Simple and Accurate Exchange Energy for Density Functional Theory.

A non-empirical exchange functional based on an interpolation between two limits of electron density, slowly varying limit and asymptotic limit, is proposed. In the slowly varying limit, we follow the study by Kleinman from 1984 which considered the response of a free-electron gas to an external periodic potential, but further assume that the perturbing potential also induces Bragg diffraction of the Fermi electrons. The interpolation function is motivated by the exact exchange functional of a hydrogen atom. Combined with our recently proposed correlation functional, tests on 56 small molecules show that, for the first-row molecules, the exchange-correlation combo predicts the total energies four times more accurately than the presently available Quantum Monte Carlo results. For the second-row molecules, errors of the core electrons exchange energies can be corrected, leading to the most accurate first- and second-row molecular total energy predictions reported to date despite minimal computational efforts. The calculated bond energies, zero point energies, and dipole moments are also presented, which do not outperform other methods.

Communication: Simple and accurate uniform electron gas correlation energy for the full range of densities.

A simple correlation energy functional for the uniform electron gas is derived based on the second-order Moller-Plesset perturbation theory. It can reproduce the known correlation functional in the high-density limit, while in the mid-density range maintaining a good agreement with the near-exact correlation energy of the uniform electron gas to within 2 × 10(-3) hartree. The correlation energy is a function of a density parameter rs and is of the form a*ln(1+brs+brs (2)). The constants "a" and "b" are derived from the known correlation functional in the high-density limit. Comparisons to the Ceperley-Alder's near-exact Quantum Monte Carlo results and the Vosko-Wilk-Nusair correlation functional are also reported.

Structure, electronic configuration, and Mössbauer spectral parameters of an antiferromagnetic Fe2-peroxo intermediate of methane monooxygenase.

Determining structures of reaction intermediates is crucial for understanding catalytic cycles of metalloenzymes. However, short life times or experimental difficulties have prevented obtaining such structures for many enzymes of interest. We report geometric and electronic structures of a peroxo intermediate in the catalytic cycle of methane monooxygenase hydroxylase (MMOH) for which there is no crystallographic characterization. The structure was predicted via spin density functional theory using (57)Fe Mössbauer spectral parameters as a reference. Computed isomer shifts (δ(Fe) = +0.68, +0.66 mm s(-1)) and quadrupole splittings (ΔE(Q) = -1.49, -1.48 mm s(-1)) for the predicted structure are in excellent agreement with experimental values of a peroxo MMOH intermediate. Predicted peroxo to iron charge transfer bands agree with UV-Vis spectroscopy. Peroxide binds in a cis µ-1,2 fashion and plays a dominant role in the active site's electronic structure. This induces a ferromagnetic to antiferromagnetic transition of the diiron core weakening the O-O bond in preparation for cleavage in subsequent steps of the catalytic cycle.

Terminal modifications of norovirus P domain resulted in a new type of subviral particles, the small P particles.

The protruding (P) domain of norovirus VP1 is responsible for immune recognition and host receptor interaction. Our previous studies have demonstrated that a modification of the ends of the P domain affects the conformation and/or function of the P protein. An expression of the P domain with or without the hinge, or with an additional cysteine at either ends of the P protein resulted in P dimers and/or P particles. Here we report a new type of subviral particle, the small P particles, through a further modification, either an addition of the flag tag or a change of the arginine cluster, at the C-terminus of the cysteine-containing P domain. Gel filtration and cryo-EM studies showed that the small P particles are tetrahedrons formed by 6 P dimers or 12 P monomers that is half-size of the P particles. Fitting of the crystal structure of the P domain into the cryo-EM density map of the particle indicated similar conformations of the P dimers as those in P particles. The small P particles bind human HBGAs and are antigenically reactive similar to their parental VLPs and P particles. These data suggest that the C-terminus of the P domain is an important factor in the formation of the P particles. Further elucidation of the mechanism of these modifications in the P particle formation would be important in structure biology and morphogenesis of noroviruses. The small P particles may also be a useful alternative in study of norovirus-host interaction and vaccine development for noroviruses.

Noroviral P particle: structure, function and applications in virus-host interaction.

Noroviruses are an important cause of epidemic acute gastroenteritis and the viruses recognize human histo-blood group antigens (HBGAs) as receptors. The protruding (P) domain of noroviral capsid, the receptor-binding domain, forms subviral particles in vitro that retain the receptor-binding function. In this study we characterized the structure and HBGA-binding function of the P particle. Structure reconstruction using cryo-EM showed that the P particles are comprised of 12 P dimers that are organized in octahedral symmetry. The dimeric packing of the proteins in the P particles is similar to that in the norovirus capsid, in which the P2 subdomain with the receptor-binding interface is located at the outermost surface of the P particle. The P particles are immunogenic and reveal similar antigenic and HBGA-binding profiles with their parental virus-like particle, further confirming the shared surface structures between the two types of particles. The P particles are easily produced in E. coli and yeast and are stable, which are potentially useful for a broad application including vaccine development against noroviruses.

A direct method for locating minimum-energy crossing points (MECPs) in spin-forbidden transitions and nonadiabatic reactions.

An efficient computational method for locating minimum-energy crossing points (MECPs) between potential-energy surfaces in spin-crossover transitions and nonadiabatic spin-forbidden (bio)chemical reactions is introduced. The method has been tested on the phenyl cation and the computed MECP associated with its radiationless singlet-triplet spin crossover is in good agreement with available data. However, the convergence behavior of the present method is significantly more efficient than some alternative methods which allows us to study nonadiabatic processes in larger systems such as spin crossover in metal-containing compounds. The convergence rate of the method obeys a fast logarithmic law which has been verified on the phenyl cation. As an application of this new methodology, the MECPs of the ferrous complex [Fe(ptz)(6)](BF(4))(2), which exhibits light-induced excited spin state trapping, have been computed to identify their geometric and energetic parameters during spin crossover. Our calculations, in conjunction with spin-unrestricted density-functional calculations, show that the transition from the singlet ground state to a triplet intermediate and to the quintet metastable state of [Fe(ptz)(6)](BF(4))(2) is accompanied by unusually large bond-length elongations of the axial ligands ( approximately 0.26 and 0.23 A, respectively). Our results are consistent with crystallographic data available for the metastable quintet but also predict new structural and energetic information about the triplet intermediate and at the MECPs which is currently not available from experiment.