Radical Dimerization in a Plastic Organic Crystal Leads to Structural and Magnetic Bistability with Wide Thermal Hysteresis.

The nitroxyl radical 1-methyl-2-azaadamantane N-oxyl (Me-AZADO) exhibits magnetic bistability arising from a radical/dimer interconversion. The transition from the rotationally disordered paramagnetic plastic crystal, Me-AZADO, to the ordered diamagnetic crystalline phase, (Me-AZADO)2, has been conclusively demonstrated by crystal structure determination from high-resolution powder diffraction data and by solid-state NMR spectroscopy. The phase change is characterized by a wide thermal hysteresis with high sensitivity to even small applied pressures. The molecular dynamics of the phase transition from the plastic crystal to the conventional crystalline phase has been tracked by solid-state (1H and 13C) NMR and EPR spectroscopies.

Modeling core-level excitations with variationally optimized reduced-density matrices and the extended random phase approximation.

The information contained within ground-state one- and two-electron reduced-density matrices (RDMs) can be used to compute wave functions and energies for electronically excited states through the extended random phase approximation (ERPA). The ERPA is an appealing framework for describing excitations out of states obtained via the variational optimization of the two-electron RDM (2-RDM), as the variational 2-RDM (v2RDM) approach itself can only be used to describe the lowest-energy state of a given spin symmetry. The utility of the ERPA for predicting near-edge features relevant to x-ray absorption spectroscopy is assessed for the case that the 2-RDM is obtained from a ground-state v2RDM-driven complete active space self-consistent field (CASSCF) computation. A class of killer conditions for the CASSCF-specific ERPA excitation operator is derived, and it is demonstrated that a reliable description of core-level excitations requires an excitation operator that fulfills these conditions; the core-valence separation (CVS) scheme yields such an operator. Absolute excitation energies evaluated within the CASSCF/CVS-ERPA framework are slightly more accurate than those obtained from the usual random phase approximation (RPA), but the CVS-ERPA is not more accurate than RPA for predicting the relative positions of near-edge features. Nonetheless, CVS-ERPA is established as a reasonable starting point for the treatment of core-level excitations using variationally optimized 2-RDMs.

Hit Expansion of a Noncovalent SARS-CoV-2 Main Protease Inhibitor.

Inhibition of the SARS-CoV-2 main protease (Mpro) is a major focus of drug discovery efforts against COVID-19. Here we report a hit expansion of non-covalent inhibitors of Mpro. Starting from a recently discovered scaffold (The COVID Moonshot Consortium. Open Science Discovery of Oral Non-Covalent SARS-CoV-2 Main Protease Inhibitor Therapeutics. bioRxiv 2020.10.29.339317) represented by an isoquinoline series, we searched a database of over a billion compounds using a cheminformatics molecular fingerprinting approach. We identified and tested 48 compounds in enzyme inhibition assays, of which 21 exhibited inhibitory activity above 50% at 20 µM. Among these, four compounds with IC50 values around 1 µM were found. Interestingly, despite the large search space, the isoquinolone motif was conserved in each of these four strongest binders. Room-temperature X-ray structures of co-crystallized protein-inhibitor complexes were determined up to 1.9 Å resolution for two of these compounds as well as one of the stronger inhibitors in the original isoquinoline series, revealing essential interactions with the binding site and water molecules. Molecular dynamics simulations and quantum chemical calculations further elucidate the binding interactions as well as electrostatic effects on ligand binding. The results help explain the strength of this new non-covalent scaffold for Mpro inhibition and inform lead optimization efforts for this series, while demonstrating the effectiveness of a high-throughput computational approach to expanding a pharmacophore library.

Reduced Density Matrix-Driven Complete Active Apace Self-Consistent Field Corrected for Dynamic Correlation from the Adiabatic Connection.

