into …

Integration of quantum chemistry, statistical mechanics, and artificial intelligence for computational spectroscopy: The UV–vis spectrum of TEMPO radical in different …

E Falbo, M Fusè, F Lazzari, G Mancini… - Journal of Chemical …, 2022 - ACS Publications
The ongoing integration of quantum chemistry, statistical mechanics, and artificial
intelligence is paving the route toward more effective and accurate strategies for the …

Exploiting machine learning to efficiently predict multidimensional optical spectra in complex environments

MS Chen, TJ Zuehlsdorff, T Morawietz… - The Journal of …, 2020 - ACS Publications
The excited-state dynamics of chromophores in complex environments determine a range of
vital biological and energy capture processes. Time-resolved, multidimensional optical …

PyMM: An open-source python program for QM/MM simulations based on the perturbed matrix method

CG Chen, AN Nardi, A Amadei… - Journal of Chemical …, 2022 - ACS Publications
Quantum mechanical/molecular mechanics (QM/MM) methods are important tools in
molecular modeling as they are able to couple an extended phase space sampling with an …

Integration of theory, simulation, artificial intelligence and virtual reality: a four-pillar approach for reconciling accuracy and interpretability in computational …

V Barone, C Puzzarini, G Mancini - Physical Chemistry Chemical …, 2021 - pubs.rsc.org
The established pillars of computational spectroscopy are theory and computer based
simulations. Recently, artificial intelligence and virtual reality are becoming the third and …

Tuning proton transfer thermodynamics in SARS-CoV-2 main protease: implications for catalysis and inhibitor design

L Zanetti-Polzi, MD Smith, C Chipot… - The journal of …, 2021 - ACS Publications
The catalytic reaction in SARS-CoV-2 main protease is activated by a proton transfer (PT)
from Cys145 to His41. The same PT is likely also required for the covalent binding of some …

Benchmarking aspects of ab initio fragment models for accurate excimer potential energy surfaces

B Barcza, ÁB Szirmai, A Tajti, JF Stanton… - Journal of Chemical …, 2023 - ACS Publications
While Coupled-Cluster methods have been proven to provide an accurate description of
excited electronic states, the scaling of the computational costs with the system size limits …