The recently proposed multireference adiabatic connection (AC) formalism [Pernal, Phys. Rev. Lett. 120, 013001 (2018)] is applied to recover dynamic electron correlation effects lacking in variational two-electron reduced density matrix (v2RDM)-driven complete active space self-consistent field theory (CASSCF). The AC approach is validated by computing potential energy curves for the dissociation of molecular nitrogen and the symmetric double dissociation of H2O while enforcing two sets of approximate N-representability conditions in the underlying v2RDM-driven CASSCF calculations (either two-particle or two-particle plus partial three-particle conditions). The AC yields smaller absolute errors than second-order N-electron perturbation theory (NEVPT2) at all molecular geometries for both sets of the N-representability conditions considered. The efficacy of the approach for thermochemistry is also assessed for a set of 31 small-molecule reactions. When imposing partial three-particle N-representability conditions, mean and maximum unsigned errors in reaction energies from the AC are superior to those from NEVPT2.

Heterogeneous CPU + GPU Algorithm for Variational Two-Electron Reduced-Density Matrix-Driven Complete Active-Space Self-Consistent Field Theory.

We present a heterogeneous central processing unit (CPU) + graphical processing unit (GPU) algorithm for the direct variational optimization of the two-electron reduced-density matrix (2RDM) under two-particle N-representability conditions. This variational 2RDM (v2RDM) approach is the driver for a polynomially scaling approximation to configuration-interaction-driven complete active-space self-consistent field (CASSCF) theory. For v2RDM-based CASSCF computations involving an active space consisting of 50 electrons in 50 orbitals, we observe a speedup of a factor of 3.7 when the code is executed on a combination of an NVIDIA TITAN V GPU and an Intel Core i7-6850k CPU, relative to the case when the code is executed on the CPU alone. We use this GPU-accelerated v2RDM-CASSCF algorithm to explore the electronic structure of the 3,k-circumacene and 3,k-periacene series (k = 2-7) and compare indicators of polyradical character in the lowest-energy singlet states to those observed for oligoacene molecules. The singlet states in larger circumacene and periacene molecules display the same polyradical characteristics observed in oligoacenes, with the onset of this behavior occurring at smallest k for periacenes, followed by the circumacenes and then the oligoacenes. However, the unpaired electron density that accumulates along the zigzag edge of the circumacenes is slightly less than that which accumulates in the oligoacenes, while periacenes clearly exhibit the greatest buildup of unpaired electron density in this region.

Analytic Energy Gradients for Variational Two-Electron Reduced-Density-Matrix-Driven Complete Active Space Self-Consistent Field Theory.

Analytic energy gradients are presented for a variational two-electron reduced-density-matrix (2-RDM)-driven complete active space self-consistent field (CASSCF) method. The active-space 2-RDM is determined using a semidefinite programing (SDP) algorithm built upon an augmented Lagrangian formalism. Expressions for analytic gradients are simplified by the fact that the Lagrangian is stationary with respect to variations in both the primal and the dual solutions to the SDP problem. Orbital response contributions to the gradient are identical to those that arise in conventional CASSCF methods in which the electronic structure of the active space is described by a full configuration interaction (CI) wave function. We explore the relative performance of variational 2-RDM (v2RDM)- and CI-driven CASSCF for the equilibrium geometries of 20 small molecules. When enforcing two-particle N-representability conditions, full-valence v2RDM-CASSCF-optimized bond lengths display a mean unsigned error of 0.0060 Å and a maximum unsigned error of 0.0265 Å, relative to those obtained from full-valence CI-CASSCF. When enforcing partial three-particle N-representability conditions, the mean and maximum unsigned errors are reduced to only 0.0006 and 0.0054 Å, respectively. For these same molecules, full-valence v2RDM-CASSCF bond lengths computed in the cc-pVQZ basis set deviate from experimentally determined ones on average by 0.017 and 0.011 Å when enforcing two- and three-particle conditions, respectively, whereas CI-CASSCF displays an average deviation of 0.010 Å. The v2RDM-CASSCF approach with two-particle conditions is also applied to the equilibrium geometry of pentacene; optimized bond lengths deviate from those derived from experiment, on average, by 0.015 Å when using a cc-pVDZ basis set and a (22e,22o) active space.